4X3S: Chromobox protein homolog 7

Crystal structure of chromobox homology 7 (CBX7) with SETDB1-1170me3 Peptide. Determined by X-ray diffraction at 1.6 Å resolution. Released 4 Mar 2015.

Method: X-ray diffraction
Resolution: 1.6 Å
Organisms: Mus musculus, Homo sapiens
Chains: 4
Atoms: 1,446
Mol. weight: 18.58 kDa
Ligands: CIT, FE
Released: 4 Mar 2015

Explore 4X3S in 3D Show helices and sheets RCSB PDB PDBe

Secondary structure: helices and β-sheets

4X3S contains 6 α-helices and 12 β-strands across 4 chains. Residue ranges use author residue numbering, as in the PDB file, from PDBe. To see them in 3D, choose the Cartoon representation with Secondary structure coloring: helices, sheets and coils get different colors.

Chain A: 3 helices, 5 β-strands

Element	Residues	Length	Sheet
β-strand	7-12	6	1
β-strand	13-22	10	2
β-strand	25-32	8	2
α-helix	37-39	3
β-strand	41-44	4	2
α-helix	45-47	3
β-strand	48	1	1
α-helix	51-64	14

Chain B: 3 helices, 5 β-strands

Element	Residues	Length	Sheet
β-strand	7-12	6	3
β-strand	13-22	10	4
β-strand	25-32	8	4
α-helix	37-39	3
β-strand	41-44	4	4
α-helix	45-47	3
β-strand	48	1	3
α-helix	51-63	13

Chains C and D: 0 helices, 1 β-strand

Element	Residues	Length	Sheet
β-strand	1167-1172	6	3

Molecules and chains

Molecule	Chains	Type	Length	Organism	UniProt
Chromobox protein homolog 7	A, B	protein	64	Mus musculus	Q8VDS3 (AlphaFold model)
SETDB1-1170me3 Peptide	C, D	protein	10	Homo sapiens	Q15047 (AlphaFold model)

Sequence of entity 1 (A, B), FASTA

>4X3S_1 Chromobox protein homolog 7 (chains A, B)
GSHMGEQVFAVESIRKKRVRKGKVEYLVKWKGWPPKYSTWEPEEHILDPRLVMAYEEKEE
RDRA

Sequence of entity 2 (C, D), FASTA

>4X3S_2 SETDB1-1170me3 Peptide (chains C, D)
RGFALKSTHG

Ligands and cofactors

ID	Name	Formula	Copies
CIT	Citric acid	C6 H8 O7	4
FE	FE (III) ion	Fe	2

Primary citation

Small-Molecule Modulators of Methyl-Lysine Binding for the CBX7 Chromodomain. Ren, C., Morohashi, K., Plotnikov, A.N. et al. Chem Biol (2015) 22:161-168. DOI 10.1016/j.chembiol.2014.11.021 · PubMed

Other PDB entries of the same protein (UniProt Q8VDS3 (AlphaFold model), which also has an AlphaFold model), best resolution first:

4X3K 1.45 Å, Crystal structure of chromobox homolog 7 (CBX7) chromodomain with H3K27me3 peptide
4X3U 1.63 Å, Crystal structure of chromobox homolog 7 (CBX7) chromodomain with Suramin
4X3T 2.14 Å, Crystal structure of chromobox homolog 7 (CBX7) chromodomain with MS37452
5EJW 2.6 Å, Crystal structure of chromobox homolog 7 (CBX7) chromodomain with MS351
2KVM Solution structure of the CBX7 chromodomain in complex with a H3K27me2 peptide

Browse structure collections

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