Research workbench
Crystal structure of the CAF1A usher protein N-terminal domain from yersinia pestis
Analyse Crystal structure of the CAF1A usher protein N-terminal domain from yersinia… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 4B0E
- Type
- protein
- Length
- 385 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- F1 capsule-anchoring protein
- UniProt
- P26949
- Pockets
- 6 · best druggability 0.43
Structure
x-ray diffraction · 4 distinct chains · 22% helix, 44% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | F1 capsule-anchoring protein | protein | 96 | 23% helix, 44% strand | P26949 |
| B | F1 capsule-anchoring protein | protein | 98 | 19% helix, 44% strand | P26949 |
| C | F1 capsule-anchoring protein | protein | 91 | 20% helix, 47% strand | P26949 |
| D | F1 capsule-anchoring protein | protein | 100 | 25% helix, 42% strand | P26949 |
Pockets
6 pockets found on a 1 Å grid, 0 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 112 | 0.43 | 0.77 | 20 | empty |
| 2 | 140 | 0.42 | 0.74 | 20 | empty |
| 3 | 58 | 0.33 | 0.76 | 13 | empty |
| 4 | 64 | 0.31 | 0.75 | 10 | empty |
| 5 | 52 | 0.30 | 0.77 | 15 | empty |
Interfaces
3 interfaces between chains.
- A–C · 415 Ų buried · 5 hydrogen bonds · protein-protein
- A–D · 323 Ų buried · 4 hydrogen bonds · protein-protein
- A–B · 99 Ų buried · 1 hydrogen bond · protein-protein
Modifications
Observed in the structure: 4 disulfide (disulfide).
Compared structures
- 4B0E · Crystal structure of the Caf1A usher protein N-terminal domain from Yersinia pestis · the same entry in another collection · chain D against D, TM-score 1.00
- P26949 · AlphaFold monomer V2.0 prediction for F1 capsule-anchoring protein (P26949) · a predicted model of the same protein · chain C against A, TM-score 0.97
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 P26949
- Elsewhere: RCSB PDB 4B0E · PDBe 4B0E · UniProt P26949
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