2P0J Hydrolase Dna date Feb 28, 2007
title Structure Of Restriction Endonuclease Bstyi Bound To Non-Cog
authors S.A.Townson, J.C.Samuelson, Y.Bao, S.Y.Xu, A.K.Aggarwal
compound source
Molecule: 5'-D(Aptpgpapaptpcpcpaptpa)-3'
Chain: C
Engineered: Yes
Synthetic: Yes

Molecule: 5'-D(Tpaptpgpgpaptptpcpapt)-3'
Chain: D
Engineered: Yes

Synthetic: Yes

Molecule: Bstyi
Chain: A, B
Engineered: Yes

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 2 2 21
R_factor 0.199 R_Free 0.239
crystal
cell
length a length b length c angle alpha angle beta angle gamma
86.570 118.990 102.240 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.10 Å
Gene
Ontology
ChainFunctionProcessComponent
A, B


Primary referenceBstYI Bound to Noncognate DNA Reveals a "Hemispecific" Complex: Implications for DNA Scanning., Townson SA, Samuelson JC, Bao Y, Xu SY, Aggarwal AK, Structure. 2007 Apr;15(4):449-59. PMID:17437717
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (83 Kb) [Save to disk]
  • Biological Unit Coordinates (2p0j.pdb1.gz) 80 Kb
  • CSU: Contacts of Structural Units for 2P0J
  • Likely Quarternary Molecular Structure file(s) for 2P0J
  • Structure Factors (1354 Kb)
  • Retrieve 2P0J in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 2P0J from S2C, [Save to disk]
  • Re-refined 2p0j structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 2P0J 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 2P0J
  • 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 2P0J, from MSDmotif at EBI
  • Fold representative 2p0j from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [2p0j_D] [2p0j_B] [2p0j_C] [2p0j] [2p0j_A]
  • SWISS-PROT database: [Q84AF2]
  • Domain organization of [Q84AF2_BACST] by SWISSPFAM
  • Other resources with information on 2P0J
  • Community annotation for 2P0J 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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