MolNFT v1 · #51808 · protein
Crystal structure of SOCS6 SH2 domain in complex with a C-kit phosphopeptide
2VIF · Suppressor of cytokine signalling 6: “Crystal structure of SOCS6 SH2 domain in complex with a C-kit phosphopeptide”. X-ray diffraction, 1 pocket (best druggability 0.49). MolNFT v1 #51808 on GenesisL1: 3D structure, binding sites…
- PDB
- 2VIF
- Type
- protein
- Length
- 140 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Suppressor of cytokine signalling 6; MAST/STEM cell growth factor receptor
- UniProt
- O14544, P10721
- Pockets
- 1 · best druggability 0.49
Structure
x-ray diffraction · 2 distinct chains · 23% helix, 26% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Suppressor of cytokine signalling 6 | protein | 131 | 24% helix, 26% strand | O14544 |
| P | MAST/STEM cell growth factor receptor | protein | 9 | 0% helix, 33% strand | P10721 |
Ligands and binding sites
- EDO · 1,2-ethanediol · additive · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
1 pocket found on a 1 Å grid, 0 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 57 | 0.49 | 0.86 | 19 | empty |
Interfaces
1 interface between chains.
- A–P · 890 Ų buried · 21 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 1 modified (phosphorylation).
Compared structures
- 2VIF · Crystal structure of SOCS6 SH2 domain in complex with a c-KIT phosphopeptide · the same entry in another collection · chain A against A, TM-score 1.00
- O14544 · AlphaFold monomer V2.0 prediction for suppressor of cytokine signaling 6 (O14544) · a predicted model of the same protein · chain A against A, TM-score 0.85
- P10721 · AlphaFold monomer V2.0 prediction for MAST/STEM cell growth factor receptor kit (P10721) · a predicted model of the same protein · chain P against A, TM-score 0.45
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 O14544
- Every structure of UniProt P10721
- Elsewhere: RCSB PDB 2VIF · PDBe 2VIF · UniProt O14544 · UniProt P10721
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