Research workbench
Structure of bam in MSP1E3D1 nanodiscs prepared from E. COLI outer membranes
Analyse Structure of bam in MSP1E3D1 nanodiscs prepared from E. COLI outer membranes in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 7RI6
- Type
- protein
- Length
- 1,520 residues
- Chains
- 5
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Outer membrane protein assembly factor bama; Outer membrane protein assembly factor bamb…
- UniProt
- P0A940, A0A507WQ69, W8SZY2, C3SYV7, A0A3L5AP29
- Pockets
- 20 · best druggability 0.83
Structure
electron microscopy · 5 distinct chains · 21% helix, 24% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Outer membrane protein assembly factor bama | protein | 782 | 18% helix, 28% strand | P0A940 |
| B | Outer membrane protein assembly factor bamb | protein | 370 | 0% helix, 35% strand | A0A507WQ69 |
| C | Outer membrane protein assembly factor bamc | protein | 65 | 0% helix, 0% strand | W8SZY2 |
| D | Outer membrane protein assembly factor bamd | protein | 217 | 76% helix, 0% strand | C3SYV7 |
| E | Outer membrane protein assembly factor bame | protein | 86 | 14% helix, 21% strand | A0A3L5AP29 |
Pockets
20 pockets found on a 1 Å grid, 20 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 517 | 0.83 | 0.90 | 84 | empty |
| 2 | 707 | 0.82 | 0.85 | 78 | empty |
| 3 | 514 | 0.81 | 0.87 | 54 | empty |
| 4 | 177 | 0.81 | 0.95 | 34 | empty |
| 5 | 596 | 0.80 | 0.85 | 50 | empty |
Interfaces
6 interfaces between chains.
- C–D · 1721 Ų buried · 32 hydrogen bonds · protein-protein
- A–B · 1063 Ų buried · 14 hydrogen bonds · protein-protein
- A–D · 1011 Ų buried · 29 hydrogen bonds · protein-protein
- A–E · 675 Ų buried · 11 hydrogen bonds · protein-protein
- D–E · 473 Ų buried · 3 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 1 disulfide (disulfide).
Compared structures
- 7RI6 · Structure of BAM in MSP1E3D1 nanodiscs prepared from E. coli outer membranes · the same entry in another collection · chain A against A, TM-score 1.00
- P0A940 · AlphaFold monomer V2.0 prediction for outer membrane protein assembly factor bama (P0A940) · a predicted model of the same protein · chain A against A, TM-score 0.53
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 P0A940
- Every structure of UniProt A0A507WQ69
- Every structure of UniProt W8SZY2
- Every structure of UniProt C3SYV7
- Every structure of UniProt A0A3L5AP29
- Elsewhere: RCSB PDB 7RI6 · PDBe 7RI6 · UniProt P0A940 · UniProt A0A507WQ69 · UniProt W8SZY2 · UniProt C3SYV7 · UniProt A0A3L5AP29
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