1IY9 Transferase date Jul 26, 2002
title Crystal Structure Of Spermidine Synthase
authors A.Y.Tan, P.C.Smith, J.Shen, R.Xiao, T.Acton, B.Rost, G.Montelione, Northeast Structural Genomics Consortium (Nesg)
compound source
Molecule: Spermidine Synthase
Chain: A, B, C, D
Ec: 2.5.1.16
Engineered: Yes
Organism_scientific: Bacillus Subtilis
Organism_taxid: 1423
Expression_system: Escherichia Coli
Expression_system_taxid: 562
symmetry Space Group: P 21 21 21
R_factor 0.208 R_Free 0.254
crystal
cell
length a length b length c angle alpha angle beta angle gamma
96.100 105.800 121.800 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.30 Å
ligand
enzyme Transferase E.C.2.5.1.16 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A, D, C, B


Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (184 Kb) [Save to disk]
  • Biological Unit Coordinates (1iy9.pdb1.gz) 179 Kb
  • CSU: Contacts of Structural Units for 1IY9
  • Likely Quarternary Molecular Structure file(s) for 1IY9
  • Structure Factors (537 Kb)
  • Retrieve 1IY9 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1IY9 from S2C, [Save to disk]
  • Re-refined 1iy9 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 1IY9 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 1IY9
  • 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 1IY9, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1iy9a_, region A [Jmol] [rasmolscript] [script source]
        - Domain d1iy9b_, region B [Jmol] [rasmolscript] [script source]
        - Domain d1iy9c_, region C [Jmol] [rasmolscript] [script source]
        - Domain d1iy9d_, region D [Jmol] [rasmolscript] [script source]
  • Class (fold), Architecture (subfold), Topology, Homologous superfamily from CATH
  • Summaries and structural analyses of PDB data files from PDBSum
  • Identification of Protein Pockets & Cavities at CASTp
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [1iy9] [1iy9_B] [1iy9_A] [1iy9_C] [1iy9_D]
  • SWISS-PROT database: [P70998]
  • Domain organization of [SPEE_BACSU] by SWISSPFAM
  • Other resources with information on 1IY9
  • Community annotation for 1IY9 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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