5BOL	Transferase Dna	date	May 27, 2015
title	Dna Polymerase Beta Ternary Complex With A Templating 5clc A Incoming Dgtp Analog
authors	B.D.Freudenthal, S.H.Wilson
compound		source
Molecule: Dna (5'-D(Cpcpgpapcp(Cdo) Pgpcpgpcpaptpcpapgpc)-3'); Chain: T Engineered: Yes Other_details: Cdo Corresponds To 5-Chlorocytosine Deoxynuc		Synthetic: Yes Organism_scientific: Synthetic Construct Organism_taxid: 32630
Molecule: Dna (5'-D(Gpcptpgpaptpgpcpgpc)-3') Chain: P Engineered: Yes		Synthetic: Yes Organism_scientific: Synthetic Construct Organism_taxid: 32630
Molecule: Dna (5'-D(Pgptpcpgpg)-3') Chain: D Engineered: Yes		Synthetic: Yes Organism_scientific: Synthetic Construct Organism_taxid: 32630
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: 562 Expression_system_strain: Tap56 Expression_system_plasmid: Pwl11
symmetry	Space Group: P 1 21 1	R_factor 0.190 R_Free 0.247
crystal cell	length a length b length c angle alpha angle beta angle gamma 50.640 79.114 55.702 90.00 107.65 90.00
method	X-Ray Diffraction	resolution	1.98 Å
ligand	1GC, 4U3, MG, NA	enzyme	Transferase E.C.2.7.7.7 BRENDA
Gene Ontology	Chain Function Process Component A
Primary reference	Intrinsic mutagenic properties of 5-chlorocytosine: A mechanistic connection between chronic inflammation and cancer., Fedeles BI, Freudenthal BD, Yau E, Singh V, Chang SC, Li D, Delaney JC, Wilson SH, Essigmann JM, Proc Natl Acad Sci U S A. 2015 Aug 18;112(33):E4571-80. doi:, 10.1073/pnas.1507709112. Epub 2015 Aug 4. PMID:26243878

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (78 Kb) [Save to disk] Biological Unit Coordinates (5bol.pdb1.gz) 73 Kb LPC: Ligand-Protein Contacts for 5BOL CSU: Contacts of Structural Units for 5BOL Structure Factors (473 Kb) Retrieve 5BOL in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 5BOL from S2C, [Save to disk] Re-refined 5bol structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 5BOL 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 5BOL

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: [5bol_D] [5bol] [5bol_A] [5bol_T] [5bol_P] SWISS-PROT database: Domain organization of by SWISSPFAM Domains found in 5BOL: [HhH1] [POLXc ] by SMART

Other resources with information on 5BOL

Community annotation for 5BOL at PDBWiki (http://pdbwiki.org)

You may enter another PDB ID code

Go [Back], to the [PDB Lite page], to the [OCA Search page] or to the [PDB Home page]

---

OCA© by Jaime Prilusky, 1996-2014,2022 Bioinformatics Unit Weizmann Institute of Science

---