2V8I Lyase date Aug 08, 2007
title Structure Of A Family 2 Pectate Lyase In A Native Form
authors D.W.Abbott, A.B.Boraston
compound source
Molecule: Pectate Lyase
Chain: A
Ec: 4.2.2.2
Engineered: Yes
Organism_scientific: Yersinia Enterocolitica
Organism_taxid: 630
Expression_system: Escherichia Coli
Expression_system_taxid: 562
symmetry Space Group: P 21 21 21
R_factor 0.222 R_Free 0.243
crystal
cell
length a length b length c angle alpha angle beta angle gamma
58.486 95.642 126.608 90.00 90.00 90.00
method X-Ray Diffractionresolution 1.50 Å
ligand IOD enzyme Lyase E.C.4.2.2.2 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A


Primary referenceA Family 2 Pectate Lyase Displays a Rare Fold and Transition Metal-assisted -Elimination., Abbott DW, Boraston AB, J Biol Chem. 2007 Nov 30;282(48):35328-36. Epub 2007 Sep 19. PMID:17881361
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (108 Kb) [Save to disk]
  • Biological Unit Coordinates (2v8i.pdb1.gz) 104 Kb
  • LPC: Ligand-Protein Contacts for 2V8I
  • CSU: Contacts of Structural Units for 2V8I
  • Likely Quarternary Molecular Structure file(s) for 2V8I
  • Structure Factors (800 Kb)
  • Retrieve 2V8I in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 2V8I from S2C, [Save to disk]
  • Re-refined 2v8i structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 2V8I 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 2V8I
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
  • 3D motif for 2V8I, from MSDmotif at EBI
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [2v8i_A] [2v8i]
  • SWISS-PROT database: [A1JSS8]
  • Domain organization of [A1JSS8_YERE8] by SWISSPFAM
  • Other resources with information on 2V8I
  • Community annotation for 2V8I 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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