MolNFT v1 · #152035 · protein
Crystal structure of SOCS2:ELONGIN C:ELONGIN B in complex with growth hormone receptor peptide
6I5J · Suppressor of cytokine signaling 2: “Crystal structure of SOCS2:ELONGIN C:ELONGIN B in complex with growth hormone receptor peptide”. X-ray diffraction, 1 ligand (CO), 6 pockets (best druggability 0.57). MolNFT v1 #152035 on…
- PDB
- 6I5J
- Type
- protein
- Length
- 778 residues
- Chains
- 10
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Suppressor of cytokine signaling 2; Elongin-B; Elongin-C; Growth hormone receptor peptide
- UniProt
- O14508, Q15370, Q15369
- Ligands
- CO
- Pockets
- 6 · best druggability 0.57
Structure
x-ray diffraction · 9 distinct chains · 28% helix, 25% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Suppressor of cytokine signaling 2 | protein | 168 | 34% helix, 18% strand | O14508 |
| B | Elongin-B | protein | 104 | 18% helix, 38% strand | Q15370 |
| C, F | Elongin-C | protein | 97 | 42% helix, 15% strand | Q15369 |
| D | Suppressor of cytokine signaling 2 | protein | 169 | 37% helix, 19% strand | O14508 |
| E | Elongin-B | protein | 103 | 15% helix, 37% strand | Q15370 |
| I | Growth hormone receptor peptide | protein | 11 | 0% helix, 36% strand | — |
| J | Growth hormone receptor peptide | protein | 10 | 0% helix, 20% strand | — |
| K | Growth hormone receptor peptide | protein | 10 | 0% helix, 30% strand | — |
| L | Growth hormone receptor peptide | protein | 9 | 0% helix, 22% strand | — |
Ligands and binding sites
- CO · Cobalt (II) ion · metal · 2 copies · chains A, K, D, L
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
6 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 143 | 0.57 | 0.82 | 25 | empty |
| 2 | 184 | 0.56 | 0.80 | 26 | empty |
| 3 | 195 | 0.46 | 0.74 | 25 | empty |
| 4 | 53 | 0.34 | 0.79 | 17 | empty |
| 5 | 61 | 0.33 | 0.76 | 15 | empty |
Interfaces
15 interfaces between chains.
- B–C · 1163 Ų buried · 13 hydrogen bonds · protein-protein
- E–F · 1133 Ų buried · 12 hydrogen bonds · protein-protein
- D–F · 1044 Ų buried · 9 hydrogen bonds · protein-protein
- A–C · 1007 Ų buried · 6 hydrogen bonds · protein-protein
- C–F · 820 Ų buried · 13 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 12 modified (artifact, phosphorylation, nonstandard).
Compared structures
- 6I5J · Crystal structure of SOCS2:Elongin C:Elongin B in complex with growth hormone receptor… · the same entry in another collection · chain L against L, 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 0.98
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 6I5J · PDBe 6I5J · UniProt O14508 · UniProt Q15370 · UniProt Q15369
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