3QZ7 Transferase Dna date Mar 04, 2011
title T-3 Ternary Complex Of Dpo4
authors J.D.Pata, Y.Wu, R.C.Wilson
compound source
Molecule: Dna Polymerase Iv
Chain: A
Synonym: Dpo4, Y-Family Dna Polymerase, Pol Iv
Engineered: Yes
Organism_scientific: Sulfolobus Solfataricus
Organism_taxid: 2287
Strain: P2
Gene: Dbh, Dpo4, Sso2448
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Blr(De3)Plyss
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pkkt7

Molecule: 5'-D(Gpgpcpapcptpgpaptpcpgpgpg)-3'
Chain: P
Engineered: Yes
Other_details: Primer Dna Strand

Synthetic: Yes

Molecule: 5'-D(Tptpapcpgpcpcptpcpgpaptpcpapg C)-3';
Chain: T
Engineered: Yes
Other_details: Template Dna Strand

Synthetic: Yes
symmetry Space Group: P 21 21 2
R_factor 0.227 R_Free 0.267
length a length b length c angle alpha angle beta angle gamma
98.708 102.461 52.743 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.00 Å
ligand CA, DCP enzyme Transferase E.C. BRENDA

Primary referenceThe Y-family DNA polymerase Dpo4 uses a template-slippage mechanism to create single-base deletions., Wu Y, Wilson RC, Pata JD, J Bacteriol. 2011 Mar 18. PMID:21421759
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (136 Kb) [Save to disk]
  • Biological Unit Coordinates (3qz7.pdb1.gz) 130 Kb
  • LPC: Ligand-Protein Contacts for 3QZ7
  • CSU: Contacts of Structural Units for 3QZ7
  • Structure Factors (501 Kb)
  • Retrieve 3QZ7 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3QZ7 from S2C, [Save to disk]
  • Re-refined 3qz7 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 3QZ7 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 3QZ7
  • Cartoon representation from PDB Cartoon
  • 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
  • Crystal Contacts, from CryCo at Weizmann Institute
  • 3D motif for 3QZ7, from MSDmotif at EBI
  • Fold representative 3qz7 from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3qz7_T] [3qz7] [3qz7_A] [3qz7_P]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 3QZ7
  • Community annotation for 3QZ7 at PDBWiki (http://pdbwiki.org)
  • MMDB (Entrez's Structure Database)
  • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

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