Research workbench
Mbnabc complex
Analyse Mbnabc complex in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 7DZ9
- Type
- protein
- Length
- 925 residues
- Chains
- 6
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Mbnb; Cpmbnb; Mbnc; Mbna
- UniProt
- E3BK14, E3BK13
- Ligands
- FE
- Pockets
- 6 · best druggability 0.85
Structure
x-ray diffraction · 5 distinct chains · 43% helix, 18% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Mbnb | protein | 260 | 45% helix, 20% strand | E3BK14 |
| B | Cpmbnb | protein | 260 | 45% helix, 20% strand | E3BK14 |
| D, C | Mbnc | protein | 180 | 49% helix, 14% strand | E3BK13 |
| E | Mbna | protein | 23 | 0% helix, 17% strand | — |
| F | Mbna | protein | 22 | 0% helix, 18% strand | — |
Ligands and binding sites
- FE · Fe (III) ion · metal · 6 copies · chains A, F, B, E
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
6 pockets found on a 1 Å grid, 5 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 814 | 0.85 | 0.87 | 91 | empty |
| 2 | 647 | 0.84 | 0.89 | 69 | empty |
| 3 | 582 | 0.84 | 0.89 | 90 | empty |
| 4 | 86 | 0.71 | 0.95 | 24 | empty |
| 5 | 121 | 0.63 | 0.87 | 26 | empty |
Interfaces
11 interfaces between chains.
- B–C · 1645 Ų buried · 18 hydrogen bonds · protein-protein
- A–D · 1618 Ų buried · 15 hydrogen bonds · protein-protein
- D–F · 1052 Ų buried · 15 hydrogen bonds · protein-protein
- E–C · 1010 Ų buried · 14 hydrogen bonds · protein-protein
- B–E · 634 Ų buried · 9 hydrogen bonds · protein-protein
Compared structures
- 7DZ9 · MbnABC complex · the same entry in another collection · chain A against A, TM-score 1.00
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 E3BK14
- Every structure of UniProt E3BK13
- Elsewhere: RCSB PDB 7DZ9 · PDBe 7DZ9 · UniProt E3BK14 · UniProt E3BK13
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