MolNFT v1 · #171770 · protein
Copii on membranes, outer coat vertex
6ZG6 · Protein transport protein SEC31: “Copii on membranes, outer coat vertex”. Electron microscopy, 20 pockets (best druggability 0.86). MolNFT v1 #171770 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 6ZG6
- Type
- protein
- Length
- 2,648 residues
- Chains
- 8
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Protein transport protein SEC31; Protein transport protein SEC13
- UniProt
- P38968, Q04491
- Pockets
- 20 · best druggability 0.86
Structure
electron microscopy · 2 distinct chains · 2% helix, 41% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, C, E, G | Protein transport protein SEC31 | protein | 383 | 2% helix, 34% strand | P38968 |
| B, D, F, H | Protein transport protein SEC13 | protein | 279 | 2% helix, 51% strand | Q04491 |
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 | 939 | 0.86 | 0.87 | 109 | empty |
| 2 | 946 | 0.85 | 0.86 | 107 | empty |
| 3 | 123 | 0.80 | 0.98 | 16 | empty |
| 4 | 124 | 0.80 | 0.98 | 16 | empty |
| 5 | 1124 | 0.80 | 0.81 | 124 | empty |
Interfaces
8 interfaces between chains.
- C–D · 2366 Ų buried · 26 hydrogen bonds · protein-protein
- E–F · 2366 Ų buried · 26 hydrogen bonds · protein-protein
- A–B · 2363 Ų buried · 26 hydrogen bonds · protein-protein
- G–H · 2358 Ų buried · 26 hydrogen bonds · protein-protein
- C–E · 978 Ų buried · 6 hydrogen bonds · protein-protein
Compared structures
- 6ZG6 · COPII on membranes, outer coat vertex · the same entry in another collection · chain B against B, TM-score 1.00
- Q04491 · AlphaFold monomer V2.0 prediction for protein transport protein SEC13 (Q04491) · a predicted model of the same protein · chain B against A, TM-score 0.99
- P38968 · AlphaFold monomer V2.0 prediction for protein transport protein SEC31 (P38968) · a predicted model of the same protein · chain A against A, TM-score 0.98
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 P38968
- Every structure of UniProt Q04491
- Elsewhere: RCSB PDB 6ZG6 · PDBe 6ZG6 · UniProt P38968 · UniProt Q04491
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