Research workbench
Cryoem structure of the outer membrane secretin pore piv from the F1 filamentous bacteriophage.
Analyse Cryoem structure of the outer membrane secretin pore piv from the F1… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 7OFH
- Type
- protein
- Length
- 3,465 residues
- Chains
- 15
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Virion export protein
- UniProt
- P03666
- Ligands
- CPS
- Pockets
- 20 · best druggability 0.69
Structure
electron microscopy · 1 distinct chain · 6% helix, 58% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B, C, D, E, F, G, H, I, J, K, L, M, N, O | Virion export protein | protein | 231 | 6% helix, 58% strand | P03666 |
Ligands and binding sites
- CPS · 3-[(3-cholamidopropyl)dimethylammonio]-1-propanesulfonate · ligand · 30 copies · chains A, O, B, C, D, E, F, G, H, I, J, K, L, M, N
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 | 686 | 0.69 | 0.77 | 90 | empty |
| 2 | 697 | 0.69 | 0.77 | 83 | empty |
| 3 | 482 | 0.65 | 0.77 | 58 | empty |
| 4 | 463 | 0.64 | 0.77 | 62 | empty |
| 5 | 428 | 0.63 | 0.77 | 55 | empty |
Interfaces
15 interfaces between chains.
- A–O · 2599 Ų buried · 42 hydrogen bonds · protein-protein
- G–H · 2596 Ų buried · 42 hydrogen bonds · protein-protein
- N–O · 2595 Ų buried · 42 hydrogen bonds · protein-protein
- F–G · 2594 Ų buried · 41 hydrogen bonds · protein-protein
- B–C · 2594 Ų buried · 42 hydrogen bonds · protein-protein
Compared structures
- 7OFH · CryoEM structure of the outer membrane secretin pore pIV from the f1 filamentous… · 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 P03666
- Elsewhere: RCSB PDB 7OFH · PDBe 7OFH · UniProt P03666
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.