MolNFT v1 · #167059 · protein
Ankyrin repeat and socs-box protein 9 (ASB9), elonginb (elob), and elonginc (eloc) bound to its substrate brain-type creatine kinase (ckb)
6V9H · Creatine kinase B-type: “Ankyrin repeat and socs-box protein 9 (ASB9), elonginb (elob), and elonginc (eloc) bound to its substrate…”. Electron microscopy, 9 pockets (best druggability 0.84). MolNFT v1 #167059 on GenesisL1: 3D…
- PDB
- 6V9H
- Type
- protein
- Length
- 1,185 residues
- Chains
- 5
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Creatine kinase B-type; Ankyrin repeat and socs box protein 9; Elongin-C; Elongin-B
- EC
- 2.7.3.2
- UniProt
- P12277, Q96DX5, Q15369, Q15370
- Pockets
- 9 · best druggability 0.84
Structure
electron microscopy · 5 distinct chains · 41% helix, 13% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Creatine kinase B-type (EC 2.7.3.2) | protein | 367 | 38% helix, 16% strand | P12277 |
| B | Creatine kinase B-type (EC 2.7.3.2) | protein | 362 | 41% helix, 15% strand | P12277 |
| C | Ankyrin repeat and socs box protein 9 | protein | 270 | 54% helix, 1% strand | Q96DX5 |
| D | Elongin-C | protein | 81 | 48% helix, 12% strand | Q15369 |
| E | Elongin-B | protein | 105 | 14% helix, 30% strand | Q15370 |
Pockets
9 pockets found on a 1 Å grid, 6 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 1118 | 0.84 | 0.85 | 113 | empty |
| 2 | 901 | 0.77 | 0.80 | 83 | empty |
| 3 | 712 | 0.69 | 0.77 | 59 | empty |
| 4 | 416 | 0.63 | 0.77 | 47 | empty |
| 5 | 215 | 0.56 | 0.79 | 32 | empty |
Interfaces
6 interfaces between chains.
- A–C · 1456 Ų buried · 16 hydrogen bonds · protein-protein
- A–B · 1222 Ų buried · 23 hydrogen bonds · protein-protein
- D–E · 1131 Ų buried · 12 hydrogen bonds · protein-protein
- C–D · 850 Ų buried · 5 hydrogen bonds · protein-protein
- B–C · 412 Ų buried · 4 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 1 disulfide (disulfide).
Compared structures
- 6V9H · Ankyrin repeat and SOCS-box protein 9 (ASB9), ElonginB (ELOB), and ElonginC (ELOC) bound… · the same entry in another collection · chain E against E, TM-score 1.00
- P12277 · AlphaFold monomer V2.0 prediction for creatine kinase B-type (P12277) · a predicted model of the same protein · chain B against A, TM-score 0.98
- Q96DX5 · AlphaFold monomer V2.0 prediction for ankyrin repeat and socs box protein 9 (Q96DX5) · a predicted model of the same protein · chain C against A, TM-score 0.97
- Q15370 · AlphaFold monomer V2.0 prediction for elongin-B (Q15370) · a predicted model of the same protein · chain E against A, TM-score 0.96
- Q15369 · AlphaFold monomer V2.0 prediction for elongin-C (Q15369) · a predicted model of the same protein · chain D against A, TM-score 0.96
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 P12277
- Every structure of UniProt Q96DX5
- Every structure of UniProt Q15369
- Every structure of UniProt Q15370
- Elsewhere: RCSB PDB 6V9H · PDBe 6V9H · UniProt P12277 · UniProt Q96DX5 · UniProt Q15369 · UniProt Q15370
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