Research workbench
Crystal structure of P5 A0 in a complex with PRX4 C-term
Analyse Crystal structure of P5 A0 in a complex with PRX4 C-term in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 3W8J
- Type
- protein
- Length
- 255 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Protein disulfide-isomerase A6; C-terminal peptide from peroxiredoxin-4
- EC
- 5.3.4.1, 1.11.1.15
- UniProt
- Q15084, O08807
- Ligands
- K
Structure
x-ray diffraction · 3 distinct chains · 39% helix, 20% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Protein disulfide-isomerase A6 (EC 5.3.4.1) | protein | 121 | 40% helix, 19% strand | Q15084 |
| B | Protein disulfide-isomerase A6 (EC 5.3.4.1) | protein | 122 | 39% helix, 20% strand | Q15084 |
| C, D | C-terminal peptide from peroxiredoxin-4 (EC 1.11.1.15) | protein | 6 | 0% helix, 33% strand | O08807 |
Ligands and binding sites
- K · Potassium ion · metal · 4 copies · chains A, B
- GOL · Glycerol · additive · 4 copies · chains B, D
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Interfaces
3 interfaces between chains.
- A–B · 845 Ų buried · 9 hydrogen bonds · protein-protein
- A–C · 319 Ų buried · 6 hydrogen bonds · protein-protein
- B–D · 301 Ų buried · 6 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 2 disulfide (disulfide).
Compared structures
- 3W8J · Crystal structure of P5 a0 in a complex with Prx4 c-term · the same entry in another collection · chain A against A, TM-score 1.00
- Q15084 · AlphaFold monomer V2.0 prediction for protein disulfide-isomerase A6 (Q15084) · a predicted model of the same protein · chain A against A, TM-score 0.99
- O08807 · AlphaFold monomer V2.0 prediction for peroxiredoxin-4 (O08807) · a predicted model of the same protein · chain C against A, TM-score 0.59
Analyse
- Open in the research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides and crosslinks on the 3D structure
- Every structure of UniProt Q15084
- Every structure of UniProt O08807
- Elsewhere: RCSB PDB 3W8J · PDBe 3W8J · UniProt Q15084 · UniProt O08807
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