MolNFT v1 · #175045 · protein
Apo-methanol dehydrogenase (mdh) from methylococcus capsulatus (bath)
7CED · Methanol dehydrogenase protein, large subunit: “Apo-methanol dehydrogenase (mdh) from methylococcus capsulatus (bath)”. X-ray diffraction, 20 pockets (best druggability 0.81). MolNFT v1 #175045 on GenesisL1: 3D structure, binding…
- PDB
- 7CED
- Type
- protein
- Length
- 5,152 residues
- Chains
- 16
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Methanol dehydrogenase protein, large subunit; Methanol dehydrogenase [cytochrome C]…
- EC
- 1.1.2.7
- UniProt
- Q60AR6, Q60AR3
- Pockets
- 20 · best druggability 0.81
Structure
x-ray diffraction · 2 distinct chains · 15% helix, 33% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B, C, D, G, H, M, N | Methanol dehydrogenase protein, large subunit | protein | 573 | 11% helix, 36% strand | Q60AR6 |
| E, F, I, J, K, L, O, P | Methanol dehydrogenase [cytochrome C] subunit 2 (EC 1.1.2.7) | protein | 71 | 42% helix, 3% strand | Q60AR3 |
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 | 123 | 0.81 | 0.99 | 30 | empty |
| 2 | 128 | 0.80 | 0.98 | 32 | empty |
| 3 | 129 | 0.80 | 0.98 | 30 | empty |
| 4 | 127 | 0.80 | 0.98 | 29 | empty |
| 5 | 125 | 0.80 | 0.98 | 30 | empty |
Interfaces
20 interfaces between chains.
- H–J · 2045 Ų buried · 30 hydrogen bonds · protein-protein
- B–F · 2037 Ų buried · 28 hydrogen bonds · protein-protein
- D–L · 2030 Ų buried · 31 hydrogen bonds · protein-protein
- A–E · 2018 Ų buried · 31 hydrogen bonds · protein-protein
- N–P · 2013 Ų buried · 27 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 24 disulfide (disulfide).
Compared structures
- 7CED · Apo-methanol dehydrogenase (MDH) from Methylococcus capsulatus (Bath) · 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 Q60AR6
- Every structure of UniProt Q60AR3
- Elsewhere: RCSB PDB 7CED · PDBe 7CED · UniProt Q60AR6 · UniProt Q60AR3
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