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Protein Structures and Oligomeric States

Enter a protein name, UniProt accession or PDB ID. Name searches ask you to confirm the protein identity before related structures are queried.

Current Protein Identity：P46100 New Search
12PDB entries
19Biological assembly
26chain/assembly records
Main Difference Dimensions in This Set
Different construct Different mutation/modification Different assembly state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics

Difference tags compare only the current result set; every original PDB and assembly record remains separate.

Related-Structure Differences

Each row represents one biological assembly in one PDB entry; multiple monomers of the same protein are listed separately.

PDB Entry Assembly / Oligomeric State Construct Mutations and Modifications Ligands, Ions and Non-polymers Experimental Method Experimental Conditions Structure Quality
2JM1 Structures and chemical shift assignments for the ADD domain of the ATRX protein Deposited 2006-09-13 Assembly 1 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric（1） Consistent with protein count
Chain A 159–296（138 aa） Fragment：ADD domain, residues 159-296
Not recorded ZN ZINC ION × 3 SOLUTION NMR
NMR measurement conditions pH 6.7；300 K；Ionic strength (raw mmCIF value) 0.5；Pressure ambient
NMR sample composition 0.7 mM [U-15N] ADD domain 156-296, 20 mM TRIS, 1 mM DTT, 100 uM zinc chloride, 0.5 M sodium chloride, 93% H2O, 7% D2O | 93% H2O/7% D2O
NMR sample composition 0.35 mM [U-13C; U-15N] ADD domain 156-296, 20 mM TRIS, 1 mM DTT, 100 uM zinc chloride, 0.5 M sodium chloride, 93% H2O, 7% D2O | 93% H2O/7% D2O
Resolution not provided
2LBM Solution structure of the ADD domain of ATRX complexed with histone tail H3 1-15 K9me3 Deposited 2011-04-08 Assembly 1 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric（2） Consistent with protein count
Chain A 159–296（138 aa） Fragment：UNP residues 159-296
Not recorded ZN ZINC ION × 3 SOLUTION NMR
NMR measurement conditions pH 7；300 K；Ionic strength (raw mmCIF value) 250；Pressure ambient
NMR sample composition 200 uM [U-98% 13C; U-98% 15N] ATRX ADD domain-1, 200 uM H3 tail 1-15 K9me3-2, 50 mM [U-99% 2H] TRIS-3, 200 mM sodium chloride-4, 150 uM zinc sulfate-5, 1 mM [U-99% 2H] DTT-6, 95% H2O/5% D2O | 95% H2O/5% D2O
NMR sample composition 200 uM [U-98% 13C; U-98% 15N] ATRX ADD domain-7, 200 uM H3 tail 1-15 K9me3-8, 50 mM [U-99% 2H] TRIS-9, 200 mM sodium chloride-10, 150 uM zinc sulfate-11, 1 mM [U-99% 2H] DTT-12, 100% D2O | 100% D2O
Resolution not provided
2LD1 Structures and chemical shift assignments for the ADD domain of the ATRX protein Deposited 2011-05-13 Assembly 1 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric（1） Consistent with protein count
Chain A 159–296（138 aa） Fragment：ADD DOMAIN, RESIDUES 159-296
Not recorded ZN ZINC ION × 3 SOLUTION NMR
NMR measurement conditions pH 6.7；300 K；Ionic strength (raw mmCIF value) 0.5；Pressure ambient
NMR sample composition 0.6-0.8 mM [U-15N] ADD_domain_163-296, 20 mM [U-2H] TRIS, 1 mM [U-2H] DTT, 100 uM zinc chloride, 0.5 M sodium chloride, 95% H2O/5% D2O | 95% H2O/5% D2O
NMR sample composition 0.3-0.4 mM [U-13C; U-15N] ADD_domain_163-296, 20 mM [U-2H] TRIS, 1 mM [U-2H] DTT, 100 uM zinc chloride, 0.5 M sodium chloride, 95% H2O/5% D2O | 95% H2O/5% D2O
Resolution not provided
3QL9 Monoclinic complex structure of ATRX ADD bound to histone H3K9me3 peptide Deposited 2011-02-02 Assembly 1 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric（2） Consistent with protein count
Chain A 167–289（123 aa） Fragment：N-terminal ADD domain, UNP residues 167-289
Mutation：K251R, F284Y ZN ZINC ION × 3 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；pH 6.1；277 K；14% PEG 4000, 0.1M MES, 0.2 M KCL, pH 6.1, VAPOR DIFFUSION, SITTING DROP, temperature 277K
Resolution 0.93 Å R-free 0.131
3QLA Hexagonal complex structure of ATRX ADD bound to H3K9me3 peptide Deposited 2011-02-02 Assembly 1 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric（2） Consistent with protein count
Chain A 167–289（123 aa） Fragment：N-terminal ADD domain, UNP residues 167-289
Mutation：K251R, F284Y ZN ZINC ION × 3 K POTASSIUM ION × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；pH 6.1；277 K；14% PEG 4000, 0.1M MES, 0.2M KCL, pH 6.1, VAPOR DIFFUSION, SITTING DROP, temperature 277K
Resolution 1.60 Å R-free 0.179
3QLA Hexagonal complex structure of ATRX ADD bound to H3K9me3 peptide Deposited 2011-02-02 Assembly 2 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric（2） Consistent with protein count
Chain D 167–289（123 aa） Fragment：N-terminal ADD domain, UNP residues 167-289
Mutation：K251R, F284Y ZN ZINC ION × 3 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；pH 6.1；277 K；14% PEG 4000, 0.1M MES, 0.2M KCL, pH 6.1, VAPOR DIFFUSION, SITTING DROP, temperature 277K
Resolution 1.60 Å R-free 0.179
3QLC Complex structure of ATRX ADD domain bound to unmodified H3 1-15 peptide Deposited 2011-02-02 Assembly 1 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric（2） Consistent with protein count
Chain A 167–289（123 aa） Fragment：N-terminal ADD domain, UNP residues 167-289
Mutation：K251R, F284Y ZN ZINC ION × 3 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；pH 7.5；277 K；24% PEG 3350, 0.1M HEPES-NaOH, 0.2M KCL, pH 7.5, VAPOR DIFFUSION, SITTING DROP, temperature 277K
Resolution 2.50 Å R-free 0.241
3QLC Complex structure of ATRX ADD domain bound to unmodified H3 1-15 peptide Deposited 2011-02-02 Assembly 2 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric（2） Consistent with protein count
Chain B 167–289（123 aa） Fragment：N-terminal ADD domain, UNP residues 167-289
Mutation：K251R, F284Y ZN ZINC ION × 3 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；pH 7.5；277 K；24% PEG 3350, 0.1M HEPES-NaOH, 0.2M KCL, pH 7.5, VAPOR DIFFUSION, SITTING DROP, temperature 277K
Resolution 2.50 Å R-free 0.241
3QLN Crystal structure of ATRX ADD domain in free state Deposited 2011-02-03 Assembly 1 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric（1） Consistent with protein count
Chain A 167–289（123 aa） Fragment：N-terminal ADD domain, UNP residues 167-289
Mutation：K251R, F284Y ZN ZINC ION × 3 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；pH 7.5；277 K；25% (v/v) PEG 4000, 100mM HEPES-NaOH, 0.2M KCL, pH 7.5, VAPOR DIFFUSION, SITTING DROP, temperature 277K
Resolution 1.90 Å R-free 0.158
3QLN Crystal structure of ATRX ADD domain in free state Deposited 2011-02-03 Assembly 2 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric（1） Consistent with protein count
Chain B 167–289（123 aa） Fragment：N-terminal ADD domain, UNP residues 167-289
Mutation：K251R, F284Y ZN ZINC ION × 3 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；pH 7.5；277 K；25% (v/v) PEG 4000, 100mM HEPES-NaOH, 0.2M KCL, pH 7.5, VAPOR DIFFUSION, SITTING DROP, temperature 277K
Resolution 1.90 Å R-free 0.158
4W5A Complex structure of ATRX ADD bound to H3K9me3S10ph peptide Deposited 2014-08-17 Assembly 1 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric（2） Consistent with protein count
Chain A 167–289（123 aa） Fragment：UNP residues 167-289
Mutation：K251R, F284Y ZN ZINC ION × 3 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；277 K；13-20% PEG 4000, 0.1 M MES, 3 mM MgCl2
Resolution 2.60 Å R-free 0.260
4W5A Complex structure of ATRX ADD bound to H3K9me3S10ph peptide Deposited 2014-08-17 Assembly 2 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric（2） Consistent with protein count
Chain B 167–289（123 aa） Fragment：UNP residues 167-289
Mutation：K251R, F284Y ZN ZINC ION × 3 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；277 K；13-20% PEG 4000, 0.1 M MES, 3 mM MgCl2
Resolution 2.60 Å R-free 0.260
4W5A Complex structure of ATRX ADD bound to H3K9me3S10ph peptide Deposited 2014-08-17 Assembly 3 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric（2） Consistent with protein count
Chain E 167–289（123 aa） Fragment：UNP residues 167-289
Mutation：K251R, F284Y ZN ZINC ION × 3 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；277 K；13-20% PEG 4000, 0.1 M MES, 3 mM MgCl2
Resolution 2.60 Å R-free 0.260
5GRQ Crystal Structure of DHB domain of Daxx in complex with an ATRX peptide Deposited 2016-08-12 Assembly 1 Protein heterocomplex Heteromer；Protein × 4 PDB declaration: tetrameric（4） Consistent with protein count
Chain C 1256–1285（30 aa） Fragment：DID domain, UNP residues 1256-1285
Chain D 1256–1285（30 aa） Fragment：DID domain, UNP residues 1256-1285
Not recorded ACT ACETATE ION × 5 GOL GLYCEROL × 1 CL CHLORIDE ION × 4 ZN ZINC ION × 11 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；pH 6；291 K；100mM MES 6.0, 100mM zinc acetate, 13% ethanol
Resolution 1.58 Å R-free 0.179
5Y18 Crystal structure of DAXX helical bundle domain in complex with ATRX Deposited 2017-07-19 Assembly 1 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric（2） Consistent with protein count
Chain B 1268–1289（22 aa） Fragment：UNP residues 1268-1289
Non-standard monomer：Yes (specific site not provided by mmCIF) No recorded non-water small molecule X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；pH 6.5；289 K；0.1M sodium citrate, pH6.5, 0.2M ammonium acetate, 30% PEG4000
Resolution 2.20 Å R-free 0.219
5Y6O Crystal structure of DAXX N-terminal four-helix bundle domain (4HB) in complex with ATRX Deposited 2017-08-13 Assembly 1 Insufficient information Homooligomer；Protein × 3 PDB declaration: trimeric（3） Consistent with protein count
Chain A 1265–1288（24 aa） Fragment：UNP residues 50-144,UNP residues 1265-1288
Chain B 1265–1288（24 aa） Fragment：UNP residues 50-144,UNP residues 1265-1288
Chain C 1265–1288（24 aa） Fragment：UNP residues 50-144,UNP residues 1265-1288
Not recorded No recorded non-water small molecule X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；pH 6.8；293 K；The DAXX 4HB_ATRX DBM fusion protein at 26 mg/ml was crystallized under conditions of 0.1M Sodium Cacodylate, pH 6.8, 1.2 M Ammonium Sulfate and 3% 1, 5- Diaminopentane Dihydrochloride, using sitting-drop vapor-diffusion method at 293K. In this process, o.5 uL of protein was mixed with 0.5 uL of mother liquor. All the crystals were soaked in a cryoprotectant made from mother liquor supplemented with 25% glycerol before flash freezing in liquid nitrogen.
Resolution 3.10 Å R-free 0.297
5Y6O Crystal structure of DAXX N-terminal four-helix bundle domain (4HB) in complex with ATRX Deposited 2017-08-13 Assembly 2 Insufficient information Homooligomer；Protein × 3 PDB declaration: trimeric（3） Consistent with protein count
Chain D 1265–1288（24 aa） Fragment：UNP residues 50-144,UNP residues 1265-1288
Chain E 1265–1288（24 aa） Fragment：UNP residues 50-144,UNP residues 1265-1288
Chain F 1265–1288（24 aa） Fragment：UNP residues 50-144,UNP residues 1265-1288
Not recorded No recorded non-water small molecule X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；pH 6.8；293 K；The DAXX 4HB_ATRX DBM fusion protein at 26 mg/ml was crystallized under conditions of 0.1M Sodium Cacodylate, pH 6.8, 1.2 M Ammonium Sulfate and 3% 1, 5- Diaminopentane Dihydrochloride, using sitting-drop vapor-diffusion method at 293K. In this process, o.5 uL of protein was mixed with 0.5 uL of mother liquor. All the crystals were soaked in a cryoprotectant made from mother liquor supplemented with 25% glycerol before flash freezing in liquid nitrogen.
Resolution 3.10 Å R-free 0.297
5Y6O Crystal structure of DAXX N-terminal four-helix bundle domain (4HB) in complex with ATRX Deposited 2017-08-13 Assembly 3 Insufficient information Homooligomer；Protein × 3 PDB declaration: trimeric（3） Consistent with protein count
Chain G 1265–1288（24 aa） Fragment：UNP residues 50-144,UNP residues 1265-1288
Chain H 1265–1288（24 aa） Fragment：UNP residues 50-144,UNP residues 1265-1288
Chain I 1265–1288（24 aa） Fragment：UNP residues 50-144,UNP residues 1265-1288
Not recorded No recorded non-water small molecule X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；pH 6.8；293 K；The DAXX 4HB_ATRX DBM fusion protein at 26 mg/ml was crystallized under conditions of 0.1M Sodium Cacodylate, pH 6.8, 1.2 M Ammonium Sulfate and 3% 1, 5- Diaminopentane Dihydrochloride, using sitting-drop vapor-diffusion method at 293K. In this process, o.5 uL of protein was mixed with 0.5 uL of mother liquor. All the crystals were soaked in a cryoprotectant made from mother liquor supplemented with 25% glycerol before flash freezing in liquid nitrogen.
Resolution 3.10 Å R-free 0.297
6G0O Crystal Structure of the first bromodomain of human BRD4 in complex with an acetylated ATRX peptide (K1030ac/K1033ac) Deposited 2018-03-19 Assembly 1 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric（2） Consistent with protein count
Chain B 1027–1037（11 aa）
Non-standard monomer：Yes (specific site not provided by mmCIF) EDO 1,2-ETHANEDIOL × 3 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；pH 7；277 K；20.0 % PEG 6K 10.0 % EtGly 0.1 M HEPES pH 7.0 0.2 M LiCl
Resolution 1.40 Å R-free 0.166

This page presents structural evidence recorded in PDB/mmCIF.“No recorded non-water small molecule” does not prove that the experimental sample was ligand-free; experimental conditions belong to the PDB experiment, while ligands and copy counts are shown for each biological assembly.