Research workbench
Intact trappii (state I).
Analyse Intact trappii (state I). in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 7E8S
- Type
- protein
- Length
- 6,572 residues
- Chains
- 22
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Trapp-associated protein TCA17; Trafficking protein particle complex subunit 33…
- UniProt
- P32613, Q99394, P36149, Q03630, Q03784, Q03337, P38334, Q03660, Q04183, P32893
- Pockets
- 20 · best druggability 0.83
Structure
electron microscopy · 11 distinct chains · 32% helix, 16% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, L | Trapp-associated protein TCA17 | protein | 144 | 31% helix, 18% strand | P32613 |
| B, M | Trafficking protein particle complex subunit 33 | protein | 202 | 50% helix, 12% strand | Q99394 |
| C, N | Trafficking protein particle complex subunit BET3 | protein | 184 | 41% helix, 13% strand | P36149 |
| D, O | Trafficking protein particle complex subunit BET5 | protein | 151 | 28% helix, 17% strand | Q03630 |
| E, P | Trafficking protein particle complex subunit 23 | protein | 161 | 32% helix, 16% strand | Q03784 |
| F, Q | Trafficking protein particle complex subunit BET3 | protein | 182 | 44% helix, 16% strand | P36149 |
| G, R | Trafficking protein particle complex subunit 31 | protein | 204 | 43% helix, 13% strand | Q03337 |
| H, S | Trafficking protein particle complex subunit 20 | protein | 147 | 35% helix, 21% strand | P38334 |
| I, T | Trafficking protein particle complex II-specific subunit 130 | protein | 788 | 29% helix, 15% strand | Q03660 |
| J, U | Trafficking protein particle complex II-specific subunit 120 | protein | 872 | 29% helix, 13% strand | Q04183 |
| K, V | Trafficking protein particle complex II-specific subunit 65 | protein | 251 | 11% helix, 38% strand | P32893 |
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 | 187 | 0.83 | 0.96 | 33 | empty |
| 2 | 798 | 0.82 | 0.85 | 85 | empty |
| 3 | 836 | 0.81 | 0.84 | 89 | empty |
| 4 | 203 | 0.79 | 0.94 | 41 | empty |
| 5 | 221 | 0.79 | 0.92 | 41 | empty |
Interfaces
37 interfaces between chains.
- R–S · 2408 Ų buried · 40 hydrogen bonds · protein-protein
- G–H · 2401 Ų buried · 40 hydrogen bonds · protein-protein
- M–N · 2086 Ų buried · 14 hydrogen bonds · protein-protein
- B–C · 2080 Ų buried · 14 hydrogen bonds · protein-protein
- F–G · 1659 Ų buried · 15 hydrogen bonds · protein-protein
Compared structures
- 7E8S · Intact TRAPPII (state I). · the same entry in another collection · chain J against J, 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 P32613
- Every structure of UniProt Q99394
- Every structure of UniProt P36149
- Every structure of UniProt Q03630
- Every structure of UniProt Q03784
- Every structure of UniProt Q03337
- Every structure of UniProt P38334
- Every structure of UniProt Q03660
- Every structure of UniProt Q04183
- Every structure of UniProt P32893
- Elsewhere: RCSB PDB 7E8S · PDBe 7E8S · UniProt P32613 · UniProt Q99394 · UniProt P36149 · UniProt Q03630 · UniProt Q03784 · UniProt Q03337 · UniProt P38334 · UniProt Q03660 · UniProt Q04183 · UniProt P32893
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