4PW5: UHRF2-SRA

structure of UHRF2-SRA in complex with a 5hmC-containing DNA, complex I. Determined by X-ray diffraction at 2.2 Å resolution. Released 7 May 2014.

Method: X-ray diffraction
Resolution: 2.2 Å
Organism: Homo sapiens
Chains: 8
Atoms: 7,619
Mol. weight: 116.95 kDa
Released: 7 May 2014

Explore 4PW5 in 3D Show helices and sheets RCSB PDB PDBe

Secondary structure: helices and β-sheets

4PW5 contains 39 α-helices and 40 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.

Chains A and E: 9 helices, 10 β-strands

Element	Residues	Length	Sheet
α-helix	449-450	2
β-strand	458-459	2	1
α-helix	462-467	6
β-strand	478-481	4	1
β-strand	485-491	7	1
β-strand	500	1	1
β-strand	504-508	5	1
α-helix	532-539	8
β-strand	551-552	2	1
α-helix	556-558	3
α-helix	560-561	2
β-strand	562-567	6	1
α-helix	568-572	5
β-strand	582-597	16	1
β-strand	604-612	9	1
α-helix	617-618	2
α-helix	622-630	9
β-strand	635-636	2	1
α-helix	637-638	2

Chain B: 11 helices, 10 β-strands

Element	Residues	Length	Sheet
α-helix	449-450	2
β-strand	458-459	2	2
α-helix	462-467	6
β-strand	478-481	4	2
β-strand	485-491	7	2
β-strand	500	1	2
β-strand	504-508	5	2
α-helix	526-528	3
α-helix	532-539	8
β-strand	551-552	2	2
α-helix	556-558	3
α-helix	560-561	2
β-strand	562-567	6	2
α-helix	568-572	5
β-strand	582-597	16	2
β-strand	604-612	9	2
α-helix	617-618	2
α-helix	622-630	9
α-helix	635	1
β-strand	636	1	2
α-helix	637-638	2

Chain F: 10 helices, 10 β-strands

Element	Residues	Length	Sheet
α-helix	449-450	2
β-strand	458-459	2	4
α-helix	462-468	7
β-strand	478-481	4	4
β-strand	485-491	7	4
β-strand	500	1	4
β-strand	504-508	5	4
α-helix	532-539	8
β-strand	551-552	2	4
α-helix	556-558	3
α-helix	560-561	2
β-strand	562-567	6	4
α-helix	568-572	5
β-strand	582-597	16	4
β-strand	604-612	9	4
α-helix	617-618	2
α-helix	622-630	9
α-helix	635	1
β-strand	636	1	4
α-helix	637-638	2

Molecules and chains

Molecule	Chains	Type	Length	Organism	UniProt
E3 ubiquitin-protein ligase UHRF2	A, B, E, F	protein	230	Homo sapiens	Q96PU4 (AlphaFold model)
5hmC-containing DNA1	C, G	DNA	12
5hmC-containing DNA2	D, H	DNA	12

Sequence of entity 1 (A, B, E, F), FASTA

>4PW5_1 E3 ubiquitin-protein ligase UHRF2 (chains A, B, E, F)
STESRRDWGRGMACVGRTRECTIVPSNHYGPIPGIPVGSTWRFRVQVSEAGVHRPHVGGI
HGRSNDGAYSLVLAGGFADEVDRGDEFTYTGSGGKNLAGNKRIGAPSADQTLTNMNRALA
LNCDAPLDDKIGAESRNWRAGKPVRVIRSFKGRKISKYAPEEGNRYDGIYKVVKYWPEIS
SSHGFLVWRYLLRRDDVEPAPWTSEGIERSRRLCLRLQYPAGYPSDKEGK

Sequence of entity 2 (C, G), FASTA

>4PW5_2 5hmC-containing DNA1 (chains C, G)
CTGGTCXGGATG

Sequence of entity 3 (D, H), FASTA

>4PW5_3 5hmC-containing DNA2 (chains D, H)
CCATCCGGACCA

Primary citation

Structural Basis for Hydroxymethylcytosine Recognition by the SRA Domain of UHRF2. Zhou, T., Xiong, J., Wang, M. et al. Mol Cell (2014) 54:879-886. DOI 10.1016/j.molcel.2014.04.003 · PubMed

Other PDB entries of the same protein (UniProt Q96PU4 (AlphaFold model), which also has an AlphaFold model), best resolution first:

4PW7 2.0 Å, structure of UHRF2-SRA in complex with a 5mC-containing DNA
1Z6U 2.1 Å, Np95-like ring finger protein isoform b [Homo sapiens]
5YCO 2.2 Å, Complex structure of PCNA with UHRF2
4TVR 2.29 Å, Tandem Tudor and PHD domains of UHRF2
3OLN 2.3 Å, Crystal structure of the SRA domain of E3 ubiquitin-protein ligase UHRF2
4PW6 3.79 Å, structure of UHRF2-SRA in complex with a 5hmC-containing DNA, complex II
1WY8 Solution Structure of the N-terminal Ubiquitin-like Domain in Human Np95/ICBP90-like…
2E6S Solution structure of the PHD domain in RING finger protein 107

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