Research workbench
Three-dimensional structure of a binary rop-prone complex
Analyse Three-dimensional structure of a binary rop-prone complex in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 2WBL
- Type
- protein
- Length
- 992 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Rho of plants guanine nucleotide exchange factor 8; Rac-like GTP-binding protein ARAC2
- UniProt
- Q9LV40, Q38903
- Pockets
- 15 · best druggability 0.65
Structure
x-ray diffraction · 4 distinct chains · 53% helix, 13% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Rho of plants guanine nucleotide exchange factor 8 | protein | 329 | 63% helix, 7% strand | Q9LV40 |
| B | Rho of plants guanine nucleotide exchange factor 8 | protein | 328 | 62% helix, 7% strand | Q9LV40 |
| C | Rac-like GTP-binding protein ARAC2 | protein | 167 | 34% helix, 24% strand | Q38903 |
| D | Rac-like GTP-binding protein ARAC2 | protein | 168 | 35% helix, 25% strand | Q38903 |
Pockets
15 pockets found on a 1 Å grid, 10 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 542 | 0.65 | 0.76 | 71 | empty |
| 2 | 297 | 0.64 | 0.80 | 49 | empty |
| 3 | 299 | 0.63 | 0.80 | 33 | empty |
| 4 | 246 | 0.62 | 0.81 | 29 | empty |
| 5 | 263 | 0.59 | 0.79 | 28 | empty |
Interfaces
5 interfaces between chains.
- A–C · 1946 Ų buried · 26 hydrogen bonds · protein-protein
- B–D · 1874 Ų buried · 22 hydrogen bonds · protein-protein
- A–B · 1255 Ų buried · 10 hydrogen bonds · protein-protein
- A–D · 429 Ų buried · 2 hydrogen bonds · protein-protein
- B–C · 424 Ų buried · 1 hydrogen bond · protein-protein
Compared structures
- 2WBL · Three-dimensional structure of a binary ROP-PRONE complex · the same entry in another collection · chain D against D, TM-score 1.00
- Q9LV40 · AlphaFold monomer V2.0 prediction for rho guanine nucleotide exchange factor 8 (Q9LV40) · a predicted model of the same protein · chain B against A, TM-score 0.99
- Q38903 · AlphaFold monomer V2.0 prediction for rac-like GTP-binding protein ARAC2 (Q38903) · a predicted model of the same protein · chain D against A, TM-score 0.94
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 Q9LV40
- Every structure of UniProt Q38903
- Elsewhere: RCSB PDB 2WBL · PDBe 2WBL · UniProt Q9LV40 · UniProt Q38903
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