MolNFT v1 · #177186 · protein
Crystal structure of NDP52 skich domain in complex with RB1CC1 coiled- coil domain
7EAA · RB1-inducible coiled-coil protein 1: “Crystal structure of NDP52 skich domain in complex with RB1CC1 coiled- coil domain”. X-ray diffraction, 3 pockets (best druggability 0.53). MolNFT v1 #177186 on GenesisL1: 3D structure, binding…
- PDB
- 7EAA
- Type
- protein
- Length
- 441 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- RB1-inducible coiled-coil protein 1; Calcium-binding and coiled-coil domain-containing…
- UniProt
- Q8TDY2, Q13137
- Pockets
- 3 · best druggability 0.53
Structure
x-ray diffraction · 4 distinct chains · 52% helix, 19% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| C | RB1-inducible coiled-coil protein 1 | protein | 114 | 96% helix, 0% strand | Q8TDY2 |
| D | RB1-inducible coiled-coil protein 1 | protein | 110 | 95% helix, 0% strand | Q8TDY2 |
| B | Calcium-binding and coiled-coil domain-containing protein 2 | protein | 113 | 8% helix, 35% strand | Q13137 |
| A | Calcium-binding and coiled-coil domain-containing protein 2 | protein | 104 | 6% helix, 41% strand | Q13137 |
Pockets
3 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 61 | 0.53 | 0.88 | 19 | empty |
| 2 | 155 | 0.52 | 0.79 | 26 | empty |
| 3 | 74 | 0.34 | 0.75 | 22 | empty |
Interfaces
5 interfaces between chains.
- C–D · 2921 Ų buried · 19 hydrogen bonds · protein-protein
- C–B · 608 Ų buried · 6 hydrogen bonds · protein-protein
- D–B · 560 Ų buried · 11 hydrogen bonds · protein-protein
- D–A · 497 Ų buried · 4 hydrogen bonds · protein-protein
- C–A · 484 Ų buried · 9 hydrogen bonds · protein-protein
Compared structures
- 7EAA · crystal structure of NDP52 SKICH domain in complex with RB1CC1 coiled-coil domain · the same entry in another collection · chain A against A, TM-score 1.00
- Q13137 · AlphaFold monomer V2.0 prediction for calcium-binding and coiled-coil domain-containing… · a predicted model of the same protein · chain A against A, TM-score 0.93
- Q8TDY2 · AlphaFold monomer V2.0 prediction for RB1-inducible coiled-coil protein 1 (Q8TDY2) · a predicted model of the same protein · chain C against A, TM-score 0.69
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 Q8TDY2
- Every structure of UniProt Q13137
- Elsewhere: RCSB PDB 7EAA · PDBe 7EAA · UniProt Q8TDY2 · UniProt Q13137
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