MolNFT v1 · #125796 · protein
E. COLI bam complex (bamabcde) by cryoem
5LJO · Outer membrane protein assembly factor bamb: “E. COLI bam complex (bamabcde) by cryoem”. Electron microscopy, 16 pockets (best druggability 0.79). MolNFT v1 #125796 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 5LJO
- Type
- protein
- Length
- 1,624 residues
- Chains
- 5
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Outer membrane protein assembly factor bamb; Outer membrane protein assembly factor bamc…
- UniProt
- P77774, P0A903, P0AC04, P0A938, B7MBF8
- Pockets
- 16 · best druggability 0.79
Structure
electron microscopy · 5 distinct chains · 21% helix, 34% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| B | Outer membrane protein assembly factor bamb | protein | 371 | 1% helix, 43% strand | P77774 |
| C | Outer membrane protein assembly factor bamc | protein | 165 | 12% helix, 31% strand | P0A903 |
| D | Outer membrane protein assembly factor bamd | protein | 218 | 76% helix, 0% strand | P0AC04 |
| E | Outer membrane protein assembly factor bame | protein | 87 | 15% helix, 31% strand | P0A938 |
| A | Outer membrane protein assembly factor bama | protein | 783 | 17% helix, 39% strand | B7MBF8 |
Pockets
16 pockets found on a 1 Å grid, 8 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 729 | 0.79 | 0.83 | 91 | empty |
| 2 | 765 | 0.76 | 0.80 | 58 | empty |
| 3 | 812 | 0.73 | 0.78 | 94 | empty |
| 4 | 202 | 0.60 | 0.82 | 35 | empty |
| 5 | 294 | 0.58 | 0.77 | 38 | empty |
Interfaces
7 interfaces between chains.
- C–D · 2796 Ų buried · 42 hydrogen bonds · protein-protein
- B–A · 1506 Ų buried · 24 hydrogen bonds · protein-protein
- D–A · 1335 Ų buried · 29 hydrogen bonds · protein-protein
- E–A · 716 Ų buried · 8 hydrogen bonds · protein-protein
- D–E · 657 Ų buried · 6 hydrogen bonds · protein-protein
Compared structures
- 5LJO · E. coli BAM complex (BamABCDE) by cryoEM · the same entry in another collection · chain A against A, TM-score 1.00
- P0AC04 · AlphaFold monomer V2.0 prediction for outer membrane protein assembly factor bamd (P0AC04) · a predicted model of the same protein · chain D against A, TM-score 0.97
- P77774 · AlphaFold monomer V2.0 prediction for outer membrane protein assembly factor bamb (P77774) · a predicted model of the same protein · chain B against A, TM-score 0.95
- P0A903 · AlphaFold monomer V2.0 prediction for outer membrane protein assembly factor bamc (P0A903) · a predicted model of the same protein · chain C against A, TM-score 0.86
- P0A938 · AlphaFold monomer V2.0 prediction for outer membrane protein assembly factor bame (P0A938) · a predicted model of the same protein · chain E against A, TM-score 0.84
- B7MBF8 · AlphaFold monomer V2.0 prediction for outer membrane protein assembly factor bama (B7MBF8) · a predicted model of the same protein · chain A against A, TM-score 0.57
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 P77774
- Every structure of UniProt P0A903
- Every structure of UniProt P0AC04
- Every structure of UniProt P0A938
- Every structure of UniProt B7MBF8
- Elsewhere: RCSB PDB 5LJO · PDBe 5LJO · UniProt P77774 · UniProt P0A903 · UniProt P0AC04 · UniProt P0A938 · UniProt B7MBF8
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