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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：P0A6H1 New Search
21PDB entries
23Biological assembly
107chain/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
1OVX NMR structure of the E. coli ClpX chaperone zinc binding domain dimer Deposited 2003-03-27 Assembly 1 Protein homooligomer Homooligomer；Protein × 2 PDB declaration: dimeric（2） Consistent with protein count
Chain A 1–60（60 aa） Fragment：N-terminal domain (residues 1-60)
Chain B 1–60（60 aa） Fragment：N-terminal domain (residues 1-60)
Not recorded ZN ZINC ION × 2 SOLUTION NMR
NMR measurement conditions pH 7.5；303 K；Ionic strength (raw mmCIF value) 150 mM NaCl；Pressure ambient
NMR sample composition 1.3 mM ClpX U-15N,13C | 20 mM sodium phosphate buffer, 0.03% sodium azide, pH 7.5; 150 mM sodium chloride; 90% H2O, 10% H2O
Resolution not provided
2DS5 Structure of the ZBD in the orthorhomibic crystal from Deposited 2006-06-22 Assembly 1 Protein homooligomer Homooligomer；Protein × 2 PDB declaration: dimeric（2） Consistent with protein count
Chain A 1–51（51 aa） Fragment：Zinc binding domain(ZBD)
Chain B 1–51（51 aa） Fragment：Zinc binding domain(ZBD)
Not recorded ZN ZINC ION × 2 CA CALCIUM ION × 1 PG4 TETRAETHYLENE GLYCOL × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 7.5；295 K；100mM Hepes-NaOH, pH 7.5, 200mM calcium chloride, 30% PEG400, VAPOR DIFFUSION, HANGING DROP, temperature 295K
Resolution 1.50 Å R-free 0.221
2DS6 Structure of the ZBD in the tetragonal crystal form Deposited 2006-06-22 Assembly 1 Protein homooligomer Homooligomer；Protein × 2 PDB declaration: dimeric（2） Consistent with protein count
Chain A 1–51（51 aa） Fragment：Zinc binding domain(ZBD)
Chain B 1–51（51 aa） Fragment：Zinc binding domain(ZBD)
Not recorded ZN ZINC ION × 2 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 5.6；295 K；100mM tri-sodium citrate, pH 5.6, 2% ethyleneimine polymer, 500mM NaCl, VAPOR DIFFUSION, HANGING DROP, temperature 295K
Resolution 2.00 Å R-free 0.313
2DS7 Structure of the ZBD in the hexagonal crystal form Deposited 2006-06-22 Assembly 1 Protein homooligomer Homooligomer；Protein × 2 PDB declaration: dimeric（2） Consistent with protein count
Chain A 1–51（51 aa） Fragment：Zinc binding domain(ZBD)
Mutation：C43M Non-standard monomer：Yes (specific site not provided by mmCIF) ZN ZINC ION × 2 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 4.6；295 K；100mM sodium acetate, pH 4.6, 200mM lithium sulfate, 12% 2-propanol, VAPOR DIFFUSION, HANGING DROP, temperature 295K
Resolution 2.50 Å R-free 0.272
2DS8 Structure of the ZBD-XB complex Deposited 2006-06-22 Assembly 1 Protein heterocomplex Heteromer；Protein × 4 PDB declaration: tetrameric（4） Consistent with protein count
Chain A 1–51（51 aa） Fragment：Zinc binding domain(ZBD)
Chain B 1–51（51 aa） Fragment：Zinc binding domain(ZBD)
Not recorded ZN ZINC ION × 2 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 6.5；295 K；1.6M tri-sodium citrate, pH 6.5, 10-fold molar excess of XB peptide addition, VAPOR DIFFUSION, HANGING DROP, temperature 295K
Resolution 1.60 Å R-free 0.226
3HTE Crystal structure of nucleotide-free hexameric ClpX Deposited 2009-06-11 Assembly 1 Protein homooligomer Homooligomer；Protein × 6 PDB declaration: hexameric（6） Consistent with protein count
Chain A 62–424（363 aa） Fragment：Covalently linked ClpX residues 62-424
Chain B 62–424（363 aa） Fragment：Covalently linked ClpX residues 62-424
Chain C 62–424（363 aa） Fragment：Covalently linked ClpX residues 62-424
Chain D 62–424（363 aa） Fragment：Covalently linked ClpX residues 62-424
Chain E 62–424（363 aa） Fragment：Covalently linked ClpX residues 62-424
Chain F 62–424（363 aa） Fragment：Covalently linked ClpX residues 62-424
Not recorded SO4 SULFATE ION × 6 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 4.8；298 K；75 mM Sodium acetate, 1.9 M ammonium sulfate, pH 4.8, VAPOR DIFFUSION, HANGING DROP, temperature 298K
Resolution 4.03 Å R-free 0.313
3HWS Crystal structure of nucleotide-bound hexameric ClpX Deposited 2009-06-18 Assembly 1 Protein homooligomer Homooligomer；Protein × 6 PDB declaration: hexameric（6） Consistent with protein count
Chain A 62–424（363 aa） Fragment：covalently linked ClpX lacking N-terminal domain
Chain B 62–424（363 aa） Fragment：covalently linked ClpX lacking N-terminal domain
Chain C 62–424（363 aa） Fragment：covalently linked ClpX lacking N-terminal domain
Chain D 62–424（363 aa） Fragment：covalently linked ClpX lacking N-terminal domain
Chain E 62–424（363 aa） Fragment：covalently linked ClpX lacking N-terminal domain
Chain F 62–424（363 aa） Fragment：covalently linked ClpX lacking N-terminal domain
Mutation：E185Q, K408E Mutation：E185Q, K408E Mutation：E185Q, K408E Mutation：E185Q, K408E Mutation：E185Q, K408E Mutation：E185Q, K408E ADP ADENOSINE-5'-DIPHOSPHATE × 4 SO4 SULFATE ION × 13 MG MAGNESIUM ION × 2 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 4.8；298 K；Sodium acetate, ammonium sulfate Soaked overnight in mother liquor plus 5 mM ATP-G-S / 5 mM magnesium chloride, pH 4.8, VAPOR DIFFUSION, HANGING DROP, temperature 298K
Resolution 3.25 Å R-free 0.282
3HWS Crystal structure of nucleotide-bound hexameric ClpX Deposited 2009-06-18 Assembly 2 Protein homooligomer Homooligomer；Protein × 3 PDB declaration: trimeric（3） Consistent with protein count
Chain A 62–424（363 aa） Fragment：covalently linked ClpX lacking N-terminal domain
Chain E 62–424（363 aa） Fragment：covalently linked ClpX lacking N-terminal domain
Chain F 62–424（363 aa） Fragment：covalently linked ClpX lacking N-terminal domain
Mutation：E185Q, K408E Mutation：E185Q, K408E Mutation：E185Q, K408E ADP ADENOSINE-5'-DIPHOSPHATE × 2 SO4 SULFATE ION × 4 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 4.8；298 K；Sodium acetate, ammonium sulfate Soaked overnight in mother liquor plus 5 mM ATP-G-S / 5 mM magnesium chloride, pH 4.8, VAPOR DIFFUSION, HANGING DROP, temperature 298K
Resolution 3.25 Å R-free 0.282
3HWS Crystal structure of nucleotide-bound hexameric ClpX Deposited 2009-06-18 Assembly 3 Protein homooligomer Homooligomer；Protein × 3 PDB declaration: trimeric（3） Consistent with protein count
Chain B 62–424（363 aa） Fragment：covalently linked ClpX lacking N-terminal domain
Chain C 62–424（363 aa） Fragment：covalently linked ClpX lacking N-terminal domain
Chain D 62–424（363 aa） Fragment：covalently linked ClpX lacking N-terminal domain
Mutation：E185Q, K408E Mutation：E185Q, K408E Mutation：E185Q, K408E ADP ADENOSINE-5'-DIPHOSPHATE × 2 SO4 SULFATE ION × 9 MG MAGNESIUM ION × 2 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 4.8；298 K；Sodium acetate, ammonium sulfate Soaked overnight in mother liquor plus 5 mM ATP-G-S / 5 mM magnesium chloride, pH 4.8, VAPOR DIFFUSION, HANGING DROP, temperature 298K
Resolution 3.25 Å R-free 0.282
4I34 Crystal Structure of W-W-W ClpX Hexamer Deposited 2012-11-23 Assembly 1 Protein homooligomer Homooligomer；Protein × 6 PDB declaration: hexameric（6） Consistent with protein count
Chain A 62–424（363 aa）
Chain B 62–424（363 aa）
Chain C 62–424（363 aa）
Chain D 62–424（363 aa）
Chain E 62–424（363 aa）
Chain F 62–424（363 aa）
Not recorded SO4 SULFATE ION × 6 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION；pH 4.8；298 K；75 mM sodium acetate, 1.9 M ammonium sulfate, pH 4.8, VAPOR DIFFUSION, temperature 298K
Resolution 4.12 Å R-free 0.308
4I4L Crystal Structure of Nucleotide-Bound W-W-W ClpX Hexamer Deposited 2012-11-27 Assembly 1 Protein homooligomer Homooligomer；Protein × 6 PDB declaration: hexameric（6） Consistent with protein count
Chain A 62–424（363 aa）
Chain B 62–424（363 aa）
Chain C 62–424（363 aa）
Chain D 62–424（363 aa）
Chain E 62–424（363 aa）
Chain F 62–424（363 aa）
Not recorded ADP ADENOSINE-5'-DIPHOSPHATE × 1 SO4 SULFATE ION × 6 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION；pH 4.8；298 K；75 mM sodium acetate, 1.9 M ammonium sulfate, pH 4.8, VAPOR DIFFUSION, temperature 298K
Resolution 3.70 Å R-free 0.323
4I5O Crystal Structure of W-W-R ClpX Hexamer Deposited 2012-11-28 Assembly 1 Protein homooligomer Homooligomer；Protein × 6 PDB declaration: hexameric（6） Consistent with protein count
Chain A 62–424（363 aa）
Chain B 62–424（363 aa）
Chain C 62–424（363 aa）
Chain D 62–424（363 aa）
Chain E 62–424（363 aa）
Chain F 62–424（363 aa）
Not recorded SO4 SULFATE ION × 6 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION；pH 9；298 K；2.2 M ammonium sulfate, 0.2 M ammonium bromide, 0.1 M Bicine, pH 9.0, VAPOR DIFFUSION, temperature 298K
Resolution 4.48 Å R-free 0.323
4I63 Crystal Structure of E-R ClpX Hexamer Deposited 2012-11-29 Assembly 1 Protein homooligomer Homooligomer；Protein × 6 PDB declaration: hexameric（6） Consistent with protein count
Chain A 62–424（363 aa）
Chain B 62–424（363 aa）
Chain C 62–424（363 aa）
Chain D 62–424（363 aa）
Chain E 62–424（363 aa）
Chain F 62–424（363 aa）
Not recorded SO4 SULFATE ION × 6 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION；pH 9；298 K；2.2 M ammonium sulfate, 0.2 M ammonium bromide, 0.1 M bicine, pH 9.0, VAPOR DIFFUSION, temperature 298K
Resolution 5.71 Å R-free 0.315
4I81 Crystal Structure of ATPgS bound ClpX Hexamer Deposited 2012-12-01 Assembly 1 Protein homooligomer Homooligomer；Protein × 6 PDB declaration: hexameric（6） Consistent with protein count
Chain A 62–424（363 aa）
Chain B 62–424（363 aa）
Chain C 62–424（363 aa）
Chain D 62–424（363 aa）
Chain E 62–424（363 aa）
Chain F 62–424（363 aa）
Not recorded AGS PHOSPHOTHIOPHOSPHORIC ACID-ADENYLATE ESTER × 4 SO4 SULFATE ION × 2 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION；pH 4.8；298 K；75 mM sodium acetate, 1.9 M ammonium sulfate, pH 4.8, VAPOR DIFFUSION, temperature 298K
Resolution 3.82 Å R-free 0.295
4I9K Crystal structure of symmetric W-W-W ClpX Hexamer Deposited 2012-12-05 Assembly 1 Protein homooligomer Homooligomer；Protein × 6 PDB declaration: hexameric（6） Consistent with protein count
Chain A 62–424（363 aa）
Chain B 62–424（363 aa）
Not recorded SO4 SULFATE ION × 12 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION；pH 7.5；298 K；2 M ammonium sulfate, 0.15 M potassium sulfate, 4 mM ATP, 4 mM magnesium sulfate, 50 mM EDTA, pH 7.5, VAPOR DIFFUSION, temperature 298K
Resolution 5.00 Å R-free 0.354
6WR2 ClpP and ClpX IGF loop in ClpX-ClpP complex bound to ssrA tagged GFP Deposited 2020-04-29 Assembly 1 Protein heterocomplex Heteromer；Protein × 20 PDB declaration: eicosameric（20） Consistent with protein count
Chain A 62–424（363 aa）
Chain B 62–424（363 aa）
Chain C 62–424（363 aa）
Chain D 62–424（363 aa）
Chain E 62–424（363 aa）
Chain F 62–424（363 aa）
Not recorded No recorded non-water small molecule ELECTRON MICROSCOPY
cryo-EM buffer pH 7.5
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 2.88 Å
6WRF ClpX-ClpP complex bound to GFP-ssrA, recognition complex Deposited 2020-04-29 Assembly 1 Protein heterocomplex Heteromer；Protein × 14 PDB declaration: tetradecameric（14） Consistent with protein count
Chain A 62–424（363 aa）
Chain B 62–424（363 aa）
Chain C 62–424（363 aa）
Chain D 62–424（363 aa）
Chain E 62–424（363 aa）
Chain F 62–424（363 aa）
Not recorded AGS PHOSPHOTHIOPHOSPHORIC ACID-ADENYLATE ESTER × 5 MG MAGNESIUM ION × 5 ADP ADENOSINE-5'-DIPHOSPHATE × 1 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.5
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 3.14 Å
6WSG ClpX-ClpP complex bound to ssrA-tagged GFP, intermediate complex Deposited 2020-04-30 Assembly 1 Protein heterocomplex Heteromer；Protein × 14 PDB declaration: tetradecameric（14） Consistent with protein count
Chain A 62–424（363 aa） Fragment：UNP residues 62-424
Chain B 62–424（363 aa） Fragment：UNP residues 62-424
Chain C 62–424（363 aa） Fragment：UNP residues 62-424
Chain D 62–424（363 aa） Fragment：UNP residues 62-424
Chain E 62–424（363 aa） Fragment：UNP residues 62-424
Chain F 62–424（363 aa） Fragment：UNP residues 62-424
Not recorded AGS PHOSPHOTHIOPHOSPHORIC ACID-ADENYLATE ESTER × 5 MG MAGNESIUM ION × 4 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.5
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 3.16 Å
8E7V Cryo-EM structure of substrate-free DNClpX.ClpP from singly capped particles Deposited 2022-08-24 Assembly 1 Protein heterocomplex Heteromer；Protein × 20 PDB declaration: eicosameric（20） Consistent with protein count
Chain A 62–424（363 aa） Fragment：UNP residues 62-424
Chain B 62–424（363 aa） Fragment：UNP residues 62-424
Chain C 62–424（363 aa） Fragment：UNP residues 62-424
Chain D 62–424（363 aa） Fragment：UNP residues 62-424
Chain E 62–424（363 aa） Fragment：UNP residues 62-424
Chain F 62–424（363 aa） Fragment：UNP residues 62-424
Mutation：C169S, K408E Mutation：C169S, K408E Mutation：C169S, K408E Mutation：C169S, K408E Mutation：C169S, K408E Mutation：C169S, K408E ATP ADENOSINE-5'-TRIPHOSPHATE × 4 MG MAGNESIUM ION × 3 ADP ADENOSINE-5'-DIPHOSPHATE × 2 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.5
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 3.10 Å
8E8Q Cryo-EM structure of substrate-free DNClpX.ClpP Deposited 2022-08-25 Assembly 1 Protein heterocomplex Heteromer；Protein × 20 PDB declaration: eicosameric（20） Consistent with protein count
Chain A 62–424（363 aa） Fragment：UNP residues 62-424
Chain B 62–424（363 aa） Fragment：UNP residues 62-424
Chain C 62–424（363 aa） Fragment：UNP residues 62-424
Chain D 62–424（363 aa） Fragment：UNP residues 62-424
Chain E 62–424（363 aa） Fragment：UNP residues 62-424
Chain F 62–424（363 aa） Fragment：UNP residues 62-424
Mutation：C169S, K408E Mutation：C169S, K408E Mutation：C169S, K408E Mutation：C169S, K408E Mutation：C169S, K408E Mutation：C169S, K408E ATP ADENOSINE-5'-TRIPHOSPHATE × 4 MG MAGNESIUM ION × 3 ADP ADENOSINE-5'-DIPHOSPHATE × 2 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.5
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 3.12 Å
8V9R Cryo-EM Structure of a Proteolytic ClpXP AAA+ Machine Poised to Unfold a Branched-Degron DHFR-ssrA Substrate Bound with MTX Deposited 2023-12-09 Assembly 1 Protein heterocomplex Heteromer；Protein × 21 PDB declaration: 21-meric（21） Consistent with protein count
Chain A 62–424（363 aa） Fragment：UNP residues 62-424
Chain B 62–424（363 aa） Fragment：UNP residues 62-424
Chain C 62–424（363 aa） Fragment：UNP residues 62-424
Chain D 62–424（363 aa） Fragment：UNP residues 62-424
Chain E 62–424（363 aa） Fragment：UNP residues 62-424
Chain F 62–424（363 aa） Fragment：UNP residues 62-424
Not recorded ATP ADENOSINE-5'-TRIPHOSPHATE × 3 MG MAGNESIUM ION × 4 ADP ADENOSINE-5'-DIPHOSPHATE × 3 MTX METHOTREXATE × 1 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.5
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 2.80 Å
9C87 Cryo-EM Structure of a Proteolytic ClpXP AAA+ Machine Poised to Unfold a Linear-Degron DHFR-ssrA Substrate Bound with MTX Deposited 2024-06-12 Assembly 1 Protein heterocomplex Heteromer；Protein × 21 PDB declaration: 21-meric（21） Consistent with protein count
Chain A 62–424（363 aa）
Chain B 62–424（363 aa）
Chain C 62–424（363 aa）
Chain D 62–424（363 aa）
Chain E 62–424（363 aa）
Chain F 62–424（363 aa）
Not recorded ATP ADENOSINE-5'-TRIPHOSPHATE × 3 MG MAGNESIUM ION × 4 ADP ADENOSINE-5'-DIPHOSPHATE × 3 MTX METHOTREXATE × 1 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.5
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 3.70 Å
9C88 Cryo-EM Structure of a Proteolytic ClpXP AAA+ Machine Translocating a Portion of a Branched-Degron DHFR Substrate Deposited 2024-06-12 Assembly 1 Protein heterocomplex Heteromer；Protein × 21 PDB declaration: 21-meric（21） Consistent with protein count
Chain A 62–424（363 aa） Fragment：UNP residues 62-424
Chain B 62–424（363 aa） Fragment：UNP residues 62-424
Chain C 62–424（363 aa） Fragment：UNP residues 62-424
Chain D 62–424（363 aa） Fragment：UNP residues 62-424
Chain E 62–424（363 aa） Fragment：UNP residues 62-424
Chain F 62–424（363 aa） Fragment：UNP residues 62-424
Not recorded ATP ADENOSINE-5'-TRIPHOSPHATE × 3 MG MAGNESIUM ION × 4 ADP ADENOSINE-5'-DIPHOSPHATE × 3 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.5
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 2.60 Å

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.