2OYQ	Transferase Dna	date	Feb 22, 2007
title	Crystal Structure Of Rb69 Gp43 In Complex With Dna With 5-Ni Opposite An Abasic Site Analog
authors	K.E.Zahn, H.Belrhali, S.S.Wallace, S.Doublie
compound		source
Molecule: Template Dna Chain: E, G, I, K Engineered: Yes		Synthetic: Yes
Molecule: Primer Dna Chain: F, H, J, L Engineered: Yes		Synthetic: Yes
Molecule: Dna Polymerase Chain: A, B, C, D Synonym: Gp43 Ec: 2.7.7.7 Engineered: Yes Mutation: Yes		Organism_scientific: Enterobacteria Phage Rb69 Organism_taxid: 12353 Gene: 43 Expression_system: Escherichia Coli Bl21(De3) Expression_system_taxid: 469008 Expression_system_strain: Bl21(De3) Expression_system_vector_type: Plasmid
symmetry	Space Group: P 1 21 1	R_factor 0.228 R_Free 0.294
crystal cell	length a length b length c angle alpha angle beta angle gamma 132.590 123.478 164.331 90.00 96.22 90.00
method	X-Ray Diffraction	resolution	2.86 Å
ligand	3DR, MG, N5I, N5P	enzyme	Transferase E.C.2.7.7.7 BRENDA
Gene Ontology	Chain Function Process Component A, D, C, B DNA-directed DNA polymerase ... nuclease activity exonuclease activity 3'-5' exonuclease activity
Primary reference	Caught bending the A-rule: crystal structures of translesion DNA synthesis with a non-natural nucleotide., Zahn KE, Belrhali H, Wallace SS, Doublie S, Biochemistry. 2007 Sep 18;46(37):10551-61. Epub 2007 Aug 24. PMID:17718515

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (576 Kb) [Save to disk] Biological Unit Coordinates (2oyq.pdb1.gz) 158 Kb Biological Unit Coordinates (2oyq.pdb2.gz) 138 Kb Biological Unit Coordinates (2oyq.pdb3.gz) 164 Kb Biological Unit Coordinates (2oyq.pdb4.gz) 127 Kb LPC: Ligand-Protein Contacts for 2OYQ CSU: Contacts of Structural Units for 2OYQ Likely Quarternary Molecular Structure file(s) for 2OYQ Structure Factors (3143 Kb) Retrieve 2OYQ in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 2OYQ from S2C, [Save to disk] Re-refined 2oyq structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 2OYQ 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 2OYQ

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 3D motif for 2OYQ, from MSDmotif at EBI

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [2oyq_G] [2oyq_B] [2oyq_I] [2oyq_H] [2oyq_F] [2oyq_E] [2oyq_D] [2oyq_L] [2oyq_C] [2oyq_A] [2oyq_J] [2oyq] [2oyq_K] SWISS-PROT database: [Q38087] Domain organization of [DPOL_BPR69] by SWISSPFAM Domain found in 2OYQ: [POLBc ] by SMART

Other resources with information on 2OYQ

Community annotation for 2OYQ at PDBWiki (http://pdbwiki.org) MMDB (Entrez's Structure Database)

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