Research workbench
COLICINE9 intact translocation complex
Analyse COLICINE9 intact translocation complex in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 7NSU
- Type
- protein
- Length
- 2,410 residues
- Chains
- 6
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Outer membrane protein F; Colicin-E9; Tol-pal system protein tolb; Vitamin B12…
- EC
- 3.1.-.-
- UniProt
- P02931, P09883, A0A6D2XIU5, P06129
- Pockets
- 20 · best druggability 0.86
Structure
electron microscopy · 4 distinct chains · 15% helix, 45% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B, C | Outer membrane protein F | protein | 340 | 4% helix, 57% strand | P02931 |
| D | Colicin-E9 (EC 3.1.-.-) | protein | 420 | 40% helix, 20% strand | P09883 |
| E | Tol-pal system protein tolb | protein | 394 | 11% helix, 42% strand | A0A6D2XIU5 |
| F | Vitamin B12 transporter btub | protein | 576 | 6% helix, 58% strand | P06129 |
Pockets
20 pockets found on a 1 Å grid, 16 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 546 | 0.86 | 0.93 | 69 | empty |
| 2 | 841 | 0.80 | 0.83 | 98 | empty |
| 3 | 406 | 0.80 | 0.88 | 41 | empty |
| 4 | 134 | 0.79 | 0.97 | 36 | empty |
| 5 | 519 | 0.76 | 0.84 | 57 | empty |
Interfaces
9 interfaces between chains.
- A–B · 1377 Ų buried · 11 hydrogen bonds · protein-protein
- A–C · 1374 Ų buried · 16 hydrogen bonds · protein-protein
- B–C · 1349 Ų buried · 15 hydrogen bonds · protein-protein
- A–D · 1348 Ų buried · 23 hydrogen bonds · protein-protein
- C–D · 1061 Ų buried · 17 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 1 disulfide (disulfide).
Compared structures
- 7NSU · ColicinE9 intact translocation complex · the same entry in another collection · chain F against F, TM-score 1.00
- P02931 · AlphaFold monomer V2.0 prediction for outer membrane porin F (P02931) · a predicted model of the same protein · chain A against A, TM-score 0.99
- P06129 · AlphaFold monomer V2.0 prediction for vitamin B12 transporter btub (P06129) · a predicted model of the same protein · chain F against A, TM-score 0.98
- P09883 · AlphaFold monomer V2.0 prediction for colicin-E9 (P09883) · a predicted model of the same protein · chain D against A, TM-score 0.61
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 P02931
- Every structure of UniProt P09883
- Every structure of UniProt A0A6D2XIU5
- Every structure of UniProt P06129
- Elsewhere: RCSB PDB 7NSU · PDBe 7NSU · UniProt P02931 · UniProt P09883 · UniProt A0A6D2XIU5 · UniProt P06129
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