MolNFT v1 · #165006 · protein
Cryoem structure of the ternary DOCK2-ELMO1-RAC1 complex
6TGC · Dedicator of cytokinesis protein 2: “Cryoem structure of the ternary DOCK2-ELMO1-RAC1 complex”. Electron microscopy, 20 pockets (best druggability 0.81). MolNFT v1 #165006 on GenesisL1: 3D structure, binding sites and pockets in…
- PDB
- 6TGC
- Type
- protein
- Length
- 4,614 residues
- Chains
- 6
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Dedicator of cytokinesis protein 2; Engulfment and cell motility protein 1; RAS-related…
- EC
- 3.6.5.2
- UniProt
- Q92608, Q92556, P63000
- Pockets
- 20 · best druggability 0.81
Structure
electron microscopy · 3 distinct chains · 49% helix, 8% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, D | Dedicator of cytokinesis protein 2 | protein | 1450 | 49% helix, 7% strand | Q92608 |
| B, E | Engulfment and cell motility protein 1 | protein | 680 | 55% helix, 7% strand | Q92556 |
| C, F | RAS-related C3 botulinum toxin substrate 1 (EC 3.6.5.2) | protein | 177 | 32% helix, 21% strand | P63000 |
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 | 682 | 0.81 | 0.86 | 97 | empty |
| 2 | 828 | 0.81 | 0.84 | 100 | empty |
| 3 | 334 | 0.80 | 0.90 | 74 | empty |
| 4 | 1137 | 0.79 | 0.81 | 110 | empty |
| 5 | 1024 | 0.79 | 0.81 | 117 | empty |
Interfaces
7 interfaces between chains.
- D–E · 2561 Ų buried · 36 hydrogen bonds · protein-protein
- A–B · 2512 Ų buried · 22 hydrogen bonds · protein-protein
- A–C · 1843 Ų buried · 19 hydrogen bonds · protein-protein
- D–F · 1789 Ų buried · 17 hydrogen bonds · protein-protein
- A–D · 912 Ų buried · 0 hydrogen bonds · protein-protein
Compared structures
- 6TGC · CryoEM structure of the ternary DOCK2-ELMO1-RAC1 complex. · the same entry in another collection · chain F against F, TM-score 1.00
- Q92608 · AlphaFold monomer V2.0 prediction for dedicator of cytokinesis protein 2 (Q92608) · a predicted model of the same protein · chain D against A, TM-score 0.89
- Q92556 · AlphaFold monomer V2.0 prediction for engulfment and cell motility protein 1 (Q92556) · a predicted model of the same protein · chain E against A, TM-score 0.81
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 Q92608
- Every structure of UniProt Q92556
- Every structure of UniProt P63000
- Elsewhere: RCSB PDB 6TGC · PDBe 6TGC · UniProt Q92608 · UniProt Q92556 · UniProt P63000
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