MolNFT v1 · #183669 · protein
Cryo-EM structure of the mukbef monomer
7NYY · Chromosome partition protein mukb: “Cryo-EM structure of the mukbef monomer”. Electron microscopy, 1 ligand (PNS), 20 pockets (best druggability 0.81). MolNFT v1 #183669 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 7NYY
- Type
- protein
- Length
- 3,910 residues
- Chains
- 8
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Chromosome partition protein mukb; Chromosome partition protein mukf; Chromosome…
- UniProt
- A0A0F7LRY2, A0A0F7LMQ4, A0A0F7LPV6, A0A6D2XA84
- Ligands
- PNS
- Pockets
- 20 · best druggability 0.81
Structure
electron microscopy · 6 distinct chains · 65% helix, 10% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B | Chromosome partition protein mukb | protein | 1467 | 68% helix, 10% strand | A0A0F7LRY2 |
| C | Chromosome partition protein mukf | protein | 335 | 69% helix, 7% strand | A0A0F7LMQ4 |
| D | Chromosome partition protein mukf | protein | 94 | 62% helix, 13% strand | A0A0F7LMQ4 |
| E | Chromosome partition protein muke | protein | 205 | 52% helix, 14% strand | A0A0F7LPV6 |
| F | Chromosome partition protein muke | protein | 198 | 54% helix, 11% strand | A0A0F7LPV6 |
| G, H | Acyl carrier protein | protein | 72 | 58% helix, 3% strand | A0A6D2XA84 |
Ligands and binding sites
- PNS · 4'-phosphopantetheine · ligand · 2 copies · chains A, B, G, H
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
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 | 736 | 0.81 | 0.85 | 96 | empty |
| 2 | 159 | 0.79 | 0.95 | 37 | empty |
| 3 | 834 | 0.73 | 0.78 | 73 | empty |
| 4 | 188 | 0.73 | 0.89 | 41 | empty |
| 5 | 786 | 0.70 | 0.76 | 88 | PNS |
Interfaces
12 interfaces between chains.
- A–B · 8782 Ų buried · 166 hydrogen bonds · protein-protein
- C–E · 2283 Ų buried · 29 hydrogen bonds · protein-protein
- B–C · 2033 Ų buried · 26 hydrogen bonds · protein-protein
- A–C · 1394 Ų buried · 16 hydrogen bonds · protein-protein
- C–D · 1137 Ų buried · 17 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 2 cofactor (phosphopantetheinylation).
Compared structures
- 7NYY · Cryo-EM structure of the MukBEF monomer · 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 A0A0F7LRY2
- Every structure of UniProt A0A0F7LMQ4
- Every structure of UniProt A0A0F7LPV6
- Every structure of UniProt A0A6D2XA84
- Elsewhere: RCSB PDB 7NYY · PDBe 7NYY · UniProt A0A0F7LRY2 · UniProt A0A0F7LMQ4 · UniProt A0A0F7LPV6 · UniProt A0A6D2XA84
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