1VRR Hydrolase Dna date Jun 02, 2005
title Crystal Structure Of The Restriction Endonuclease Bstyi Comp Dna
authors S.A.Townson, J.C.Samuelson, S.Y.Xu, A.K.Aggarwal
compound source
Molecule: 5'-D(Tptpaptpapgpaptpcptpaptpapa)-3
Chain: C, D
Engineered: Yes
Synthetic: Yes

Molecule: Bstyi
Chain: A, B
Ec: 3.1.21.4
Engineered: Yes
Other_details: Type II Restriction Endonuclease Bstyi

Organism_scientific: Geobacillus Stearothermophilus
Organism_taxid: 1422
Gene: Bstyir
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Er2744
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pacyc,Pcef8,Pet21at
symmetry Space Group: C 1 2 1
R_factor 0.230 R_Free 0.267
crystal
cell
length a length b length c angle alpha angle beta angle gamma
78.580 110.910 80.080 90.00 107.17 90.00
method X-Ray Diffractionresolution 2.70 Å
ligand
enzyme Hydrolase E.C.3.1.21.4 BRENDA
note 1VRR supersedes 1YUV
related structures by homologous chain: 1SDO
Gene
Ontology
ChainFunctionProcessComponent
A, B


Primary referenceImplications for Switching Restriction Enzyme Specificities from the Structure of BstYI Bound to a BglII DNA Sequence., Townson SA, Samuelson JC, Xu SY, Aggarwal AK, Structure (Camb) 2005 May;13(5):791-801. PMID:15893669
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (82 Kb) [Save to disk]
  • Biological Unit Coordinates (1vrr.pdb1.gz) 78 Kb
  • CSU: Contacts of Structural Units for 1VRR
  • Likely Quarternary Molecular Structure file(s) for 1VRR
  • Structure Factors (317 Kb)
  • Retrieve 1VRR in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1VRR from S2C, [Save to disk]
  • Re-refined 1vrr structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 1VRR 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 1VRR
  • 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 1VRR, from MSDmotif at EBI
  • Fold representative 1vrr from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [1vrr] [1vrr_D] [1vrr_C] [1vrr_A] [1vrr_B]
  • SWISS-PROT database: [Q84AF2]
  • Domain organization of [Q84AF2_BACST] by SWISSPFAM
  • Other resources with information on 1VRR
  • Community annotation for 1VRR 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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