MolNFT v1 · #140063 · protein
Crystal structure of drosophila melanogaster rhino chromoshadow domain in complex with deadlock N-terminal domain
5XYV: “Crystal structure of drosophila melanogaster rhino chromoshadow domain in complex with deadlock N-terminal…”. X-ray diffraction, 2 pockets (best druggability 0.40). MolNFT v1 #140063 on GenesisL1: 3D structure, binding sites and…
- PDB
- 5XYV
- Type
- protein
- Length
- 220 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Rhino; Protein deadlock
- UniProt
- L0CPQ5, Q9VIF5
- Pockets
- 2 · best druggability 0.40
Structure
x-ray diffraction · 4 distinct chains · 46% helix, 25% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Rhino | protein | 63 | 27% helix, 41% strand | L0CPQ5 |
| B | Rhino | protein | 64 | 27% helix, 41% strand | L0CPQ5 |
| C | Protein deadlock | protein | 52 | 71% helix, 6% strand | Q9VIF5 |
| D | Protein deadlock | protein | 41 | 76% helix, 0% strand | Q9VIF5 |
Pockets
2 pockets found on a 1 Å grid, 0 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 65 | 0.40 | 0.79 | 13 | empty |
| 2 | 53 | 0.25 | 0.72 | 13 | empty |
Interfaces
6 interfaces between chains.
- A–C · 1066 Ų buried · 8 hydrogen bonds · protein-protein
- A–B · 864 Ų buried · 9 hydrogen bonds · protein-protein
- B–D · 696 Ų buried · 8 hydrogen bonds · protein-protein
- B–C · 480 Ų buried · 7 hydrogen bonds · protein-protein
- A–D · 71 Ų buried · 0 hydrogen bonds · protein-protein
Compared structures
- 5XYV · Crystal structure of drosophila melanogaster Rhino chromoshadow domain in complex with… · the same entry in another collection · chain A against A, TM-score 1.00
- Q9VIF5 · AlphaFold monomer V2.0 prediction for protein deadlock (Q9VIF5) · a predicted model of the same protein · chain D against A, TM-score 0.95
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 L0CPQ5
- Every structure of UniProt Q9VIF5
- Elsewhere: RCSB PDB 5XYV · PDBe 5XYV · UniProt L0CPQ5 · UniProt Q9VIF5
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