Research workbench
Structure of the E. COLI chaperone papd in complex with the pilin domain of the papgii adhesin
Analyse Structure of the E. COLI chaperone papd in complex with the pilin domain of the… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 3ME0
- Type
- protein
- Length
- 344 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Chaperone protein papd; Papg protein
- UniProt
- P15319, Q8FDY8
- Pockets
- 3 · best druggability 0.51
Structure
x-ray diffraction · 2 distinct chains · 5% helix, 51% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Chaperone protein papd | protein | 216 | 8% helix, 51% strand | P15319 |
| B | Papg protein | protein | 128 | 0% helix, 52% strand | Q8FDY8 |
Pockets
3 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 233 | 0.51 | 0.75 | 30 | empty |
| 2 | 95 | 0.35 | 0.74 | 18 | empty |
| 3 | 63 | 0.28 | 0.74 | 16 | empty |
Interfaces
1 interface between chains.
- A–B · 1904 Ų buried · 31 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 3 modified, 2 disulfide (engineered, disulfide).
Compared structures
- 3ME0 · Structure of the E. coli chaperone PAPD in complex with the pilin domain of the PapGII… · the same entry in another collection · chain A against A, TM-score 1.00
- P15319 · AlphaFold monomer V2.0 prediction for chaperone protein papd (P15319) · a predicted model of the same protein · chain A against A, TM-score 1.00
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 P15319
- Every structure of UniProt Q8FDY8
- Elsewhere: RCSB PDB 3ME0 · PDBe 3ME0 · UniProt P15319 · UniProt Q8FDY8
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