2CMG Transferase date May 08, 2006
title Crystal Structure Of Spermidine Synthase From Helicobacter Pylori
authors Y.J.Sun, P.K.Lu
compound source
Molecule: Spermidine Synthase
Chain: A, B
Synonym: Putrescine Aminopropyltransferase, Spdsy
Ec: 2.5.1.16
Engineered: Yes
Organism_scientific: Helicobacter Pylori
Organism_taxid: 85962
Strain: 26695
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Sg13009
Expression_system_plasmid: Pqe-30
symmetry Space Group: P 1 21 1
R_factor 0.216 R_Free 0.273
crystal
cell
length a length b length c angle alpha angle beta angle gamma
61.147 58.141 74.832 90.00 90.93 90.00
method X-Ray Diffractionresolution 2.0 Å
ligand
enzyme Transferase E.C.2.5.1.16 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A, B


Primary referenceCrystal structure of Helicobacter pylori spermidine synthase: a Rossmann-like fold with a distinct active site., Lu PK, Tsai JY, Chien HY, Huang H, Chu CH, Sun YJ, Proteins. 2007 May 15;67(3):743-54. PMID:17357156
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (96 Kb) [Save to disk]
  • Biological Unit Coordinates (2cmg.pdb1.gz) 95 Kb
  • CSU: Contacts of Structural Units for 2CMG
  • Likely Quarternary Molecular Structure file(s) for 2CMG
  • Structure Factors (270 Kb)
  • Retrieve 2CMG in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 2CMG from S2C, [Save to disk]
  • Re-refined 2cmg structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 2CMG 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 2CMG
  • 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 2CMG, from MSDmotif at EBI
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [2cmg_A] [2cmg] [2cmg_B]
  • SWISS-PROT database: [O25503]
  • Domain organization of [SPEE_HELPY] by SWISSPFAM
  • Other resources with information on 2CMG
  • Community annotation for 2CMG 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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