2QNC Hydrolase Dna date Jul 18, 2007
title Crystal Structure Of T4 Endonuclease Vii N62d Mutant In Comp Dna Holliday Junction
authors C.Biertumpfel, W.Yang, D.Suck
compound source
Molecule: Dna (5'- D(Dcpdgdapdapdgpdapdapdtpdtpdcpdcpdgpdgpdapd Dgpdgpdgpdapdtpdcpdc)-3');
Chain: C
Engineered: Yes
Synthetic: Yes

Molecule: Dna (5'- D(Dgpdgpdapdtpdcpdcpdcpdtpdapdapdgpdcpdtpdcp Pdcpdgpdapdtpdgpdtpdg)-3');
Chain: D
Engineered: Yes

Synthetic: Yes

Molecule: Dna (5'- D(Dcpdapdcpdapdtpdcpdgpdapdtpdgpdgpdapdgpdcp Pdtpdapdgpdgpdcpdcpdt)-3');
Chain: E
Engineered: Yes

Synthetic: Yes

Molecule: Dna (5'- D(Dapdgpdgpdcpdcpdtpdapdgpdcpdgpdtpdcpdcpdgp Pdtpdtpdcpdtpdtpdcpdg)-3');
Chain: F
Engineered: Yes

Synthetic: Yes

Molecule: Recombination Endonuclease Vii
Chain: A, B
Synonym: Endo Vii, Protein Gp49
Ec: 3.1.22.4
Engineered: Yes
Mutation: Yes

Organism_scientific: Enterobacteria Phage T4
Organism_taxid: 10665
Gene: 49
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Bl21(De3)Plyss
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet24d
symmetry Space Group: P 43 21 2
R_factor 0.258 R_Free 0.278
crystal
cell
length a length b length c angle alpha angle beta angle gamma
99.197 99.197 186.884 90.00 90.00 90.00
method X-Ray Diffractionresolution 3.10 Å
ligand EDO, MG, ZN enzyme Hydrolase E.C.3.1.22.4 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A, B
  • nuclease activity
  • endonuclease activity


  • Primary referenceCrystal structure of T4 endonuclease VII resolving a Holliday junction., Biertumpfel C, Yang W, Suck D, Nature. 2007 Oct 4;449(7162):616-20. Epub 2007 Sep 16. PMID:17873859
    Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (94 Kb) [Save to disk]
  • Biological Unit Coordinates (2qnc.pdb1.gz) 88 Kb
  • LPC: Ligand-Protein Contacts for 2QNC
  • CSU: Contacts of Structural Units for 2QNC
  • Likely Quarternary Molecular Structure file(s) for 2QNC
  • Structure Factors (148 Kb)
  • Retrieve 2QNC in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 2QNC from S2C, [Save to disk]
  • Re-refined 2qnc structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 2QNC 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 2QNC
  • 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 2QNC, from MSDmotif at EBI
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [2qnc_B] [2qnc_C] [2qnc_E] [2qnc_F] [2qnc] [2qnc_D] [2qnc_A]
  • SWISS-PROT database: [P13340]
  • Domain organization of [END7_BPT4] by SWISSPFAM
  • Other resources with information on 2QNC
  • Community annotation for 2QNC 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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