4QBL Hydrolase date May 08, 2014
title Vrr_nuc Domain Protein
authors S.J.Smerdon, S.Pennell, J.Li
compound source
Molecule: Vrr-Nuc
Chain: A, B, D, E, F, C
Engineered: Yes
Organism_scientific: Psychrobacter Sp.
Organism_taxid: 349106
Strain: Prwf-1
Gene: Psycprwf_1331
Expression_system: Escherichia Coli
Expression_system_taxid: 562
symmetry Space Group: C 1 2 1
R_factor 0.175 R_Free 0.203
crystal
cell
length a length b length c angle alpha angle beta angle gamma
213.143 51.180 127.267 90.00 125.49 90.00
method X-Ray Diffractionresolution 2.00 Å
ligand MG, MSE enzyme
Gene PSYCPRWF
Gene
Ontology
ChainFunctionProcessComponent
F, A, D, C, E, B
  • nuclease activity


  • Primary referenceFAN1 activity on asymmetric repair intermediates is mediated by an atypical monomeric virus-type replication-repair nuclease domain., Pennell S, Declais AC, Li J, Haire LF, Berg W, Saldanha JW, Taylor IA, Rouse J, Lilley DM, Smerdon SJ, Cell Rep. 2014 Jul 10;8(1):84-93. doi: 10.1016/j.celrep.2014.06.001. Epub 2014, Jun 26. PMID:24981866
    Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (273 Kb) [Save to disk]
  • Biological Unit Coordinates (4qbl.pdb1.gz) 90 Kb
  • Biological Unit Coordinates (4qbl.pdb2.gz) 86 Kb
  • Biological Unit Coordinates (4qbl.pdb3.gz) 88 Kb
  • LPC: Ligand-Protein Contacts for 4QBL
  • CSU: Contacts of Structural Units for 4QBL
  • Structure Factors (828 Kb)
  • Retrieve 4QBL in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 4QBL from S2C, [Save to disk]
  • Re-refined 4qbl structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 4QBL 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 4QBL
  • 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 4QBL, from MSDmotif at EBI
  • Fold representative 4qbl from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [4qbl] [4qbl_A] [4qbl_F] [4qbl_E] [4qbl_D] [4qbl_B] [4qbl_C]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domain found in 4QBL: [VRR_NUC ] by SMART
  • Other resources with information on 4QBL
  • Community annotation for 4QBL at PDBWiki (http://pdbwiki.org)

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