5U2R	Transferase Dna	date	Nov 30, 2016
title	Precatalytic Ternary Complex Of Human Dna Polymerase Beta Wi Dna Substarte, Incoming L-Dctp And Ca2+
authors	R.Vyas, Z.Suo
compound		source
Molecule: Dna Polymerase Beta Chain: A Ec: 2.7.7.7,4.2.99.- Engineered: Yes		Organism_scientific: Homo Sapiens Organism_common: Human Organism_taxid: 9606 Gene: Polb Expression_system: Escherichia Coli Expression_system_taxid: 469008 Expression_system_strain: Bl21(De3) Expression_system_vector_type: Plasmid Expression_system_plasmid: Pet28b
Molecule: 16- Mer Template Chain: T Engineered: Yes		Synthetic: Yes Organism_scientific: Synthetic Construct Organism_taxid: 32630
Molecule: 10- Mer Primer Chain: P Engineered: Yes		Synthetic: Yes Organism_scientific: Synthetic Construct Organism_taxid: 32630
Molecule: 5-Mer Phosphorylated Downstream Primer Chain: D Engineered: Yes		Synthetic: Yes Organism_scientific: Synthetic Construct Organism_taxid: 32630
symmetry	Space Group: P 1 21 1	R_factor 0.191 R_Free 0.229
crystal cell	length a length b length c angle alpha angle beta angle gamma 50.910 80.160 55.640 90.00 107.68 90.00
method	X-Ray Diffraction	resolution	1.80 Å
ligand	1S0, ACT, CA, NA	enzyme	Transferase E.C.2.7.7.7 BRENDA
Gene Ontology	Chain Function Process Component A
Primary reference	Structural basis for the D-stereoselectivity of human DNA polymerase beta., Vyas R, Reed AJ, Raper AT, Zahurancik WJ, Wallenmeyer PC, Suo Z, Nucleic Acids Res. 2017 Apr 10. doi: 10.1093/nar/gkx252. PMID:28402499

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (78 Kb) [Save to disk] Biological Unit Coordinates (5u2r.pdb1.gz) 72 Kb LPC: Ligand-Protein Contacts for 5U2R CSU: Contacts of Structural Units for 5U2R Structure Factors (2325 Kb) Retrieve 5U2R in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 5U2R from S2C, [Save to disk] Re-refined 5u2r structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 5U2R in 3D

Proteopedia, because life has more than 2D. On Jmol, a nice Rasmol like molecule viewer. This is good for easiest viewing of basic structure. On FirstGlance, an excellent tool for a guided tour on the structure components, by E. Martz.

Visual 3D analysis of 5U2R

Ramachandran plot from PDBSum

Structure-derived information

Electron Density related parameters from EDS Electron Density Server, at Upsala Dipole moment, from Dipole Server at Weizmann Institute

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [5u2r_A] [5u2r_D] [5u2r_T] [5u2r_P] [5u2r] SWISS-PROT database: Domain organization of by SWISSPFAM

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