Serine/threonine-protein kinase PLK1
Homo sapiens
State in the Current Structure
| Assembly | Oligomeric State | Construct | Mutations and Modifications | Ligands, Ions and Associated Components | Method and Experimental Conditions | Structure Quality |
|---|---|---|---|---|---|---|
| 1 | Protein heterocomplex Heteromer Protein × 2 PDB declaration: dimeric（2） Consistent with protein copy count | Chain A； UniProt 371–603 | Fragment：POLO box domain residues 371-603 | Phosphopeptide macrocycle 3C × 1 | X-RAY DIFFRACTION X-ray crystallization conditions：VAPOR DIFFUSION, HANGING DROP；pH 8；291 K；Frozen stocks of protein at 37 mg/mL in 10 mM TRIS pH8, 0.5 M NaCl, 10 mM DTT were thawed and diluted to 10 mg/ml with the same buffer. Complexes with each of three macrocycle compounds (3b, 3c and 4b) were prepared by adding 100 mM stocks of the macrocycle in DMSO directly to the diluted protein to achieve a final concentration of 1 mM. Crystals were grown by hanging drop vapor diffusion, with drops made by mixing equal volumes of protein-macrocycle complex and well solution containing 2-6% PEG-3350. Crystals were cryo-protected by quickly dipping in a solution of 37.5% ethylene glycol in well solution and frozen in liquid nitrogen | Resolution 1.43 Å R-free 0.173 |
Other States of the Same Protein in the Database
Each row is a biological assembly of the same UniProt protein in another PDB entry. The “Difference from current entry” column identifies evidence-level differences; no tag means the currently parsed fields agree.
| Other PDB | Difference from Current Entry 4X9V | Assembly / Oligomeric State | Construct | Mutations and Modifications | Ligands, Ions and Non-polymers | Method and Experimental Conditions | Structure Quality |
|---|---|---|---|---|---|---|---|
| 1Q4K The polo-box domain of Plk1 in complex with a phospho-peptide Deposited 2003-08-04 | Different construct Different mutation/modification Different experimental conditions Different structure-quality metrics | Assembly 1 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric |
Chain B
345–603（259 aa）
Fragment：Polo box domain of human Plk1
|
Mutation：residues 345-603 | No recorded non-water small molecule |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, SITTING DROP；pH 6.5；293 K；PEG 20000, MES, pH 6.5, VAPOR DIFFUSION, SITTING DROP, temperature 293K
|
Resolution 2.30 Å R-free 0.312 |
| 1Q4K The polo-box domain of Plk1 in complex with a phospho-peptide Deposited 2003-08-04 | Different construct Different mutation/modification Different experimental conditions Different structure-quality metrics | Assembly 2 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric |
Chain A
345–603（259 aa）
Fragment：Polo box domain of human Plk1
|
Mutation：residues 345-603 | No recorded non-water small molecule |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, SITTING DROP；pH 6.5；293 K；PEG 20000, MES, pH 6.5, VAPOR DIFFUSION, SITTING DROP, temperature 293K
|
Resolution 2.30 Å R-free 0.312 |
| 1Q4K The polo-box domain of Plk1 in complex with a phospho-peptide Deposited 2003-08-04 | Different construct Different mutation/modification Different experimental conditions Different structure-quality metrics | Assembly 3 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric |
Chain C
345–603（259 aa）
Fragment：Polo box domain of human Plk1
|
Mutation：residues 345-603 | No recorded non-water small molecule |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, SITTING DROP；pH 6.5；293 K；PEG 20000, MES, pH 6.5, VAPOR DIFFUSION, SITTING DROP, temperature 293K
|
Resolution 2.30 Å R-free 0.312 |
| 1Q4O The structure of the polo box domain of human Plk1 Deposited 2003-08-04 | Different construct Different oligomeric state Different experimental conditions Different structure-quality metrics | Assembly 1 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric |
Chain A
367–603（237 aa）
Fragment：Polo box domain of Plk1
|
Not recorded | No recorded non-water small molecule |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, SITTING DROP；pH 6；293 K；PEG 4000, sodium citrate and ammonium acetate, pH 6.0, VAPOR DIFFUSION, SITTING DROP, temperature 293K
|
Resolution 2.20 Å R-free 0.288 |
| 1Q4O The structure of the polo box domain of human Plk1 Deposited 2003-08-04 | Different construct Different oligomeric state Different experimental conditions Different structure-quality metrics | Assembly 2 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric |
Chain B
367–603（237 aa）
Fragment：Polo box domain of Plk1
|
Not recorded | No recorded non-water small molecule |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, SITTING DROP；pH 6；293 K；PEG 4000, sodium citrate and ammonium acetate, pH 6.0, VAPOR DIFFUSION, SITTING DROP, temperature 293K
|
Resolution 2.20 Å R-free 0.288 |
| 1UMW Structure of a human Plk1 Polo-box domain/phosphopeptide complex Deposited 2003-08-29 | Different construct Different experimental conditions Different structure-quality metrics | Assembly 1 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric |
Chain A
367–603（237 aa）
Fragment：POLO-BOX DOMAIN, RESIDUES 367-603
|
Not recorded | No recorded non-water small molecule |
X-RAY DIFFRACTION
X-ray crystallization conditions
pH 8；pH 8.00
|
Resolution 1.90 Å R-free 0.260 |
| 1UMW Structure of a human Plk1 Polo-box domain/phosphopeptide complex Deposited 2003-08-29 | Different construct Different experimental conditions Different structure-quality metrics | Assembly 2 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric |
Chain B
367–603（237 aa）
Fragment：POLO-BOX DOMAIN, RESIDUES 367-603
|
Not recorded | No recorded non-water small molecule |
X-RAY DIFFRACTION
X-ray crystallization conditions
pH 8；pH 8.00
|
Resolution 1.90 Å R-free 0.260 |
| 22RD High-resolution cryo-EM structure of human Polo-like kinase 1 in complex with onvansertib Deposited 2026-01-21 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric |
Chain A
13–345（333 aa）
|
Mutation：T210V | 937 1-(2-HYDROXYETHYL)-8-[[5-(4-METHYLPIPERAZIN-1-YL)-2-(TRIFLUOROMETHOXY)PHENYL]AMINO]-4,5-DIHYDROPYRIMIDO[5,4-G]INDAZOLE-3-CARBOXAMIDE × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.38 Å |
| 2OGQ Molecular and structural basis of Plk1 substrate recognition: Implications in centrosomal localization Deposited 2007-01-08 | Different construct Different oligomeric state Different experimental conditions Different structure-quality metrics | Assembly 1 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric |
Chain A
365–603（239 aa）
Fragment：Polo-Box domain, residues 365-603
|
Not recorded | No recorded non-water small molecule |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 9；289 K；0.1 M Sodium Chloride, 0.1 M Bicine, 20% w/v Polyethylene Glycol Monomethyl Ether 550, pH 9.0, VAPOR DIFFUSION, temperature 289K
|
Resolution 1.95 Å R-free 0.221 |
| 2OJX Molecular and structural basis of polo-like kinase 1 substrate recognition: Implications in centrosomal localization Deposited 2007-01-15 | Different construct Different experimental conditions Different structure-quality metrics | Assembly 1 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric |
Chain A
365–603（239 aa）
Fragment：residues 365-603
|
Not recorded | No recorded non-water small molecule |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, HANGING DROP；pH 7.5；289 K；20 % PEG 10000, pH 7.5, VAPOR DIFFUSION, HANGING DROP, temperature 289K
|
Resolution 2.85 Å R-free 0.270 |
| 2OU7 Structure of the Catalytic Domain of Human Polo-like Kinase 1 Deposited 2007-02-09 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric |
Chain A
13–345（333 aa）
Fragment：Catalytic Domain (residues 13-345)
|
Mutation：T210V | ZN ZINC ION × 1 ACT ACETATE ION × 2 MG MAGNESIUM ION × 2 ANP PHOSPHOAMINOPHOSPHONIC ACID-ADENYLATE ESTER × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, HANGING DROP；pH 7.5；277 K；Protein buffer: 50 mM HEPES, pH 7.5, 5 mM TCEP. Protein was incubated on ice with 5 mM ligand (1:20 dilution of 100 mM stock in H2O for AMPPNP or DMSO for PHA-680626) for 0.5-1 h, followed by a brief centrifugation step and drop setting at RT (0.5 microliter protein + 0.5 microliter reservoir solution consisting of 500 mM magnesium acetate, 10 % PEG 4000 and 0.3 mM zinc acetate for AMPPNP, VAPOR DIFFUSION, HANGING DROP, temperature 277K
|
Resolution 2.40 Å R-free 0.235 |
| 2OU7 Structure of the Catalytic Domain of Human Polo-like Kinase 1 Deposited 2007-02-09 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 2 Protein homooligomer Homooligomer；Protein × 2 PDB declaration: dimeric |
Chain A
13–345（333 aa）
Fragment：Catalytic Domain (residues 13-345)
|
Mutation：T210V | ZN ZINC ION × 2 ACT ACETATE ION × 4 MG MAGNESIUM ION × 4 ANP PHOSPHOAMINOPHOSPHONIC ACID-ADENYLATE ESTER × 2 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, HANGING DROP；pH 7.5；277 K；Protein buffer: 50 mM HEPES, pH 7.5, 5 mM TCEP. Protein was incubated on ice with 5 mM ligand (1:20 dilution of 100 mM stock in H2O for AMPPNP or DMSO for PHA-680626) for 0.5-1 h, followed by a brief centrifugation step and drop setting at RT (0.5 microliter protein + 0.5 microliter reservoir solution consisting of 500 mM magnesium acetate, 10 % PEG 4000 and 0.3 mM zinc acetate for AMPPNP, VAPOR DIFFUSION, HANGING DROP, temperature 277K
|
Resolution 2.40 Å R-free 0.235 |
| 2OWB Structure of the Catalytic Domain of Human Polo-like Kinase 1 Deposited 2007-02-15 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric |
Chain A
13–345（333 aa）
Fragment：Kinase domain (residues 13-345)
|
Mutation：T210V | ZN ZINC ION × 1 ACT ACETATE ION × 2 626 4-(4-METHYLPIPERAZIN-1-YL)-N-[5-(2-THIENYLACETYL)-1,5-DIHYDROPYRROLO[3,4-C]PYRAZOL-3-YL]BENZAMIDE × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, HANGING DROP；pH 7.5；277 K；Protein buffer: 50 mM HEPES, pH 7.5, 5 mM TCEP. Protein was incubated on ice with 5 mM ligand (1:20 dilution of 100 mM stock in H2O for AMPPNP or DMSO for PHA-680626) for 0.5-1 h, followed by a brief centrifugation step and drop setting at RT (0.5 microliter protein + 0.5 microliter reservoir solution consisting of 500 mM magnesium acetate, 10 % PEG 4000 and 0.3 mM zinc acetate for AMPPNP, VAPOR DIFFUSION, HANGING DROP, temperature 277K
|
Resolution 2.10 Å R-free 0.243 |
| 2OWB Structure of the Catalytic Domain of Human Polo-like Kinase 1 Deposited 2007-02-15 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 2 Protein homooligomer Homooligomer；Protein × 2 PDB declaration: dimeric |
Chain A
13–345（333 aa）
Fragment：Kinase domain (residues 13-345)
|
Mutation：T210V | ZN ZINC ION × 2 ACT ACETATE ION × 4 626 4-(4-METHYLPIPERAZIN-1-YL)-N-[5-(2-THIENYLACETYL)-1,5-DIHYDROPYRROLO[3,4-C]PYRAZOL-3-YL]BENZAMIDE × 2 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, HANGING DROP；pH 7.5；277 K；Protein buffer: 50 mM HEPES, pH 7.5, 5 mM TCEP. Protein was incubated on ice with 5 mM ligand (1:20 dilution of 100 mM stock in H2O for AMPPNP or DMSO for PHA-680626) for 0.5-1 h, followed by a brief centrifugation step and drop setting at RT (0.5 microliter protein + 0.5 microliter reservoir solution consisting of 500 mM magnesium acetate, 10 % PEG 4000 and 0.3 mM zinc acetate for AMPPNP, VAPOR DIFFUSION, HANGING DROP, temperature 277K
|
Resolution 2.10 Å R-free 0.243 |
| 2RKU Structure of PLK1 in complex with BI2536 Deposited 2007-10-17 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric |
Chain A
37–330（294 aa）
|
Mutation：T210V | ZN ZINC ION × 1 R78 4-{[(7R)-8-cyclopentyl-7-ethyl-5-methyl-6-oxo-5,6,7,8-tetrahydropteridin-2-yl]amino}-3-methoxy-N-(1-methylpiperidin-4-yl)benzamide × 1 TLA L(+)-TARTARIC ACID × 2 SRT S,R MESO-TARTARIC ACID × 2 TAR D(-)-TARTARIC ACID × 1 | X-RAY DIFFRACTION mmCIF provides none of the parsed conditions | Resolution 1.95 Å R-free 0.241 |
| 2RKU Structure of PLK1 in complex with BI2536 Deposited 2007-10-17 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 2 Protein homooligomer Homooligomer；Protein × 2 PDB declaration: dimeric |
Chain A
37–330（294 aa）
|
Mutation：T210V | ZN ZINC ION × 2 R78 4-{[(7R)-8-cyclopentyl-7-ethyl-5-methyl-6-oxo-5,6,7,8-tetrahydropteridin-2-yl]amino}-3-methoxy-N-(1-methylpiperidin-4-yl)benzamide × 2 TLA L(+)-TARTARIC ACID × 4 SRT S,R MESO-TARTARIC ACID × 4 TAR D(-)-TARTARIC ACID × 2 | X-RAY DIFFRACTION mmCIF provides none of the parsed conditions | Resolution 1.95 Å R-free 0.241 |
| 2V5Q CRYSTAL STRUCTURE OF WILD-TYPE PLK-1 KINASE DOMAIN IN COMPLEX WITH A SELECTIVE DARPIN Deposited 2007-07-08 | Different construct Different experimental conditions Different structure-quality metrics | Assembly 1 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric |
Chain A
33–345（313 aa）
Fragment：KINASE DOMAIN, RESIDUES 33-345
|
Not recorded | No recorded non-water small molecule |
X-RAY DIFFRACTION
X-ray crystallization conditions
303 K；0.1 M TRIS-HCL PH 8.0, 8% PEG 5000 MME, 0.01 M EDTA SODIUM SALT AT 303 K.
|
Resolution 2.30 Å R-free 0.224 |
| 2V5Q CRYSTAL STRUCTURE OF WILD-TYPE PLK-1 KINASE DOMAIN IN COMPLEX WITH A SELECTIVE DARPIN Deposited 2007-07-08 | Different construct Different experimental conditions Different structure-quality metrics | Assembly 2 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric |
Chain B
33–345（313 aa）
Fragment：KINASE DOMAIN, RESIDUES 33-345
|
Not recorded | No recorded non-water small molecule |
X-RAY DIFFRACTION
X-ray crystallization conditions
303 K；0.1 M TRIS-HCL PH 8.0, 8% PEG 5000 MME, 0.01 M EDTA SODIUM SALT AT 303 K.
|
Resolution 2.30 Å R-free 0.224 |
| 2YAC Crystal structure of Polo-like kinase 1 in complex with NMS-P937 Deposited 2011-02-18 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein homooligomer Homooligomer；Protein × 2 PDB declaration: dimeric |
Chain A
36–345（310 aa）
Fragment：KINASE DOMAIN RESIDUES 36-345
|
Not recorded | 937 1-(2-HYDROXYETHYL)-8-[[5-(4-METHYLPIPERAZIN-1-YL)-2-(TRIFLUOROMETHOXY)PHENYL]AMINO]-4,5-DIHYDROPYRIMIDO[5,4-G]INDAZOLE-3-CARBOXAMIDE × 2 ZN ZINC ION × 2 TLA L(+)-TARTARIC ACID × 2 |
X-RAY DIFFRACTION
X-ray crystallization conditions
pH 6；pH 6.0
|
Resolution 2.20 Å R-free 0.255 |
| 3BZI Molecular and structural basis of polo-like kinase 1 substrate recognition: Implications in centrosomal localization Deposited 2008-01-18 | Different construct Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric |
Chain A
365–603（239 aa）
Fragment：Polo Box Domain
|
Not recorded | FMT FORMIC ACID × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 7.5；298 K；100mM HEPES pH 7.5, 2M ammonium formate, VAPOR DIFFUSION, temperature 298K
|
Resolution 2.10 Å R-free 0.246 |
| 3C5L Polo-like kinase 1 Polo box domain in complex with PPHSpT peptide Deposited 2008-01-31 | Different construct Different experimental conditions Different structure-quality metrics | Assembly 1 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric |
Chain A
373–593（221 aa）
Fragment：Polo Box 1, Polo Box 2, UNP residues 373-593
|
Not recorded | No recorded non-water small molecule |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, HANGING DROP；pH 6；277 K；PEG3350, pH 6, VAPOR DIFFUSION, HANGING DROP, temperature 277K
|
Resolution 2.33 Å R-free 0.293 |
| 3FC2 PLK1 in complex with BI6727 Deposited 2008-11-21 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein homooligomer Homooligomer；Protein × 2 PDB declaration: dimeric |
Chain A
13–345（333 aa）
Fragment：residies 13-345
|
Mutation：T210V | IBI N-{trans-4-[4-(cyclopropylmethyl)piperazin-1-yl]cyclohexyl}-4-{[(7R)-7-ethyl-5-methyl-8-(1-methylethyl)-6-oxo-5,6,7,8-tetrahydropteridin-2-yl]amino}-3-methoxybenzamide × 2 EDO 1,2-ETHANEDIOL × 8 ACT ACETATE ION × 4 PEG DI(HYDROXYETHYL)ETHER × 2 ZN ZINC ION × 2 GOL GLYCEROL × 2 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, HANGING DROP；277 K；VAPOR DIFFUSION, HANGING DROP, temperature 277K
|
Resolution 2.45 Å R-free 0.226 |
| 3FVH Polo-like kinase 1 Polo box domain in complex with Ac-LHSpTA-NH2 peptide Deposited 2009-01-15 | Different construct Different experimental conditions Different structure-quality metrics | Assembly 1 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric |
Chain A
371–603（233 aa）
|
Not recorded | No recorded non-water small molecule |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, HANGING DROP；pH 8.5；293 K；PEG 2000 MME, Tris pH 8.5, trimethyl-amine oxide, VAPOR DIFFUSION, HANGING DROP, temperature 293K
|
Resolution 1.58 Å R-free 0.227 |
| 3HIH Structure of human Plk1-PBD with glycerol and sulfate in the phophopeptide binding site Deposited 2009-05-20 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric |
Chain A
371–593（223 aa）
|
Not recorded | SO4 SULFATE ION × 3 GOL GLYCEROL × 4 EDO 1,2-ETHANEDIOL × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, HANGING DROP；pH 5.5；298 K；0.2 M lithium sulfate monohydrate, 0.1 M bis-tris, 25% w/v PEG 3350, pH 5.5, VAPOR DIFFUSION, HANGING DROP, temperature 298K
|
Resolution 1.70 Å R-free 0.219 |
| 3HIH Structure of human Plk1-PBD with glycerol and sulfate in the phophopeptide binding site Deposited 2009-05-20 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 2 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric |
Chain B
371–593（223 aa）
|
Not recorded | SO4 SULFATE ION × 2 GOL GLYCEROL × 1 EDO 1,2-ETHANEDIOL × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, HANGING DROP；pH 5.5；298 K；0.2 M lithium sulfate monohydrate, 0.1 M bis-tris, 25% w/v PEG 3350, pH 5.5, VAPOR DIFFUSION, HANGING DROP, temperature 298K
|
Resolution 1.70 Å R-free 0.219 |
| 3HIK Structure of human Plk1-PBD in complex with PLHSpT Deposited 2009-05-20 | Different construct Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric |
Chain A
367–603（237 aa）
Fragment：UNP residues 367-603
|
Not recorded | GOL GLYCEROL × 2 EDO 1,2-ETHANEDIOL × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
hanging drop；298 K；0.2 M di potassium phosphate, 20% w/v PEG 3350, hanging drop, temperature 298K
|
Resolution 1.77 Å R-free 0.237 |
| 3KB7 Crystal structure of Polo-like kinase 1 in complex with a pyrazoloquinazoline inhibitor Deposited 2009-10-20 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein homooligomer Homooligomer；Protein × 2 PDB declaration: dimeric |
Chain A
36–345（310 aa）
Fragment：kinase domain
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | 071 8-{[2-methoxy-5-(4-methylpiperazin-1-yl)phenyl]amino}-1-methyl-4,5-dihydro-1H-pyrazolo[4,3-h]quinazoline-3-carboxamide × 2 ZN ZINC ION × 2 TLA L(+)-TARTARIC ACID × 2 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, SITTING DROP；pH 6；277 K；1.2M Na/K tartrate, 25mM Zn acetate, 0.1M MES, pH 6.0, VAPOR DIFFUSION, SITTING DROP, temperature 277K
|
Resolution 2.50 Å R-free 0.303 |
| 3P2W Unliganded form of Polo-like kinase I Polo-box domain Deposited 2010-10-04 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric |
Chain A
371–594（224 aa）
Fragment：Polo-box domain
|
Not recorded | SO4 SULFATE ION × 2 GOL GLYCEROL × 3 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, HANGING DROP；pH 7.5；293 K；100mM HEPES, 1.0-2.0M (NH4)2SO4, pH 7.5, VAPOR DIFFUSION, HANGING DROP, temperature 293K
|
Resolution 1.66 Å R-free 0.232 |
| 3P2Z Polo-like kinase I Polo-box domain in complex with PLHSpTA phosphopeptide from PBIP1 Deposited 2010-10-04 | Different construct Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric |
Chain A
371–594（224 aa）
Fragment：Polo-box domain
|
Not recorded | GOL GLYCEROL × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, SITTING DROP；293 K；0.2M K/Na tartrate, 20% PEG 3350, VAPOR DIFFUSION, SITTING DROP, temperature 293K
|
Resolution 1.79 Å R-free 0.250 |
| 3P34 Polo-like kinase I Polo-box domain in complex with MQSpTPL phosphopeptide Deposited 2010-10-04 | Different construct Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric |
Chain A
371–594（224 aa）
Fragment：Polo-box domain
|
Not recorded | SO4 SULFATE ION × 2 GOL GLYCEROL × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, HANGING DROP；pH 7.5；293 K；100mM HEPES, 1.0-2.0M (NH4)2SO4, pH 7.5, VAPOR DIFFUSION, HANGING DROP, temperature 293K
|
Resolution 1.40 Å R-free 0.230 |
| 3P35 Polo-like kinase I Polo-box domain in complex with MQSpSPL phosphopeptide Deposited 2010-10-04 | Different construct Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric |
Chain A
371–594（224 aa）
Fragment：Polo-box domain
|
Not recorded | GOL GLYCEROL × 2 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, SITTING DROP；293 K；0.2M potassium formate, 20% PEG 3350, VAPOR DIFFUSION, SITTING DROP, temperature 293K
|
Resolution 2.09 Å R-free 0.273 |
| 3P35 Polo-like kinase I Polo-box domain in complex with MQSpSPL phosphopeptide Deposited 2010-10-04 | Different construct Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 2 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric |
Chain B
371–594（224 aa）
Fragment：Polo-box domain
|
Not recorded | GOL GLYCEROL × 3 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, SITTING DROP；293 K；0.2M potassium formate, 20% PEG 3350, VAPOR DIFFUSION, SITTING DROP, temperature 293K
|
Resolution 2.09 Å R-free 0.273 |
| 3P35 Polo-like kinase I Polo-box domain in complex with MQSpSPL phosphopeptide Deposited 2010-10-04 | Different construct Different oligomeric state Different experimental conditions Different structure-quality metrics | Assembly 3 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric |
Chain C
371–594（224 aa）
Fragment：Polo-box domain
|
Not recorded | No recorded non-water small molecule |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, SITTING DROP；293 K；0.2M potassium formate, 20% PEG 3350, VAPOR DIFFUSION, SITTING DROP, temperature 293K
|
Resolution 2.09 Å R-free 0.273 |
| 3P36 Polo-like kinase I Polo-box domain in complex with DPPLHSpTA phosphopeptide from PBIP1 Deposited 2010-10-04 | Different construct Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric |
Chain A
371–594（224 aa）
Fragment：Polo-box domain
|
Not recorded | GOL GLYCEROL × 1 PO4 PHOSPHATE ION × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, SITTING DROP；pH 6.2；293 K；100mM Na/K phosphate, 0.2M NaCl, 10% PEG 8000, pH 6.2, VAPOR DIFFUSION, SITTING DROP, temperature 293K
|
Resolution 1.59 Å R-free 0.252 |
| 3P37 Polo-like kinase I Polo-box domain in complex with FDPPLHSpTA phosphopeptide from PBIP1 Deposited 2010-10-04 | Different construct Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric |
Chain A
371–594（224 aa）
Fragment：Polo-box domain
|
Not recorded | GOL GLYCEROL × 2 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, SITTING DROP；pH 6.5；293 K；100mM MES, 30% PEG 400, pH 6.5, VAPOR DIFFUSION, SITTING DROP, temperature 293K
|
Resolution 2.38 Å R-free 0.288 |
| 3P37 Polo-like kinase I Polo-box domain in complex with FDPPLHSpTA phosphopeptide from PBIP1 Deposited 2010-10-04 | Different construct Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 2 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric |
Chain B
371–594（224 aa）
Fragment：Polo-box domain
|
Not recorded | GOL GLYCEROL × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, SITTING DROP；pH 6.5；293 K；100mM MES, 30% PEG 400, pH 6.5, VAPOR DIFFUSION, SITTING DROP, temperature 293K
|
Resolution 2.38 Å R-free 0.288 |
| 3P37 Polo-like kinase I Polo-box domain in complex with FDPPLHSpTA phosphopeptide from PBIP1 Deposited 2010-10-04 | Different construct Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 3 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric |
Chain C
371–594（224 aa）
Fragment：Polo-box domain
|
Not recorded | GOL GLYCEROL × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, SITTING DROP；pH 6.5；293 K；100mM MES, 30% PEG 400, pH 6.5, VAPOR DIFFUSION, SITTING DROP, temperature 293K
|
Resolution 2.38 Å R-free 0.288 |
| 3Q1I Polo-like kinase I Polo-box domain in complex with FMPPPMSpSM phosphopeptide from TCERG1 Deposited 2010-12-17 | Different construct Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric |
Chain A
371–594（224 aa）
Fragment：Polo-box domain, residues 371-594
|
Not recorded | 1PE PENTAETHYLENE GLYCOL × 1 PEG DI(HYDROXYETHYL)ETHER × 1 PG0 2-(2-METHOXYETHOXY)ETHANOL × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, SITTING DROP；pH 6.5；293 K；30% PEG400, 0.1M MES, pH 6.5, VAPOR DIFFUSION, SITTING DROP, temperature 293K
|
Resolution 1.40 Å R-free 0.222 |
| 3RQ7 Polo-like kinase 1 Polo box domain in complex with a C6H5(CH2)8-derivatized peptide inhibitor Deposited 2011-04-27 | Different construct Different experimental conditions Different structure-quality metrics | Assembly 1 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric |
Chain A
371–603（233 aa）
|
Not recorded | No recorded non-water small molecule |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, HANGING DROP；298 K；PBD protein at 12 mg/mL in 10 mM Tris, pH 8.0, 0.5 M NaCl, 10 mM DTT, 2% DMSO and 2 mM compound 4j was mixed with an equal volume of reservoir solution consisting of 15% (w/v) PEG 3350, 0.1 M glycine, pH 9.0, 300 mM NaCl, VAPOR DIFFUSION, HANGING DROP, temperature 298K
|
Resolution 1.55 Å R-free 0.190 |
| 3THB Structure of PLK1 kinase domain in complex with a benzolactam-derived inhibitor Deposited 2011-08-18 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric |
Chain A
13–345（333 aa）
Fragment：UNP residues 13-345
|
Not recorded | ZN ZINC ION × 1 3TA 9-chloro-2-({5-[3-(dimethylamino)propyl]-2-methylpyridin-3-yl}amino)-5,7-dihydro-6H-pyrimido[5,4-d][1]benzazepine-6-thi one × 1 | X-RAY DIFFRACTION mmCIF provides none of the parsed conditions | Resolution 2.50 Å R-free 0.286 |
| 3THB Structure of PLK1 kinase domain in complex with a benzolactam-derived inhibitor Deposited 2011-08-18 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 2 Protein homooligomer Homooligomer；Protein × 2 PDB declaration: dimeric |
Chain A
13–345（333 aa）
Fragment：UNP residues 13-345
|
Not recorded | ZN ZINC ION × 2 3TA 9-chloro-2-({5-[3-(dimethylamino)propyl]-2-methylpyridin-3-yl}amino)-5,7-dihydro-6H-pyrimido[5,4-d][1]benzazepine-6-thi one × 2 | X-RAY DIFFRACTION mmCIF provides none of the parsed conditions | Resolution 2.50 Å R-free 0.286 |
| 4A4L CRYSTAL STRUCTURE OF POLO-LIKE KINASE 1 IN COMPLEX WITH A 5-(2-AMINO- PYRIMIDIN-4-YL)-1H-PYRROLE INHIBITOR Deposited 2011-10-17 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein homooligomer Homooligomer；Protein × 2 PDB declaration: dimeric |
Chain A
36–345（310 aa）
Fragment：KINASE DOMAIN, RESIDUES 36-345
|
Not recorded | ZN ZINC ION × 2 TLA L(+)-TARTARIC ACID × 2 939 1-METHYL-5-(2-{[5-(4-METHYLPIPERAZIN-1-YL)-2-(TRIFLUOROMETHOXY)PHENYL]AMINO}PYRIMIDIN-4-YL)-1H-PYRROLE-3-CARBOXAMIDE × 2 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, SITTING DROP；pH 6；277 K；1.2 M NA/K TARTRATE, 25 MM ZN ACETATE, 0.10 M MES PH 6.0, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 277 K
|
Resolution 2.35 Å R-free 0.274 |
| 4A4O CRYSTAL STRUCTURE OF POLO-LIKE KINASE 1 IN COMPLEX WITH A 2-(2-AMINO- PYRIMIDIN-4-YL)-1,5,6,7-TETRAHYDRO-PYRROLOPYRIDIN-4-ONE INHIBITOR Deposited 2011-10-18 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein homooligomer Homooligomer；Protein × 2 PDB declaration: dimeric |
Chain A
36–345（310 aa）
Fragment：KINASE DOMAIN RESIDUES 36-345
|
Not recorded | ZN ZINC ION × 2 TLA L(+)-TARTARIC ACID × 2 664 1-METHYL-2-(2-{[5-(4-METHYLPIPERAZIN-1-YL)-2-(TRIFLUOROMETHOXY)PHENYL]AMINO}PYRIMIDIN-4-YL)-1,5,6,7-TETRAHYDRO-4H-PYRROLO[3,2-C]PYRIDIN-4-ONE × 2 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, SITTING DROP；pH 6；277 K；1.2 M NA/K TARTRATE, 25 MM ZN ACETATE, 0.10 M MES PH 6.0, VAPOR DIFFUSION, SITTING-DROP, TEMPERATURE 277 K
|
Resolution 2.70 Å R-free 0.282 |
| 4DFW Oxime-based Post Solid-phase Peptide Diversification: Identification of High Affinity Polo-like Kinase 1 (Plk1) Polo-box Domain Binding Peptides Deposited 2012-01-24 | Different construct Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric |
Chain A
367–603（237 aa）
|
Not recorded | CL CHLORIDE ION × 2 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, HANGING DROP；pH 5.5；298 K；31% (w/v) PEG 3350, 0.1 M bis-Tris pH 5.5 and 240 mM MgCl2, VAPOR DIFFUSION, HANGING DROP, temperature 298K
|
Resolution 1.55 Å R-free 0.196 |
| 4E67 The structure of the polo-box domain (PBD) of polo-like kinase 1 (Plk1) in complex with hydrocinnamoyl-derivatized PLHSpTA peptide Deposited 2012-03-15 | Different construct Different experimental conditions Different structure-quality metrics | Assembly 1 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric |
Chain A
371–594（224 aa）
Fragment：Polo box domain (PBD), residues 371-594
|
Not recorded | No recorded non-water small molecule |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, SITTING DROP；pH 7.5；293 K；0.1 M HEPES (pH 7.5), 0.1 M sodium azide and 22% PEG 4000, VAPOR DIFFUSION, SITTING DROP, temperature 293K
|
Resolution 2.10 Å R-free 0.265 |
| 4E9C The structure of the polo-box domain (PBD) of polo-like kinase 1 (Plk1) in complex with LDPPLHSpTA phosphopeptide Deposited 2012-03-21 | Different construct Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric |
Chain A
371–594（224 aa）
|
Not recorded | PG0 2-(2-METHOXYETHOXY)ETHANOL × 2 GOL GLYCEROL × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, SITTING DROP；pH 6.5；293 K；0.1 M MES pH 6.5, 30% PEG 300, VAPOR DIFFUSION, SITTING DROP, temperature 293K
|
Resolution 1.70 Å R-free 0.232 |
| 4E9D The structure of the polo-box domain (PBD) of polo-like kinase 1 (Plk1) in complex with 3-(1-benzothiophen-2-yl)propanoyl-derivatized DPPLHSpTA peptide Deposited 2012-03-21 | Different construct Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric |
Chain A
371–594（224 aa）
|
Not recorded | GOL GLYCEROL × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, SITTING DROP；293 K；0.1 M sodium acetate, 1.0 M LiCl, 30% PEG 6000, VAPOR DIFFUSION, SITTING DROP, temperature 293K
|
Resolution 2.75 Å R-free 0.330 |
| 4H5X human Plk1-PBD with a glycerol bound at the phophopeptide binding site Deposited 2012-09-19 | Different construct Different oligomeric state Different experimental conditions Different structure-quality metrics | Assembly 1 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric |
Chain B
367–603（237 aa）
Fragment：UNP residues 367-603
|
Not recorded | No recorded non-water small molecule |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, HANGING DROP；pH 6；291 K；1.4M Sodium Potassium Tartrate, 50mM MES (pH 6.5), 100mM Hepes pH 6.0, VAPOR DIFFUSION, HANGING DROP, temperature 291K
|
Resolution 1.95 Å R-free 0.242 |
| 4H5X human Plk1-PBD with a glycerol bound at the phophopeptide binding site Deposited 2012-09-19 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 2 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric |
Chain A
367–603（237 aa）
Fragment：UNP residues 367-603
|
Not recorded | GOL GLYCEROL × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, HANGING DROP；pH 6；291 K；1.4M Sodium Potassium Tartrate, 50mM MES (pH 6.5), 100mM Hepes pH 6.0, VAPOR DIFFUSION, HANGING DROP, temperature 291K
|
Resolution 1.95 Å R-free 0.242 |
| 4H71 Human Plk1-PBD in complex with Poloxime ((E)-4-(hydroxyimino)-2-isopropyl-5-methylcyclohexa-2,5-dienone) Deposited 2012-09-19 | Different construct Different oligomeric state Different experimental conditions Different structure-quality metrics | Assembly 1 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric |
Chain B
367–603（237 aa）
Fragment：UNP residues 367-603
|
Not recorded | No recorded non-water small molecule |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, HANGING DROP；pH 6；291 K；1.4M Sodium Potassium Tartrate, 50mM MES (pH 6.5), 100mM Hepes pH 6.0, VAPOR DIFFUSION, HANGING DROP, temperature 291K
|
Resolution 1.93 Å R-free 0.237 |
| 4H71 Human Plk1-PBD in complex with Poloxime ((E)-4-(hydroxyimino)-2-isopropyl-5-methylcyclohexa-2,5-dienone) Deposited 2012-09-19 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 2 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric |
Chain A
367–603（237 aa）
Fragment：UNP residues 367-603
|
Not recorded | GOL GLYCEROL × 1 PXE 2-methyl-5-(1-methylethyl)cyclohexa-2,5-diene-1,4-dione 1-oxime × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, HANGING DROP；pH 6；291 K；1.4M Sodium Potassium Tartrate, 50mM MES (pH 6.5), 100mM Hepes pH 6.0, VAPOR DIFFUSION, HANGING DROP, temperature 291K
|
Resolution 1.93 Å R-free 0.237 |
| 4HAB Crystal structure of Plk1 Polo-box domain in complex with PL-49 Deposited 2012-09-26 | Different construct Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric |
Chain A
371–593（223 aa）
|
Not recorded | CXS 3-CYCLOHEXYL-1-PROPYLSULFONIC ACID × 2 PO4 PHOSPHATE ION × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 10；293 K；0.1M CAPS pH 8, 0.2M LiSO4, 0.8M K2HPO4 NaH2PO4, vapor diffusion, temperature 293K
|
Resolution 2.65 Å R-free 0.259 |
| 4HAB Crystal structure of Plk1 Polo-box domain in complex with PL-49 Deposited 2012-09-26 | Different construct Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 2 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric |
Chain B
371–593（223 aa）
|
Not recorded | CXS 3-CYCLOHEXYL-1-PROPYLSULFONIC ACID × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 10；293 K；0.1M CAPS pH 8, 0.2M LiSO4, 0.8M K2HPO4 NaH2PO4, vapor diffusion, temperature 293K
|
Resolution 2.65 Å R-free 0.259 |
| 4HAB Crystal structure of Plk1 Polo-box domain in complex with PL-49 Deposited 2012-09-26 | Different construct Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 3 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric |
Chain C
371–593（223 aa）
|
Not recorded | CXS 3-CYCLOHEXYL-1-PROPYLSULFONIC ACID × 2 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 10；293 K；0.1M CAPS pH 8, 0.2M LiSO4, 0.8M K2HPO4 NaH2PO4, vapor diffusion, temperature 293K
|
Resolution 2.65 Å R-free 0.259 |
| 4HCO Human Plk1-PBD in complex with Thymoquinone at the phophopeptide binding site Deposited 2012-10-01 | Different construct Different oligomeric state Different experimental conditions Different structure-quality metrics | Assembly 1 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric |
Chain B
367–603（237 aa）
Fragment：UNP residues 367-603
|
Not recorded | No recorded non-water small molecule |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, HANGING DROP；pH 6；291 K；1.4M Sodium Potassium Tartrate, 50mM MES pH 6.5, 100mM Hepes pH 6.0, VAPOR DIFFUSION, HANGING DROP, temperature 291K
|
Resolution 2.75 Å R-free 0.280 |
| 4HCO Human Plk1-PBD in complex with Thymoquinone at the phophopeptide binding site Deposited 2012-10-01 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 2 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric |
Chain A
367–603（237 aa）
Fragment：UNP residues 367-603
|
Not recorded | GOL GLYCEROL × 1 IMW 2-methyl-5-(1-methylethyl)cyclohexa-2,5-diene-1,4-dione × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, HANGING DROP；pH 6；291 K；1.4M Sodium Potassium Tartrate, 50mM MES pH 6.5, 100mM Hepes pH 6.0, VAPOR DIFFUSION, HANGING DROP, temperature 291K
|
Resolution 2.75 Å R-free 0.280 |
| 4HY2 Crystal structure of Plk1 Polo-box domain in complex with PL-42 Deposited 2012-11-12 | Different construct Different experimental conditions Different structure-quality metrics | Assembly 1 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric |
Chain A
371–595（225 aa）
|
Not recorded | No recorded non-water small molecule |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 10；293 K；0.1M CAPS pH 8, 0.2M LiSO4, 0.8M K2HPO4 NaH2PO4, vapor diffusion, temperature 293K
|
Resolution 2.00 Å R-free 0.246 |
| 4J52 Crystal structure of PLK1 in complex with a pyrimidodiazepinone inhibitor Deposited 2013-02-07 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric |
Chain A
38–330（293 aa）
Fragment：catalytic domain (UNP residues 38-330)
|
Mutation：T210V | 1J3 4-{[(7R)-9-cyclopentyl-7-ethenyl-7-fluoro-5-methyl-6-oxo-6,7,8,9-tetrahydro-5H-pyrimido[4,5-b][1,4]diazepin-2-yl]amino}-3-methoxy-N-(4-methylpiperazin-1-yl)benzamide × 1 ZN ZINC ION × 1 ACT ACETATE ION × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, SITTING DROP；pH 7；277 K；0.95 mM succinic acid, 1.7% PEG2000 MME, 0.4 mM zinc acetate, 100 mM HEPES, pH 7.0, VAPOR DIFFUSION, SITTING DROP, temperature 277K
|
Resolution 2.30 Å R-free 0.241 |
| 4J53 Crystal structure of PLK1 in complex with TAK-960 Deposited 2013-02-07 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric |
Chain A
38–330（293 aa）
Fragment：catalytic domain (UNP residues 38-330)
|
Mutation：T210V | ZN ZINC ION × 1 ACT ACETATE ION × 1 1J4 4-[(9-cyclopentyl-7,7-difluoro-5-methyl-6-oxo-6,7,8,9-tetrahydro-5H-pyrimido[4,5-b][1,4]diazepin-2-yl)amino]-2-fluoro-5-methoxy-N-(1-methylpiperidin-4-yl)benzamide × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, SITTING DROP；pH 7；277 K；0.95 mM succinic acid, 1.7% PEG2000 MME, 0.4 mM zinc acetate, 100 mM HEPES, pH 7.0, VAPOR DIFFUSION, SITTING DROP, temperature 277K
|
Resolution 2.50 Å R-free 0.240 |
| 4LKL Crystal structure of Plk1 Polo-box domain in complex with PL-55 Deposited 2013-07-08 | Different construct Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric |
Chain A
372–593（222 aa）
Fragment：Polo-box domain, UNP residues 372-593
|
Not recorded | ADM ADAMANTANE × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 7.5；293 K；0.2M calcium acetate, 20% PEG3350, pH 7.5, vapor diffusion, temperature 293K
|
Resolution 1.58 Å R-free 0.255 |
| 4LKM Crystal structure of Plk1 Polo-box domain in complex with PL-74 Deposited 2013-07-08 | Different construct Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric |
Chain A
371–601（231 aa）
Fragment：Polo-box domain, UNP residues 371-601
|
Not recorded | SO4 SULFATE ION × 1 GOL GLYCEROL × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 4；293 K；0.2M sodium citrate, 500mM ammonium sulfate, pH 4.0, vapor diffusion, temperature 293K
|
Resolution 2.00 Å R-free 0.235 |
| 4LKM Crystal structure of Plk1 Polo-box domain in complex with PL-74 Deposited 2013-07-08 | Different construct Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 2 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric |
Chain C
371–601（231 aa）
Fragment：Polo-box domain, UNP residues 371-601
|
Not recorded | SO4 SULFATE ION × 1 GOL GLYCEROL × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 4；293 K；0.2M sodium citrate, 500mM ammonium sulfate, pH 4.0, vapor diffusion, temperature 293K
|
Resolution 2.00 Å R-free 0.235 |
| 4O56 Structure of PLK1 in complex with peptide Deposited 2013-12-19 | Different construct Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric |
Chain A
367–603（237 aa）
Fragment：UNP RESIDUES 367-603
|
Not recorded | PO4 PHOSPHATE ION × 3 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, HANGING DROP；pH 6.5；293 K；2M Ammonium sulfate, 100mM Bis-Tris, pH 6.5, VAPOR DIFFUSION, HANGING DROP, temperature 293K
|
Resolution 1.80 Å R-free 0.201 |
| 4O6W Peptide-Based Inhibitors of Plk1 Polo-box Domain Deposited 2013-12-23 | Different construct Different experimental conditions Different structure-quality metrics | Assembly 1 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric |
Chain A
371–603（233 aa）
Fragment：Polo box domain (UNP residues 371-603)
|
Not recorded | No recorded non-water small molecule |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, HANGING DROP；pH 7.5；298 K；13% (w/v) PEG 3350, 0.1 M HEPES pH 7.5 and 100 mM NaCl, VAPOR DIFFUSION, HANGING DROP, temperature 298K
|
Resolution 1.45 Å R-free 0.215 |
| 4O9W Crystal structure of polo-like kinase(PLK1)PBD in complex with phospho peptide Deposited 2014-01-03 | Different construct Different experimental conditions Different structure-quality metrics | Assembly 1 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric |
Chain A
373–594（222 aa）
Fragment：UNP RESIDUES 373-594
|
Not recorded | No recorded non-water small molecule |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, HANGING DROP；pH 6.5；295 K；200mM potassium iodide, 100mM MES, 25% PEG 4000, pH 6.5, VAPOR DIFFUSION, HANGING DROP, temperature 295K
|
Resolution 1.69 Å R-free 0.240 |
| 4RCP Crystal structure of Plk1 Polo-box domain in complex with PL-2 Deposited 2014-09-16 | Different construct Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric |
Chain A
372–599（228 aa）
Fragment：unp residues 372-599
|
Not recorded | EDO 1,2-ETHANEDIOL × 10 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 4；293 K；0.2M sodium citrate pH 4.0, 500mM ammonium sulfate, vapor diffusion, temperature 293K
|
Resolution 1.60 Å R-free 0.204 |
| 4WHH A New Class of Peptidomimetics Targeting the Polo-box Domain of Polo-like kinase 1 Deposited 2014-09-22 | Different construct Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric |
Chain A
371–603（233 aa）
Fragment：UNP RESIDUES 371-603
|
Not recorded | SO4 SULFATE ION × 2 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, SITTING DROP；pH 7.5；293 K；0.1M HEPES, 2.0M Ammonium sulfate
|
Resolution 1.90 Å R-free 0.236 |
| 4WHK A New Class of Peptidomimetics Targeting the Polo-box Domain of Polo-like kinase 1 Deposited 2014-09-23 | Different construct Different experimental conditions Different structure-quality metrics | Assembly 1 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric |
Chain A
371–603（233 aa）
Fragment：UNP RESIDUES 371-603
|
Not recorded | No recorded non-water small molecule |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, SITTING DROP；293 K；0.4M K-Na tartrate
|
Resolution 1.80 Å R-free 0.197 |
| 4WHL A New Class of Peptidomimetics Targeting the Polo-box Domain of Polo-like kinase 1 Deposited 2014-09-23 | Different construct Different experimental conditions Different structure-quality metrics | Assembly 1 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric |
Chain A
371–603（233 aa）
Fragment：UNP RESIDUES 371-603
|
Not recorded | No recorded non-water small molecule |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, SITTING DROP；pH 3.5；293 K；0.1M Citric acid, 28% PEG8000
|
Resolution 2.71 Å R-free 0.245 |
| 4X9R PLK-1 polo-box domain in complex with Bioactive Imidazolium-containing phosphopeptide macrocycle 3B Deposited 2014-12-11 | Different construct Different structure-quality metrics | Assembly 1 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric |
Chain A
371–603（233 aa）
Fragment：Polo-box domain residues 371-603
|
Not recorded | No recorded non-water small molecule |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, HANGING DROP；pH 8；291 K；Frozen stocks of protein at 37 mg/mL in 10 mM TRIS pH8, 0.5 M NaCl, 10 mM DTT were thawed and diluted to 10 mg/ml with the same buffer. Complexes with each of three macrocycle compounds (3b, 3c and 4b) were prepared by adding 100 mM stocks of the macrocycle in DMSO directly to the diluted protein to achieve a final concentration of 1 mM. Crystals were grown by hanging drop vapor diffusion, with drops made by mixing equal volumes of protein-macrocycle complex and well solution containing 2-6% PEG-3350. Crystals were cryo-protected by quickly dipping in a solution of 37.5% ethylene glycol in well solution and frozen in liquid nitrogen
|
Resolution 1.40 Å R-free 0.179 |
| 4X9W PLK-1 polo-box domain in complex with Bioactive Imidazolium-containing phosphopeptide macrocycle 4C Deposited 2014-12-11 | Different experimental conditions Different structure-quality metrics | Assembly 1 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric |
Chain A
371–603（233 aa）
Fragment：POLO box domain residues 371-603
|
Not recorded | No recorded non-water small molecule |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 8；291 K；Frozen stocks of protein at 37 mg/mL in 10 mM TRIS pH8, 0.5 M NaCl, 10 mM DTT were thawed and diluted to 10 mg/ml with the same buffer. Complexes with each of three macrocycle compounds (3b, 3c and 4b) were prepared by adding 100 mM stocks of the macrocycle in DMSO directly to the diluted protein to achieve a final concentration of 1 mM. Crystals were grown by hanging drop vapor diffusion, with drops made by mixing equal volumes of protein-macrocycle complex and well solution containing 2-6% PEG-3350. Crystals were cryo-protected by quickly dipping in a solution of 37.5% ethylene glycol in well solution and frozen in liquid nitrogen.
|
Resolution 1.80 Å R-free 0.239 |
| 5J19 phospho-Pon binding-induced Plk1 dimerization Deposited 2016-03-29 | Different construct Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric |
Chain A
367–594（228 aa）
Fragment：Polo-box domain, UNP residues 367-594
|
Not recorded | GOL GLYCEROL × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
EVAPORATION；pH 5.5；289 K；PEG 3350, NaCOOH
|
Resolution 2.00 Å R-free 0.236 |
| 5J19 phospho-Pon binding-induced Plk1 dimerization Deposited 2016-03-29 | Different construct Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 2 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric |
Chain B
367–594（228 aa）
Fragment：Polo-box domain, UNP residues 367-594
|
Not recorded | GOL GLYCEROL × 2 |
X-RAY DIFFRACTION
X-ray crystallization conditions
EVAPORATION；pH 5.5；289 K；PEG 3350, NaCOOH
|
Resolution 2.00 Å R-free 0.236 |
| 5NEI The structure of the polo-box domain (PBD) of polo-like kinase 1 (Plk1) in complex with JES107 Deposited 2017-03-10 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric |
Chain A
371–603（233 aa）
Fragment：UNP residues Polo-box domain, 371-603
|
Not recorded | 8VB 2-[[3-[[5-(3-iodanylphenyl)carbonylthiophen-2-yl]carbonylamino]phenyl]methyl]propanedioic acid × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；292 K；10% PEG 3350, 100 mM Na/K tartrate
|
Resolution 2.68 Å R-free 0.248 |
| 5NFU The structure of the polo-box domain (PBD) of polo-like kinase 1 (Plk1) in complex with LHSpTA peptide Deposited 2017-03-16 | Different construct Different experimental conditions Different structure-quality metrics | Assembly 1 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric |
Chain A
371–602（232 aa）
Fragment：UNP residues 371-602
|
Not recorded | No recorded non-water small molecule |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 7；293 K；0.1 M HEPES 7
30% Jeffamine ED-2001
|
Resolution 1.81 Å R-free 0.202 |
| 5NJE The structure of the polo-box domain (PBD) of polo-like kinase 1 (Plk1) in complex with Alpha-Bromo-3-Iodotoluene. Deposited 2017-03-28 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric |
Chain A
371–603（233 aa）
Fragment：Polo-box domain, UNP residues 371-603
|
Not recorded | 8Z5 Alpha-Bromo-3-Iodotoluene × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；298 K；200 mM K/Na Tartrate, 10-20 % PEG3350
|
Resolution 1.98 Å R-free 0.266 |
| 5NMM The structure of the polo-box domain (PBD) of Plk1 in complex with Alpha-Bromo-3-Iodotoluene. Deposited 2017-04-06 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric |
Chain A
371–603（233 aa）
|
Not recorded | 8Z5 Alpha-Bromo-3-Iodotoluene × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；293 K；200 mM K/Na Tartrate, 20% PEG3350
|
Resolution 2.02 Å R-free 0.237 |
| 5NN1 The structure of the polo-box domain (PBD) of polo-like kinase 1 (Plk1) Deposited 2017-04-07 | Different construct Different oligomeric state Different experimental conditions Different structure-quality metrics | Assembly 1 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric |
Chain A
371–603（233 aa）
Fragment：Polo-box domain, UNP residues 371-603
|
Not recorded | No recorded non-water small molecule |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；298 K；200 mM Na/K Tartrate, 10-20% PEG3350
|
Resolution 1.78 Å R-free 0.245 |
| 5NN2 The structure of the polo-box domain (PBD) of Plk1 in complex with Z228588490 Deposited 2017-04-07 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric |
Chain A
371–594（224 aa）
Fragment：Polo-box domain, UNP residues 371-603
|
Not recorded | Z24 (3~{R},5~{R})-1-[2,4-bis(fluoranyl)phenyl]-5-oxidanyl-pyrrolidine-3-carboxylic acid × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；293 K；200 mM K/Na Tartrate, 10-20% PEG3350
|
Resolution 1.81 Å R-free 0.219 |
| 5TA6 Crystal structure of PLK1 in complex with a novel 5,6-dihydroimidazolo[1,5-f]pteridine inhibitor. Deposited 2016-09-09 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric |
Chain A
13–345（333 aa）
Fragment：UNP residues 13-345
|
Not recorded | 79D 4-{[(6R)-7-cyano-5-cyclopentyl-6-ethyl-5,6-dihydroimidazo[1,5-f]pteridin-3-yl]amino}-3-methoxy-N-(1-methylpiperidin-4-yl)benzamide × 1 ZN ZINC ION × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, SITTING DROP；277 K；0.95 mM succinic acid, 1.7% PEG2000 MME, 0.4 mM zinc acetate, 100 mM HEPES, pH 7.0, temperature 277K
|
Resolution 2.50 Å R-free 0.260 |
| 5TA8 Crystal structure of PLK1 in complex with a novel 5,6-dihydroimidazolo[1,5-f]pteridine inhibitor Deposited 2016-09-09 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric |
Chain A
13–345（333 aa）
Fragment：UNP residues 13-345
|
Not recorded | ZN ZINC ION × 1 79C 4-[(9-cyclopentyl-7,7-difluoro-5-methyl-6-oxo-6,7,8,9-tetrahydro-5H-pyrimido[4,5-b][1,4]diazepin-2-yl)amino]-3-methoxy-N-(1-methylpiperidin-4-yl)benzamide × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, SITTING DROP；277 K；0.95 mM succinic acid, 1.7% PEG2000 MME, 0.4 mM zinc acetate, 100 mM HEPES, pH 7.0, temperature 277K
|
Resolution 2.60 Å R-free 0.247 |
| 6AX4 Plk-1 polo-box domain in complex with histidine N(tau)-cyclized Macrocycle 5b. Deposited 2017-09-06 | Different construct Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric |
Chain A
371–603（233 aa）
Fragment：UNP residues 367-603
|
Not recorded | AML AMYLAMINE × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, HANGING DROP；291 K；Well solution: 0.2 M Calcium Chloride, 12.5% PEG-3350
Protein: 10 mg/ml PBD-macrocycle complex in 0.5 M Sodium Chloride, 10 mM TRIS pH 8.0, 0.4 M ammonium acetate
1:1 mix of protein complex and well solution
|
Resolution 1.45 Å R-free 0.166 |
| 6GY2 Crystal structure of human Plk1-PBD in complex with WSSSLATPPTLSSpTVLI phosphopeptide from BRCA2 Deposited 2018-06-28 | Different construct Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric |
Chain A
365–603（239 aa）
|
Not recorded | GOL GLYCEROL × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, HANGING DROP；pH 6.5；293 K；PEG 3350, BisTris, DTT
|
Resolution 3.11 Å R-free 0.215 |
| 6GY2 Crystal structure of human Plk1-PBD in complex with WSSSLATPPTLSSpTVLI phosphopeptide from BRCA2 Deposited 2018-06-28 | Different construct Different experimental conditions Different structure-quality metrics | Assembly 2 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric |
Chain B
365–603（239 aa）
|
Not recorded | No recorded non-water small molecule |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, HANGING DROP；pH 6.5；293 K；PEG 3350, BisTris, DTT
|
Resolution 3.11 Å R-free 0.215 |
| 7MSO Crystal Structure of Polo Box Domain in Complex with Cyclic Peptide Inhibitor Deposited 2021-05-11 | Different construct Different experimental conditions Different structure-quality metrics | Assembly 1 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric |
Chain A
371–603（233 aa）
|
Not recorded | No recorded non-water small molecule |
X-RAY DIFFRACTION
X-ray crystallization conditions
EVAPORATION；pH 5.5；298 K；0.1 M Bis-Tris pH 5.5, 2.75 M NaCl
|
Resolution 1.85 Å R-free 0.210 |
| 7MSO Crystal Structure of Polo Box Domain in Complex with Cyclic Peptide Inhibitor Deposited 2021-05-11 | Different construct Different experimental conditions Different structure-quality metrics | Assembly 2 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric |
Chain B
371–603（233 aa）
|
Not recorded | No recorded non-water small molecule |
X-RAY DIFFRACTION
X-ray crystallization conditions
EVAPORATION；pH 5.5；298 K；0.1 M Bis-Tris pH 5.5, 2.75 M NaCl
|
Resolution 1.85 Å R-free 0.210 |
| 7MX1 PLK-1 polo-box domain in complex with a high affinity macrocycle synthesized using a novel glutamic acid analog Deposited 2021-05-17 | Different construct Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric |
Chain A
371–603（233 aa）
Fragment：UNP residues 367-603
|
Not recorded | ZOY N-[(4S)-4,5-diamino-5-oxopentyl]-10-phenyldecanamide × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, HANGING DROP；291 K；0.2 M. CaCl2, 15% PEG-3350
|
Resolution 1.64 Å R-free 0.204 |
| 7MX1 PLK-1 polo-box domain in complex with a high affinity macrocycle synthesized using a novel glutamic acid analog Deposited 2021-05-17 | Different construct Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 2 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric |
Chain B
371–603（233 aa）
Fragment：UNP residues 367-603
|
Not recorded | ZOY N-[(4S)-4,5-diamino-5-oxopentyl]-10-phenyldecanamide × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, HANGING DROP；291 K；0.2 M. CaCl2, 15% PEG-3350
|
Resolution 1.64 Å R-free 0.204 |
| 8BJT Structure of human PLK1 in complex with 2-Allyl-1-[6-(1-hydroxy-1-methyl-ethyl)-pyridin-2-yl]-6-[4-(4-methyl-piperazin-1-yl)-phenylamino]-1,2-dihydro-pyrazolo[3,4-d]pyrimidin-3-one Deposited 2022-11-06 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric |
Chain A
37–330（294 aa）
|
Not recorded | ACT ACETATE ION × 1 8X7 1-[6-(2-hydroxypropan-2-yl)pyridin-2-yl]-6-{[4-(4-methylpiperazin-1-yl)phenyl]amino}-2-(prop-2-en-1-yl)-1,2-dihydro-3H-pyrazolo[3,4-d]pyrimidin-3-one × 1 ZN ZINC ION × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, HANGING DROP；pH 6.5；277 K；16% w/v PEG4000, 0.1 M Na citrate pH 6.50, 0.6 M Mg acetate, 0.0003 M Zn acetate
|
Resolution 2.19 Å R-free 0.255 |
| 8CRC Structure of human Plk1 PBD in complex with Allopole-A Deposited 2023-03-08 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric |
Chain A
371–594（224 aa）
|
Not recorded | GOL GLYCEROL × 1 VIH 7-chloro-4-(cyclopropylmethyl)-1-thioxo-2,4-dihydrothieno[2,3-e][1,2,4]triazolo[4,3-a]pyrimidin-5(1H)-one × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, HANGING DROP；pH 6；295 K；12% (w/v) PEG 3350, 0.1 M MES
|
Resolution 1.65 Å R-free 0.219 |
| 8JOQ Plk1 polo-box domain bound to HPV18 L2 residues 209-215 with pThr213 Deposited 2023-06-08 | Different construct Different experimental conditions Different structure-quality metrics | Assembly 1 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric |
Chain A
371–594（224 aa）
Fragment：polo-box domain
|
Not recorded | No recorded non-water small molecule |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, SITTING DROP；291 K；0.1M malate MES Tris buffer pH 6.5, 25% polyethylene glycol 1500
|
Resolution 1.80 Å R-free 0.250 |
| 8JOY Plk1 polo-box domain bound to HPV4 L2 residues 251-257 with pThr255 Deposited 2023-06-09 | Different construct Different experimental conditions Different structure-quality metrics | Assembly 1 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric |
Chain A
371–594（224 aa）
Fragment：polo-box domain
|
Not recorded | No recorded non-water small molecule |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, SITTING DROP；291 K；0.1M malate MES Tris buffer pH 6.5, 25% polyethylene glycol 1500
|
Resolution 2.61 Å R-free 0.255 |
| 8S30 Crystal structure of human PLK1 Polo-Box Domain in complex with Mis18 Deposited 2024-02-19 | Different construct Different experimental conditions Different structure-quality metrics | Assembly 1 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric |
Chain A
365–603（239 aa）
|
Not recorded | No recorded non-water small molecule |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, SITTING DROP；291 K；0.09 M Halogen mix (NaF, NaBr, NaI), 0.1 M buffer
system 2 (Sodium HEPES and MOPS) (pH7.5), 37% precipitant mix
MPD_P1K_P3350 (MPD (racemic), PEG 1K, PEG 3350)
|
Resolution 1.94 Å R-free 0.271 |
| 8S31 Crystal structure of human PLK1 Polo-Box Domain in complex with Mis18BP1 Deposited 2024-02-19 | Different construct Different experimental conditions Different structure-quality metrics | Assembly 1 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric |
Chain A
365–603（239 aa）
|
Not recorded | No recorded non-water small molecule |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, SITTING DROP；291 K；50 mM MES (pH 6.0), 20 mM Sodium Oxalate, 1.2 M Sodium Malonate
|
Resolution 2.13 Å R-free 0.224 |
| 8S31 Crystal structure of human PLK1 Polo-Box Domain in complex with Mis18BP1 Deposited 2024-02-19 | Different construct Different experimental conditions Different structure-quality metrics | Assembly 2 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric |
Chain B
365–603（239 aa）
|
Not recorded | No recorded non-water small molecule |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, SITTING DROP；291 K；50 mM MES (pH 6.0), 20 mM Sodium Oxalate, 1.2 M Sodium Malonate
|
Resolution 2.13 Å R-free 0.224 |
| 8WFP Crystal structure of polo-like kinase(PLK1)PBD in complex with DD-1 Deposited 2023-09-20 | Different construct Different experimental conditions Different structure-quality metrics | Assembly 1 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric |
Chain A
373–596（224 aa）
|
Not recorded | No recorded non-water small molecule |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, SITTING DROP；pH 7.5；293 K；5% PEG 3350, 10% Tacsimate pH 8.0
|
Resolution 1.99 Å R-free 0.229 |
| 8WFP Crystal structure of polo-like kinase(PLK1)PBD in complex with DD-1 Deposited 2023-09-20 | Different construct Different experimental conditions Different structure-quality metrics | Assembly 2 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric |
Chain B
373–596（224 aa）
|
Not recorded | No recorded non-water small molecule |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, SITTING DROP；pH 7.5；293 K；5% PEG 3350, 10% Tacsimate pH 8.0
|
Resolution 1.99 Å R-free 0.229 |
| 8X72 The Crystal Structure of PLK1 from Biortus. Deposited 2023-11-22 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric |
Chain A
13–345（333 aa）
|
Not recorded | ANP PHOSPHOAMINOPHOSPHONIC ACID-ADENYLATE ESTER × 1 ZN ZINC ION × 1 ACT ACETATE ION × 2 PEG DI(HYDROXYETHYL)ETHER × 2 EDO 1,2-ETHANEDIOL × 3 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, SITTING DROP；277 K；0.5M MgAc2, 12% PEG 4000, 0.3mM ZnAc2
|
Resolution 2.20 Å R-free 0.250 |
| 8XB9 The Crystal Structure of polo-box domain of PLK1 from Biortus. Deposited 2023-12-06 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric |
Chain A
371–603（233 aa）
Fragment：UNP RESIDUES 371-603
|
Not recorded | EDO 1,2-ETHANEDIOL × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, SITTING DROP；293 K；31% PEG3350, 0.1M Bis Tris pH 5.8
|
Resolution 1.95 Å R-free 0.245 |
| 9D0P Crystal structure of PLK1 in complex with AZD1775 Deposited 2024-08-07 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric |
Chain A
13–345（333 aa）
|
Mutation：T210V | 8X7 1-[6-(2-hydroxypropan-2-yl)pyridin-2-yl]-6-{[4-(4-methylpiperazin-1-yl)phenyl]amino}-2-(prop-2-en-1-yl)-1,2-dihydro-3H-pyrazolo[3,4-d]pyrimidin-3-one × 1 ZN ZINC ION × 1 ACT ACETATE ION × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, SITTING DROP；277 K；3% to 16% PEG 3350-6000 and 0.2 to 0.5 M sodium malonate
|
Resolution 2.65 Å R-free 0.290 |
| 9FJG Two PLK1 PBD proteins bound to CENP-U(58-114) phosphorylated at Thr98 Deposited 2024-05-31 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein heterocomplex Heteromer；Protein × 3 PDB declaration: trimeric |
Chain A
345–603（259 aa）
Chain B
345–603（259 aa）
|
Not recorded | PG4 TETRAETHYLENE GLYCOL × 3 FLC CITRATE ANION × 1 PEG DI(HYDROXYETHYL)ETHER × 2 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, SITTING DROP；pH 6.2；293 K；0.02M Na3-citrate, 0.08 M NaH2(PO4) pH6.2, 18 v/v% PEG2000
|
Resolution 2.00 Å R-free 0.242 |
| 9FJH Two PLK1 PBD proteins bound to CENP-U(58-114) phosphorylated at Thr78 and Thr98 Deposited 2024-05-31 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein heterocomplex Heteromer；Protein × 3 PDB declaration: trimeric |
Chain A
345–603（259 aa）
Chain B
345–603（259 aa）
|
Not recorded | PGE TRIETHYLENE GLYCOL × 2 PG4 TETRAETHYLENE GLYCOL × 1 PO4 PHOSPHATE ION × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, SITTING DROP；pH 9.5；293 K；0.2M NaCl, 0.1 M CHES pH9.5, 10 v/v% PEG8000
|
Resolution 2.15 Å R-free 0.250 |
| 9FJI Two PLK1 PBD proteins bound to CENP-U(58-114) phosphorylated at Thr98 Deposited 2024-05-31 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein heterocomplex Heteromer；Protein × 3 PDB declaration: trimeric |
Chain A
345–603（259 aa）
Chain B
345–603（259 aa）
|
Not recorded | GOL GLYCEROL × 1 PG4 TETRAETHYLENE GLYCOL × 3 PEG DI(HYDROXYETHYL)ETHER × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, SITTING DROP；pH 6.2；293 K；0.02M Na3-citrate, 0.08 M NaH2(PO4) pH6.2, 18 v/v% PEG2000
|
Resolution 2.10 Å R-free 0.243 |
| 9FJJ Two PLK1 PBD proteins bound to CENP-U(39-114) phosphorylated at Thr78 and Thr98 Deposited 2024-05-31 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein heterocomplex Heteromer；Protein × 3 PDB declaration: trimeric |
Chain A
345–603（259 aa）
Chain B
345–603（259 aa）
|
Not recorded | PEG DI(HYDROXYETHYL)ETHER × 1 GOL GLYCEROL × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, SITTING DROP；293 K；0.2M tri-Lithium citrate, 20 v/v% PEG3350
|
Resolution 2.00 Å R-free 0.242 |
| 9QMO PLK1 PBD apo protein at 1.6A Deposited 2025-03-24 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric |
Chain A
345–603（259 aa）
|
Not recorded | PO4 PHOSPHATE ION × 1 GOL GLYCEROL × 2 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, SITTING DROP；293.15 K；0.2M Na2H(PO4), 20%PEG3350
|
Resolution 1.60 Å R-free 0.228 |
| 9R1W PLK1 SURFACE ENTROPY REDUCTION (SER) MUTANT IN COMPLEX WITH THIAZOLIDINONE INHIBITOR COMPOUND 1 Deposited 2025-04-28 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein homooligomer Homooligomer；Protein × 2 PDB declaration: dimeric |
Chain AAA
18–340（323 aa）
Chain BBB
18–340（323 aa）
|
Mutation：K225D, K226A Mutation：K225D, K226A | A1JCP (2~{Z})-2-cyano-2-[3-ethyl-5-[(~{E})-[2-[methyl-(1-methylpiperidin-4-yl)amino]pyridin-4-yl]iminomethyl]-4-oxidanylidene-1,3-thiazol-2-ylidene]-~{N}-[2,2,2-tris(fluoranyl)ethyl]ethanamide × 2 SO4 SULFATE ION × 6 GOL GLYCEROL × 5 CL CHLORIDE ION × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, HANGING DROP；pH 6.5；293 K；sodium acetate, ammonium sulphate, MES
|
Resolution 2.20 Å R-free 0.216 |
| 9R1X PLK1 SURFACE ENTROPY REDUCTION (SER) MUTANT IN COMPLEX WITH INHIBITOR BI 2536 Deposited 2025-04-28 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein homooligomer Homooligomer；Protein × 2 PDB declaration: dimeric |
Chain A
18–340（323 aa）
Chain B
18–340（323 aa）
|
Not recorded | R78 4-{[(7R)-8-cyclopentyl-7-ethyl-5-methyl-6-oxo-5,6,7,8-tetrahydropteridin-2-yl]amino}-3-methoxy-N-(1-methylpiperidin-4-yl)benzamide × 2 SO4 SULFATE ION × 7 GOL GLYCEROL × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, HANGING DROP；pH 6.5；293 K；sodium acetate, ammonium sulphate, MES
|
Resolution 2.84 Å R-free 0.277 |
| 9R1Y PLK1 SURFACE ENTROPY REDUCTION (SER) MUTANT IN COMPLEX WITH INHIBITOR GSK461364 Deposited 2025-04-28 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein homooligomer Homooligomer；Protein × 2 PDB declaration: dimeric |
Chain AAA
18–340（323 aa）
Chain BBB
18–340（323 aa）
|
Mutation：K225D, K226A Mutation：K225D, K226A | A1JCQ 5-[6-[(4-methylpiperazin-1-yl)methyl]benzimidazol-1-yl]-3-[(1~{R})-1-[2-(trifluoromethyl)phenyl]ethoxy]thiophene-2-carboxamide × 2 SO4 SULFATE ION × 8 CL CHLORIDE ION × 1 GOL GLYCEROL × 5 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, HANGING DROP；pH 6.5；293 K；sodium acetate, ammonium sulphate, MES
|
Resolution 2.60 Å R-free 0.218 |
| 9R8B CRYSTAL STRUCTURE OF WILD-TYPE PLK1 KINASE DOMAIN IN COMPLEX WITH THIAZOLIDINONE INHIBITOR COMPOUND 1 AND A SELECTIVE DARPIN Deposited 2025-05-16 | Different construct Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric |
Chain A
33–345（313 aa）
|
Not recorded | A1JCP (2~{Z})-2-cyano-2-[3-ethyl-5-[(~{E})-[2-[methyl-(1-methylpiperidin-4-yl)amino]pyridin-4-yl]iminomethyl]-4-oxidanylidene-1,3-thiazol-2-ylidene]-~{N}-[2,2,2-tris(fluoranyl)ethyl]ethanamide × 1 GOL GLYCEROL × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, HANGING DROP；pH 8；303 K；0.1 M TRIS-HCL PH 8.0, 8% PEG 5000 MME, 0.01 M EDTA SODIUM SALT AT 303 K.
|
Resolution 2.20 Å R-free 0.238 |
| 9R8B CRYSTAL STRUCTURE OF WILD-TYPE PLK1 KINASE DOMAIN IN COMPLEX WITH THIAZOLIDINONE INHIBITOR COMPOUND 1 AND A SELECTIVE DARPIN Deposited 2025-05-16 | Different construct Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 2 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric |
Chain B
33–345（313 aa）
|
Not recorded | A1JCP (2~{Z})-2-cyano-2-[3-ethyl-5-[(~{E})-[2-[methyl-(1-methylpiperidin-4-yl)amino]pyridin-4-yl]iminomethyl]-4-oxidanylidene-1,3-thiazol-2-ylidene]-~{N}-[2,2,2-tris(fluoranyl)ethyl]ethanamide × 1 GOL GLYCEROL × 1 CL CHLORIDE ION × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, HANGING DROP；pH 8；303 K；0.1 M TRIS-HCL PH 8.0, 8% PEG 5000 MME, 0.01 M EDTA SODIUM SALT AT 303 K.
|
Resolution 2.20 Å R-free 0.238 |
| 9R8C CRYSTAL STRUCTURE OF WILD-TYPE PLK1 KINASE DOMAIN IN COMPLEX WITH THIAZOLIDINONE INHIBITOR COMPOUND 1 AND A SELECTIVE DARPIN Deposited 2025-05-16 | Different construct Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric |
Chain A
33–345（313 aa）
|
Not recorded | R78 4-{[(7R)-8-cyclopentyl-7-ethyl-5-methyl-6-oxo-5,6,7,8-tetrahydropteridin-2-yl]amino}-3-methoxy-N-(1-methylpiperidin-4-yl)benzamide × 1 GOL GLYCEROL × 3 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, HANGING DROP；pH 8；303 K；0.1 M TRIS-HCL PH 8.0, 8% PEG 5000 MME, 0.01 M EDTA SODIUM SALT
|
Resolution 2.24 Å R-free 0.236 |
| 9R8C CRYSTAL STRUCTURE OF WILD-TYPE PLK1 KINASE DOMAIN IN COMPLEX WITH THIAZOLIDINONE INHIBITOR COMPOUND 1 AND A SELECTIVE DARPIN Deposited 2025-05-16 | Different construct Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 2 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric |
Chain B
33–345（313 aa）
|
Not recorded | R78 4-{[(7R)-8-cyclopentyl-7-ethyl-5-methyl-6-oxo-5,6,7,8-tetrahydropteridin-2-yl]amino}-3-methoxy-N-(1-methylpiperidin-4-yl)benzamide × 1 GOL GLYCEROL × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, HANGING DROP；pH 8；303 K；0.1 M TRIS-HCL PH 8.0, 8% PEG 5000 MME, 0.01 M EDTA SODIUM SALT
|
Resolution 2.24 Å R-free 0.236 |
84 other PDB entries and 112 assemblies. Open the comparison page and filter oligomeric states
View Construct and Data Evidence
| UniProt name | PLK1_HUMAN |
| Isoform | — |
| PDB entities | 1 |
| Chains and sequence ranges | Author chain A； PDBConstruct 5–237； UniProt 371–603 |
