3PVX Transferase Dna date Dec 07, 2010
title Binary Complex Of Aflatoxin B1 Adduct Modified Dna (Afb1-Fap Dna Polymerase Iv
authors S.Banerjee
compound source
Molecule: Dna Polymerase Iv
Chain: A
Fragment: Unp Residues 1-341
Synonym: Pol Iv
Engineered: Yes
Organism_scientific: Sulfolobus Solfataricus
Organism_taxid: 2287
Gene: Dbh, Dpo4, Sso2448
Expression_system: Escherichia Coli
Expression_system_taxid: 562

Molecule: Dna (5'-D(Aptptp(Pvx) Papaptpcpcptptpcpcpcpcpc)-3');
Chain: B
Engineered: Yes
Other_details: Modified Dna Template

Synthetic: Yes
Organism_taxid: 32630

Molecule: Dna (5'-D(Gpgpgpgpgpapapgpgpaptptpc)
Chain: C
Engineered: Yes
Other_details: Dna Primer

Synthetic: Yes
Organism_taxid: 32630
symmetry Space Group: P 21 21 2
R_factor 0.226 R_Free 0.299
length a length b length c angle alpha angle beta angle gamma
94.752 103.905 52.890 90.00 90.00 90.00
method X-Ray Diffractionresolution 3.03 Å
ligand CA, PVX enzyme Transferase E.C. BRENDA

Primary referenceBypass of Aflatoxin B(1) Adducts by the Sulfolobus solfataricus DNA Polymerase IV., Banerjee S, Brown KL, Egli M, Stone MP, J Am Chem Soc. 2011 Jul 26. PMID:21790157
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (76 Kb) [Save to disk]
  • Biological Unit Coordinates (3pvx.pdb1.gz) 70 Kb
  • LPC: Ligand-Protein Contacts for 3PVX
  • CSU: Contacts of Structural Units for 3PVX
  • Structure Factors (75 Kb)
  • Retrieve 3PVX in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3PVX from S2C, [Save to disk]
  • Re-refined 3pvx structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 3PVX 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 3PVX
  • 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 3PVX, from MSDmotif at EBI
  • Fold representative 3pvx from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3pvx_A] [3pvx_C] [3pvx] [3pvx_B]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 3PVX
  • Community annotation for 3PVX at PDBWiki (http://pdbwiki.org)
  • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

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