Research workbench
Visualization of a polytopic membrane protein during secy-mediated membrane insertion
Analyse Visualization of a polytopic membrane protein during secy-mediated membrane… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 5ABB
- Type
- protein
- Length
- 628 residues
- Chains
- 3
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Protein translocase subunit secy; Protein translocase subunit sece; Green-light absorbing…
- UniProt
- B7MCR5, B7MIW7, Q9F7P4
- Pockets
- 4 · best druggability 0.48
Structure
electron microscopy · 3 distinct chains · 57% helix, 0% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Protein translocase subunit secy | protein | 443 | 57% helix, 0% strand | B7MCR5 |
| B | Protein translocase subunit sece | protein | 116 | 53% helix, 0% strand | B7MIW7 |
| Z | Green-light absorbing proteorhodopsin | protein | 69 | 64% helix, 0% strand | Q9F7P4 |
Pockets
4 pockets found on a 1 Å grid, 0 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 317 | 0.48 | 0.72 | 60 | empty |
| 2 | 191 | 0.41 | 0.73 | 34 | empty |
| 3 | 163 | 0.37 | 0.72 | 27 | empty |
| 4 | 83 | 0.28 | 0.72 | 24 | empty |
Interfaces
2 interfaces between chains.
- A–Z · 265 Ų buried · 0 hydrogen bonds · protein-protein
- A–B · 147 Ų buried · 0 hydrogen bonds · protein-protein
Compared structures
- 5ABB · Visualization of a polytopic membrane protein during SecY-mediated membrane insertion · the same entry in another collection · chain A against A, TM-score 1.00
- Q9F7P4 · AlphaFold monomer V2.0 prediction for green-light absorbing proteorhodopsin (Q9F7P4) · a predicted model of the same protein · chain Z against A, TM-score 0.61
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 B7MCR5
- Every structure of UniProt B7MIW7
- Every structure of UniProt Q9F7P4
- Elsewhere: RCSB PDB 5ABB · PDBe 5ABB · UniProt B7MCR5 · UniProt B7MIW7 · UniProt Q9F7P4
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.