2HVI Transferase Dna date Jul 28, 2006
title Ddctp:G Pair In The Polymerase Active Site (0 Position)
authors J.J.Warren, L.J.Forsberg, L.S.Beese
compound source
Molecule: 5'-D(Cpcptpgpapcptpcp(Ddg))-3'
Chain: B, E
Engineered: Yes
Other_details: Dna Primer Strand
Synthetic: Yes

Molecule: 5'-D(Captpgpcpgpapgptpcpapgpg)-3'
Chain: C, F
Engineered: Yes
Other_details: Dna Template Strand

Synthetic: Yes

Molecule: Dna Polymerase I
Chain: A, D
Fragment: Residues 299-876 (Analogous To E Coli Klenow Frag
Ec: 2.7.7.7
Engineered: Yes

Organism_scientific: Geobacillus Stearothermophilus
Organism_taxid: 1422
Gene: Pola
Expression_system: Escherichia Coli Bl21
Expression_system_taxid: 511693
Expression_system_strain: Bl21
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Puc
symmetry Space Group: P 21 21 21
R_factor 0.199 R_Free 0.231
crystal
cell
length a length b length c angle alpha angle beta angle gamma
93.795 108.492 149.403 90.00 90.00 90.00
method X-Ray Diffractionresolution 1.98 Å
ligand DCT, DDG, FRU, GLC, MG, SO4 enzyme Transferase E.C.2.7.7.7 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A, D


Primary referenceThe structural basis for the mutagenicity of O6-methyl-guanine lesions., Warren JJ, Forsberg LJ, Beese LS, Proc Natl Acad Sci U S A. 2006 Dec 26;103(52):19701-6. Epub 2006 Dec 18. PMID:17179038
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (222 Kb) [Save to disk]
  • Biological Unit Coordinates (2hvi.pdb1.gz) 109 Kb
  • Biological Unit Coordinates (2hvi.pdb2.gz) 110 Kb
  • LPC: Ligand-Protein Contacts for 2HVI
  • CSU: Contacts of Structural Units for 2HVI
  • Likely Quarternary Molecular Structure file(s) for 2HVI
  • Structure Factors (1325 Kb)
  • Retrieve 2HVI in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 2HVI from S2C, [Save to disk]
  • Re-refined 2hvi structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 2HVI 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 2HVI
  • 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 2HVI, from MSDmotif at EBI
  • Fold representative 2hvi from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [2hvi_F] [2hvi_E] [2hvi] [2hvi_C] [2hvi_D] [2hvi_A] [2hvi_B]
  • SWISS-PROT database: [Q5KWC1]
  • Domain organization of [Q5KWC1_GEOKA] by SWISSPFAM
  • Domains found in 2HVI: [35EXOc] [POLAc ] by SMART
  • Other resources with information on 2HVI
  • Community annotation for 2HVI 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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