MolNFT v1 · #181812 · protein
Crystal structure of SOCS2/ELONGINB/ELONGINC bound to a non-canonical peptide that enhances phospho-peptide binding
7M6T · Suppressor of cytokine signaling 2: “Crystal structure of SOCS2/ELONGINB/ELONGINC bound to a non-canonical peptide that enhances phospho-peptide…”. X-ray diffraction, 1 ligand (SO4), 1 pocket (best druggability 0.52). MolNFT v1…
- PDB
- 7M6T
- Type
- protein
- Length
- 350 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Suppressor of cytokine signaling 2; Elongin-B; Elongin-C; Non-canonical peptide F3
- UniProt
- O14508, Q15370, Q15369
- Ligands
- SO4
- Pockets
- 1 · best druggability 0.52
Structure
x-ray diffraction · 4 distinct chains · 37% helix, 22% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Suppressor of cytokine signaling 2 | protein | 154 | 38% helix, 19% strand | O14508 |
| B | Elongin-B | protein | 103 | 21% helix, 33% strand | Q15370 |
| C | Elongin-C | protein | 82 | 48% helix, 16% strand | Q15369 |
| D | Non-canonical peptide F3 | protein | 11 | 82% helix, 0% strand | — |
Ligands and binding sites
- SO4 · Sulfate ion · ion · 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, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 188 | 0.52 | 0.78 | 28 | empty |
Interfaces
4 interfaces between chains.
- B–C · 1118 Ų buried · 13 hydrogen bonds · protein-protein
- A–C · 907 Ų buried · 7 hydrogen bonds · protein-protein
- A–D · 405 Ų buried · 0 hydrogen bonds · protein-protein
- A–B · 201 Ų buried · 2 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 2 modified (artifact).
Compared structures
- 7M6T · Crystal structure of SOCS2/ElonginB/ElonginC bound to a non-canonical peptide that… · the same entry in another collection · chain A against A, TM-score 1.00
- Q15370 · AlphaFold monomer V2.0 prediction for elongin-B (Q15370) · a predicted model of the same protein · chain B against A, TM-score 0.99
- O14508 · AlphaFold monomer V2.0 prediction for suppressor of cytokine signaling 2 (O14508) · a predicted model of the same protein · chain A against A, TM-score 0.98
- Q15369 · AlphaFold monomer V2.0 prediction for elongin-C (Q15369) · a predicted model of the same protein · chain C 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 O14508
- Every structure of UniProt Q15370
- Every structure of UniProt Q15369
- Elsewhere: RCSB PDB 7M6T · PDBe 7M6T · UniProt O14508 · UniProt Q15370 · UniProt Q15369
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