MolNFT v1 · #163890 · protein
Cryo-EM structure of escherichia COLI acrb and darpin in saposin a- nanodisc with cardiolipin
6SGT · Multidrug efflux pump subunit acrb: “Cryo-EM structure of escherichia COLI acrb and darpin in saposin a- nanodisc with cardiolipin”. Electron microscopy, 20 pockets (best druggability 0.87). MolNFT v1 #163890 on GenesisL1: 3D…
- PDB
- 6SGT
- Type
- protein
- Length
- 3,408 residues
- Chains
- 5
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Multidrug efflux pump subunit acrb; Darpin
- UniProt
- P31224
- Pockets
- 20 · best druggability 0.87
Structure
electron microscopy · 4 distinct chains · 48% helix, 14% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Multidrug efflux pump subunit acrb | protein | 1034 | 48% helix, 16% strand | P31224 |
| B, C | Multidrug efflux pump subunit acrb | protein | 1033 | 48% helix, 17% strand | P31224 |
| D | Darpin | protein | 156 | 47% helix, 0% strand | — |
| E | Darpin | protein | 152 | 49% helix, 0% strand | — |
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 | 704 | 0.87 | 0.91 | 88 | empty |
| 2 | 875 | 0.86 | 0.88 | 130 | empty |
| 3 | 586 | 0.84 | 0.89 | 79 | empty |
| 4 | 490 | 0.82 | 0.89 | 35 | empty |
| 5 | 1120 | 0.82 | 0.83 | 99 | empty |
Interfaces
7 interfaces between chains.
- A–B · 3577 Ų buried · 32 hydrogen bonds · protein-protein
- A–C · 3462 Ų buried · 34 hydrogen bonds · protein-protein
- B–C · 3155 Ų buried · 27 hydrogen bonds · protein-protein
- B–D · 939 Ų buried · 5 hydrogen bonds · protein-protein
- A–E · 865 Ų buried · 8 hydrogen bonds · protein-protein
Compared structures
- 6SGT · Cryo-EM structure of Escherichia coli AcrB and DARPin in Saposin A-nanodisc with… · the same entry in another collection · chain E against E, TM-score 1.00
- P31224 · AlphaFold monomer V2.0 prediction for multidrug efflux pump subunit acrb (P31224) · a predicted model of the same protein · chain C against A, TM-score 0.99
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 P31224
- Elsewhere: RCSB PDB 6SGT · PDBe 6SGT · UniProt P31224
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