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Crystal structure of ankyrin repeat and socs box-containing protein 9 (ASB9) in complex with elonginb and elonginc
Analyse Crystal structure of ankyrin repeat and socs box-containing protein 9 (ASB9) in… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 3ZKJ
- Type
- protein
- Length
- 854 residues
- Chains
- 6
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Ankyrin repeat and socs box protein 9; Transcription elongation factor B polypeptide 1…
- UniProt
- Q96DX5, Q15369, Q15370
- Ligands
- CL
- Pockets
- 9 · best druggability 0.64
Structure
x-ray diffraction · 6 distinct chains · 45% helix, 10% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Ankyrin repeat and socs box protein 9 | protein | 257 | 53% helix, 2% strand | Q96DX5 |
| B | Transcription elongation factor B polypeptide 1 | protein | 82 | 50% helix, 13% strand | Q15369 |
| C | Transcription elongation factor B polypeptide 2 | protein | 70 | 21% helix, 26% strand | Q15370 |
| D | Ankyrin repeat and socs box protein 9 | protein | 259 | 52% helix, 2% strand | Q96DX5 |
| E | Transcription elongation factor B polypeptide 1 | protein | 81 | 51% helix, 12% strand | Q15369 |
| F | Transcription elongation factor B polypeptide 2 | protein | 105 | 14% helix, 36% strand | Q15370 |
Ligands and binding sites
- CL · Chloride ion · ion · 2 copies · chains A, D, F
- EDO · 1,2-ethanediol · additive · 2 copies · chains A, D
- PEG · Di(hydroxyethyl)ether · additive · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
9 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 455 | 0.64 | 0.77 | 43 | empty |
| 2 | 444 | 0.62 | 0.76 | 46 | empty |
| 3 | 119 | 0.42 | 0.76 | 20 | empty |
| 4 | 58 | 0.41 | 0.81 | 22 | empty |
| 5 | 116 | 0.41 | 0.76 | 21 | empty |
Interfaces
7 interfaces between chains.
- E–F · 1158 Ų buried · 14 hydrogen bonds · protein-protein
- B–C · 1029 Ų buried · 10 hydrogen bonds · protein-protein
- D–E · 834 Ų buried · 4 hydrogen bonds · protein-protein
- A–B · 819 Ų buried · 4 hydrogen bonds · protein-protein
- A–D · 588 Ų buried · 20 hydrogen bonds · protein-protein
Compared structures
- 3ZKJ · Crystal Structure of Ankyrin Repeat and Socs Box-Containing Protein 9 (Asb9) in Complex… · the same entry in another collection · chain F against F, TM-score 1.00
- Q96DX5 · AlphaFold monomer V2.0 prediction for ankyrin repeat and socs box protein 9 (Q96DX5) · a predicted model of the same protein · chain A against A, TM-score 0.99
- Q15369 · AlphaFold monomer V2.0 prediction for elongin-C (Q15369) · a predicted model of the same protein · chain B against A, TM-score 0.98
- Q15370 · AlphaFold monomer V2.0 prediction for elongin-B (Q15370) · a predicted model of the same protein · chain F 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 Q96DX5
- Every structure of UniProt Q15369
- Every structure of UniProt Q15370
- Elsewhere: RCSB PDB 3ZKJ · PDBe 3ZKJ · UniProt Q96DX5 · UniProt Q15369 · UniProt Q15370
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