2IG0: 53BP1/methylated histone peptide complex

Structure of 53BP1/methylated histone peptide complex. Determined by X-ray diffraction at 1.7 Å resolution. Released 2 Jan 2007.

Method: X-ray diffraction
Resolution: 1.7 Å
Organism: Homo sapiens
Chains: 2
Atoms: 1,315
Mol. weight: 15.4 kDa
Released: 2 Jan 2007

Explore 2IG0 in 3D Show helices and sheets RCSB PDB PDBe

Secondary structure: helices and β-sheets

2IG0 contains 5 α-helices and 12 β-strands across 1 chain. 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: 5 helices, 12 β-strands

Element	Residues	Length	Sheet
β-strand	1490-1494	5	1
β-strand	1501-1511	11	1
β-strand	1514-1519	6	1
β-strand	1524-1528	5	1
α-helix	1529-1531	3
β-strand	1532-1533	2	1
α-helix	1538-1539	2
β-strand	1543-1547	5	2
β-strand	1553-1564	12	2
β-strand	1567-1574	8	2
β-strand	1577-1582	6	2
α-helix	1583-1585	3
β-strand	1586-1587	2	2
β-strand	1588	1	1
α-helix	1590-1594	5
α-helix	1597-1600	4
β-strand	1601	1	1

Molecules and chains

Molecule	Chains	Type	Length	Organism	UniProt
Tumor suppressor p53-binding protein 1	A	protein	123	Homo sapiens	Q12888 (AlphaFold model)
Dimethylated Histone H4-K20 peptide	B	protein	10		P62805 (AlphaFold model)

Sequence of entity 1 (A), FASTA

>2IG0_1 Tumor suppressor p53-binding protein 1 (chains A)
GHMNSFVGLRVVAKWSSNGYFYSGKITRDVGAGKYKLLFDDGYECDVLGKDILLCDPIPL
DTEVTALSEDEYFSAGVVKGHRKESGELYYSIEKEGQRKWYKRMAVILSLEQGNRLREQY
GLG

Sequence of entity 2 (B), FASTA

>2IG0_2 Dimethylated Histone H4-K20 peptide (chains B)
KRHRKVLRDN

Primary citation

Structural Basis for the Methylation State-Specific Recognition of Histone H4-K20 by 53BP1 and Crb2 in DNA Repair. Botuyan, M.V., Lee, J., Ward, I.M. et al. Cell (2006) 127:1361-1373. DOI 10.1016/j.cell.2006.10.043 · PubMed

Other PDB entries of the same protein (UniProt Q12888 (AlphaFold model), which also has an AlphaFold model), best resolution first:

8SVI 1.15 Å, Ubiquitin variant i53:Mutant L67H with 53BP1 Tudor domain
8SVH 1.16 Å, Ubiquitin variant i53 mutant L67R bound to 53BP1 Tudor Domain
8SVG 1.21 Å, Ubiquitin variant i53 in complex with 53BP1 Tudor domain
2G3R 1.25 Å, Crystal Structure of 53BP1 tandem tudor domains at 1.2 A resolution
6VA5 1.28 Å, Tudor Domain of Tumor suppressor p53BP1 with MFP-4184
6VIP 1.36 Å, Tudor domain of tumor suppressor P53BP1 with mfp-6008
7LIN 1.44 Å, X-ray structure of SPOP MATH domain (D140G) in complex with a 53BP1 peptide
3LGF 1.5 Å, Crystal structure of the 53BP1 tandem tudor domain in complex with p53K370me2
4RG2 1.5 Å, Tudor Domain of Tumor suppressor p53BP1 with small molecule ligand
8SVJ 1.5 Å, Ubiquitin variant i53: mutant VHH with 53BP1 Tudor domain
8F0W 1.52 Å, Tudor Domain of Tumor suppressor p53BP1 with MFP-5956
3LGL 1.6 Å, Crystal structure of the 53BP1 tandem tudor domain in complex with p53K382me2

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