MolNFT v1 · #164814 · protein
Crystal structure of human G3BP1-NTF2 in complex with human CAPRIN1- derived solomon motif
6TA7 · RAS GTPase-activating protein-binding protein 1: “Crystal structure of human G3BP1-NTF2 in complex with human CAPRIN1- derived solomon motif”. X-ray diffraction, 2 ligands (NA, CL), 9 pockets (best druggability 0.58). MolNFT v1…
- PDB
- 6TA7
- Type
- protein
- Length
- 791 residues
- Chains
- 8
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- RAS GTPase-activating protein-binding protein 1; Caprin-1
- EC
- 3.6.4.12, 3.6.4.13
- UniProt
- Q13283, Q14444
- Ligands
- NA, CL
- Pockets
- 9 · best druggability 0.58
Structure
x-ray diffraction · 8 distinct chains · 31% helix, 40% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | RAS GTPase-activating protein-binding protein 1 (EC 3.6.4.12, 3.6.4.13) | protein | 131 | 29% helix, 40% strand | Q13283 |
| B | RAS GTPase-activating protein-binding protein 1 (EC 3.6.4.12, 3.6.4.13) | protein | 129 | 33% helix, 41% strand | Q13283 |
| D | RAS GTPase-activating protein-binding protein 1 (EC 3.6.4.12, 3.6.4.13) | protein | 125 | 31% helix, 42% strand | Q13283 |
| F | RAS GTPase-activating protein-binding protein 1 (EC 3.6.4.12, 3.6.4.13) | protein | 129 | 30% helix, 41% strand | Q13283 |
| G | Caprin-1 | protein | 20 | 15% helix, 5% strand | Q14444 |
| H | Caprin-1 | protein | 4 | 0% helix, 25% strand | Q14444 |
| C | RAS GTPase-activating protein-binding protein 1 (EC 3.6.4.12, 3.6.4.13) | protein | 128 | 34% helix, 41% strand | Q13283 |
| E | RAS GTPase-activating protein-binding protein 1 (EC 3.6.4.12, 3.6.4.13) | protein | 125 | 30% helix, 42% strand | Q13283 |
Ligands and binding sites
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
9 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 143 | 0.58 | 0.83 | 26 | empty |
| 2 | 157 | 0.47 | 0.76 | 20 | empty |
| 3 | 174 | 0.45 | 0.75 | 31 | empty |
| 4 | 118 | 0.42 | 0.76 | 25 | empty |
| 5 | 141 | 0.42 | 0.75 | 24 | CL, NA |
Interfaces
9 interfaces between chains.
- D–C · 1492 Ų buried · 16 hydrogen bonds · protein-protein
- B–F · 1349 Ų buried · 19 hydrogen bonds · protein-protein
- D–G · 905 Ų buried · 18 hydrogen bonds · protein-protein
- A–B · 645 Ų buried · 10 hydrogen bonds · protein-protein
- D–E · 334 Ų buried · 1 hydrogen bond · protein-protein
Compared structures
- 6TA7 · Crystal structure of human G3BP1-NTF2 in complex with human CAPRIN1-derived solomon motif · the same entry in another collection · chain E against E, TM-score 1.00
- Q13283 · AlphaFold monomer V2.0 prediction for RAS GTPase-activating protein- binding protein 1… · a predicted model of the same protein · chain B 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 Q13283
- Every structure of UniProt Q14444
- Elsewhere: RCSB PDB 6TA7 · PDBe 6TA7 · UniProt Q13283 · UniProt Q14444
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