MolNFT v1 · #150755 · protein
Crystal structure of the KAP1 rbcc domain in complex with the SMARCAD1 CUE1 domain.
6H3A · SWI/SNF-related matrix-associated actin-dependent regulator…: “Crystal structure of the KAP1 rbcc domain in complex with the SMARCAD1 CUE1 domain.”. X-ray diffraction, 1 ligand (ZN), 9 pockets (best druggability 0.80). MolNFT v1…
- PDB
- 6H3A
- Type
- protein
- Length
- 644 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- SWI/SNF-related matrix-associated actin-dependent regulator of chromatin subfamily a…
- EC
- 3.6.4.12, 2.3.2.27
- UniProt
- Q9H4L7, Q13263
- Ligands
- ZN
- Pockets
- 9 · best druggability 0.80
Structure
x-ray diffraction · 4 distinct chains · 57% helix, 6% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| D | SWI/SNF-related matrix-associated actin-dependent regulator of chromatin subfamily a containing DEAD/H box 1 (EC 3.6.4.12) | protein | 53 | 70% helix, 0% strand | Q9H4L7 |
| A | Transcription intermediary factor 1-beta (EC 2.3.2.27) | protein | 266 | 56% helix, 7% strand | Q13263 |
| B | SWI/SNF-related matrix-associated actin-dependent regulator of chromatin subfamily a containing DEAD/H box 1 (EC 3.6.4.12) | protein | 57 | 68% helix, 0% strand | Q9H4L7 |
| F | Transcription intermediary factor 1-beta (EC 2.3.2.27) | protein | 268 | 53% helix, 8% strand | Q13263 |
Ligands and binding sites
- ZN · Zinc ion · metal · 8 copies · chains A, F
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
9 pockets found on a 1 Å grid, 7 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 669 | 0.80 | 0.85 | 85 | empty |
| 2 | 516 | 0.75 | 0.83 | 59 | empty |
| 3 | 84 | 0.70 | 0.94 | 23 | empty |
| 4 | 208 | 0.69 | 0.86 | 37 | empty |
| 5 | 153 | 0.66 | 0.87 | 39 | empty |
Interfaces
5 interfaces between chains.
- A–F · 4995 Ų buried · 11 hydrogen bonds · protein-protein
- D–F · 642 Ų buried · 1 hydrogen bond · protein-protein
- A–B · 619 Ų buried · 3 hydrogen bonds · protein-protein
- D–A · 158 Ų buried · 0 hydrogen bonds · protein-protein
- B–F · 152 Ų buried · 0 hydrogen bonds · protein-protein
Compared structures
- 6H3A · Crystal structure of the KAP1 RBCC domain in complex with the SMARCAD1 CUE1 domain. · the same entry in another collection · chain F against F, TM-score 1.00
- Q9H4L7 · AlphaFold monomer V2.0 prediction for SWI/SNF-related matrix- associated actin-dependent… · a predicted model of the same protein · chain D against A, TM-score 0.84
- Q13263 · AlphaFold monomer V2.0 prediction for transcription intermediary factor 1-beta (Q13263) · a predicted model of the same protein · chain F against A, TM-score 0.81
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 Q9H4L7
- Every structure of UniProt Q13263
- Elsewhere: RCSB PDB 6H3A · PDBe 6H3A · UniProt Q9H4L7 · UniProt Q13263
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