MolNFT v2 · #16790 · protein
Structure of electron transferring flavoprotein for Methylophilus methylotrophus.
1O96 · Electron transferring flavoprotein beta-subunit: “Structure of electron transferring flavoprotein for Methylophilus methylotrophus.”. X-ray diffraction at 3.1, 2 ligands (AMP, FAD), 14 pockets (best druggability 0.82). MolNFT v2…
- PDB
- 1O96
- Type
- protein
- Length
- 2,281 residues
- Chains
- 8
- Method
- x-ray diffraction
- Collection
- MolNFT v2 / PDB Bank
- Contract
- 0xd58B01f6C18086e5202cdC5D7Ad3E41790360102
- Owner
- 0xF4e1AA6f26B7DA48EeAD9B24a97927303eeA07b8
- Resolution
- 3.1
- Source
- METHYLOPHILUS METHYLOTROPHUS
- Molecule
- Electron transferring flavoprotein beta-subunit; Electron transferring flavoprotein…
- UniProt
- P53570, P53571
- Ligands
- AMP, FAD
- Pockets
- 14 · best druggability 0.82
Structure
x-ray diffraction · resolution 3.1 · 5 distinct chains · 31% helix, 30% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Electron transferring flavoprotein beta-subunit | protein | 261 | 34% helix, 28% strand | P53570 |
| B, D, F | Electron transferring flavoprotein alpha-subunit | protein | 314 | 28% helix, 31% strand | P53571 |
| C, E | Electron transferring flavoprotein beta-subunit | protein | 260 | 33% helix, 28% strand | P53570 |
| Q | Electron transferring flavoprotein beta-subunit | protein | 246 | 30% helix, 29% strand | P53570 |
| Z | Electron transferring flavoprotein alpha-subunit | protein | 312 | 30% helix, 31% strand | P53571 |
Ligands and binding sites
- AMP · Adenosine monophosphate · ligand · 4 copies · chains A, C, E, Q
- FAD · Flavin-adenine dinucleotide · ligand · 4 copies · chains A, B, C, D, E, F, Q, Z
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
14 pockets found on a 1 Å grid, 10 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 1021 | 0.82 | 0.84 | 118 | FAD |
| 2 | 1127 | 0.82 | 0.83 | 130 | FAD |
| 3 | 950 | 0.81 | 0.83 | 105 | AMP |
| 4 | 624 | 0.81 | 0.86 | 65 | AMP |
| 5 | 574 | 0.81 | 0.87 | 67 | AMP |
Interfaces
12 interfaces between chains.
- E–F · 3619 Ų buried · 66 hydrogen bonds · protein-protein
- C–D · 3615 Ų buried · 57 hydrogen bonds · protein-protein
- A–B · 3601 Ų buried · 60 hydrogen bonds · protein-protein
- Q–Z · 3563 Ų buried · 63 hydrogen bonds · protein-protein
- A–F · 532 Ų buried · 7 hydrogen bonds · protein-protein
Compared structures
- 1O96 · Structure of electron transferring flavoprotein for methylophilus methylotrophus. · the same entry in another collection · chain Z against Z, TM-score 1.00
- P53571 · AlphaFold monomer V2.0 prediction for electron transfer flavoprotein subunit alpha… · a predicted model of the same protein · chain D 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 P53570
- Every structure of UniProt P53571
- Elsewhere: RCSB PDB 1O96 · PDBe 1O96 · UniProt P53570 · UniProt P53571
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