MolNFT v1 · #109475 · protein
Crystal structure of chromobox homology 7 (CBX7) with SETDB1-1170ME3 peptide
4X3S · Chromobox protein homolog 7: “Crystal structure of chromobox homology 7 (CBX7) with SETDB1-1170ME3 peptide”. X-ray diffraction, 1 ligand (FE). MolNFT v1 #109475 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 4X3S
- Type
- protein
- Length
- 139 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Chromobox protein homolog 7; SETDB1-1170ME3 peptide
- UniProt
- Q8VDS3
- Ligands
- FE
Structure
x-ray diffraction · 3 distinct chains · 30% helix, 49% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Chromobox protein homolog 7 | protein | 61 | 33% helix, 48% strand | Q8VDS3 |
| B | Chromobox protein homolog 7 | protein | 60 | 32% helix, 48% strand | Q8VDS3 |
| C, D | SETDB1-1170ME3 peptide | protein | 9 | 0% helix, 67% strand | — |
Ligands and binding sites
- FE · Fe (III) ion · metal · 2 copies · chains A, B
- CIT · Citric acid · additive · 4 copies · chains A, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Interfaces
3 interfaces between chains.
- B–C · 717 Ų buried · 21 hydrogen bonds · protein-protein
- A–D · 711 Ų buried · 21 hydrogen bonds · protein-protein
- A–B · 64 Ų buried · 2 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 2 modified (methylation).
Compared structures
- 4X3S · Crystal structure of chromobox homology 7 (CBX7) with SETDB1-1170me3 Peptide · the same entry in another collection · chain A against A, TM-score 1.00
- Q8VDS3 · AlphaFold monomer V2.0 prediction for chromobox protein homolog 7 (Q8VDS3) · a predicted model of the same protein · chain A against A, TM-score 0.92
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 Q8VDS3
- Elsewhere: RCSB PDB 4X3S · PDBe 4X3S · UniProt Q8VDS3
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