2E7Y Hydrolase date Jan 15, 2007
title High Resolution Structure Of T. Maritima Trnase Z
authors R.Ishii, S.Yokoyama, Riken Structural Genomicsproteomics Init (Rsgi)
compound source
Molecule: Trnase Z
Chain: A, B
Ec: 3.1.26.11
Engineered: Yes
Organism_scientific: Thermotoga Maritima
Organism_taxid: 2336
Expression_system: Escherichia Coli Bl21(De3)
Expression_system_taxid: 469008
Expression_system_strain: Bl21(De3)
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet26b
symmetry Space Group: C 2 2 21
R_factor 0.204 R_Free 0.249
crystal
cell
length a length b length c angle alpha angle beta angle gamma
150.299 172.694 64.886 90.00 90.00 90.00
method X-Ray Diffractionresolution 1.97 Å
ligand PGO, SO4, ZN enzyme Hydrolase E.C.3.1.26.11 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A, B


Primary referenceThe structure of the flexible arm of Thermotoga maritima tRNase Z differs from those of homologous enzymes., Ishii R, Minagawa A, Takaku H, Takagi M, Nashimoto M, Yokoyama S, Acta Crystallogr Sect F Struct Biol Cryst Commun. 2007 Aug 1;63(Pt, 8):637-41. Epub 2007 Jul 21. PMID:17671357
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (103 Kb) [Save to disk]
  • Biological Unit Coordinates (2e7y.pdb1.gz) 97 Kb
  • LPC: Ligand-Protein Contacts for 2E7Y
  • CSU: Contacts of Structural Units for 2E7Y
  • Likely Quarternary Molecular Structure file(s) for 2E7Y
  • Structure Factors (487 Kb)
  • Retrieve 2E7Y in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 2E7Y from S2C, [Save to disk]
  • Re-refined 2e7y structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 2E7Y 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 2E7Y
  • 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 2E7Y, from MSDmotif at EBI
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [2e7y_B] [2e7y] [2e7y_A]
  • SWISS-PROT database: [Q9WZW8]
  • Domain organization of [Q9WZW8_THEMA] by SWISSPFAM
  • Domain found in 2E7Y: [Lactamase_B ] by SMART
  • Other resources with information on 2E7Y
  • Community annotation for 2E7Y 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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