5ZRF	Isomerase Dna	date	Apr 24, 2018
title	Crystal Structure Of Human Topoisomerase II Beta In Complex Iodouridine-Containing-Dna And Etoposide In Space Group P21
authors	S.F.Chen, Y.R.Wang, C.C.Wu, N.L.Chan
compound		source
Molecule: Dna Topoisomerase 2-Beta Chain: A, B Synonym: Dna Topoisomerase II,Beta Isozyme Ec: 5.99.1.3 Engineered: Yes		Organism_scientific: Homo Sapiens Organism_common: Human Organism_taxid: 9606 Gene: Top2b Expression_system: Escherichia Coli Bl21(De3) Expression_system_taxid: 469008 Expression_system_strain: Bl21(De3) Expression_system_vector_type: Plasmid Expression_system_plasmid: Pet51b
Molecule: Dna (5'-D(Papgpcpcpgpapgpc)-3') Chain: C, E Engineered: Yes		Synthetic: Yes Organism_scientific: Synthetic Construct Organism_taxid: 32630
Molecule: Dnarna (5'-R(P(Iu))-D(Pgpcpapgpc)-R(P(Iu) D(Pcpgpgpc)-R(P(Iu))-3'); Chain: D, F Engineered: Yes		Synthetic: Yes Organism_scientific: Synthetic Construct Organism_taxid: 32630
symmetry	Space Group: P 1 21 1	R_factor 0.189 R_Free 0.227
crystal cell	length a length b length c angle alpha angle beta angle gamma 80.147 176.270 94.331 90.00 111.44 90.00
method	X-Ray Diffraction	resolution	2.30 Å
ligand	EVP, IU, MG	enzyme	Isomerase E.C.5.99.1.3 BRENDA
Gene Ontology	Chain Function Process Component A, B
Primary reference	Structural insights into the gating of DNA passage by the topoisomerase II DNA-gate., Chen SF, Huang NL, Lin JH, Wu CC, Wang YR, Yu YJ, Gilson MK, Chan NL, Nat Commun. 2018 Aug 6;9(1):3085. doi: 10.1038/s41467-018-05406-y. PMID:30082834

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (487 Kb) [Save to disk] Biological Unit Coordinates (5zrf.pdb1.gz) 471 Kb LPC: Ligand-Protein Contacts for 5ZRF CSU: Contacts of Structural Units for 5ZRF Structure Factors (2694 Kb) Retrieve 5ZRF in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 5ZRF from S2C, [Save to disk]

View 5ZRF in 3D

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Visual 3D analysis of 5ZRF

Ramachandran plot from PDBSum

Structure-derived information

Dipole moment, from Dipole Server at Weizmann Institute

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [5zrf_F] [5zrf_B] [5zrf_E] [5zrf_A] [5zrf_D] [5zrf_C] SWISS-PROT database: Domain organization of by SWISSPFAM

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