Research workbench
Minocycline binding to the deep binding pocket of acrb-I38F_I671T
Analyse Minocycline binding to the deep binding pocket of acrb-I38F_I671T in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 6ZOG
- Type
- protein
- Length
- 3,413 residues
- Chains
- 5
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- UniProt
- P31224
- Ligands
- D10, DDR, MYS, 8K6, MIY, D12, PTY, C14, DDQ, SO4
Structure
x-ray diffraction · 3 distinct chains.
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B, C | — | protein | 1034 | — | P31224 |
| D | — | protein | 157 | — | — |
| E | — | protein | 154 | — | — |
Ligands and binding sites
- D10 · Decane · ligand · 2 copies · chains A, C
- DDR · (2S)-3-hydroxypropane-1,2-diyl didecanoate · ligand · chains B
- MYS · Pentadecane · ligand · chains A, B
- 8K6 · Octadecane · ligand · chains A, B
- MIY · (4s,4as,5ar,12as)-4,7-bis(dimethylamino)-3,10,12,12A-tetrahydroxy-1,11-dioxo-1,4,4A,5,5A,6,11,12A-octahydrotetracene-2-carboxamide · ligand · chains B
- D12 · Dodecane · ligand · chains A, C
- PTY · Phosphatidylethanolamine · ligand · chains B, C
- C14 · Tetradecane · ligand · chains C
- DDQ · Decylamine-N,N-dimethyl-N-oxide · ligand · chains C
- SO4 · Sulfate ion · ion · 3 copies · chains B, C
- LMT · Dodecyl-beta-D-maltoside · additive · 6 copies · chains A, B, C
- EDO · 1,2-ethanediol · additive · 6 copies · chains A, C, B, E
- GOL · Glycerol · additive · 5 copies · chains A, B, C, D
- OCT · N-octane · additive · chains B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Compared structures
- 6ZOG · Minocycline binding to the deep binding pocket of AcrB-I38F_I671T · 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 6ZOG · PDBe 6ZOG · UniProt P31224
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