3RW9 Transferase date May 08, 2011
title Crystal Structure Of Human Spermidine Synthase In Complex Wi Decarboxylated S-Adenosylhomocysteine
authors J.Seckute, D.E.Mccloskey, H.J.Thomas, J.A.Secrist Iii, A.E.Pegg, S.E.Ealick
compound source
Molecule: Spermidine Synthase
Chain: A, B
Synonym: Spdsy, Putrescine Aminopropyltransferase
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Srm, Sps1, Srml1
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Bl21(De3)
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Modified Pet28a(+)
symmetry Space Group: P 1 21 1
R_factor 0.211 R_Free 0.259
length a length b length c angle alpha angle beta angle gamma
58.177 60.816 87.021 90.00 108.05 90.00
method X-Ray Diffractionresolution 2.00 Å
ligand DSH enzyme Transferase E.C. BRENDA
A, B

Primary referenceBinding and inhibition of human spermidine synthase by decarboxylated S-adenosylhomocysteine., Seckute J, McCloskey DE, Thomas HJ, Secrist JA 3rd, Pegg AE, Ealick SE, Protein Sci. 2011 Aug 24. doi: 10.1002/pro.717. PMID:21898642
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (103 Kb) [Save to disk]
  • Biological Unit Coordinates (3rw9.pdb1.gz) 99 Kb
  • LPC: Ligand-Protein Contacts for 3RW9
  • CSU: Contacts of Structural Units for 3RW9
  • Structure Factors (471 Kb)
  • Retrieve 3RW9 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3RW9 from S2C, [Save to disk]
  • Re-refined 3rw9 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 3RW9 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 3RW9
  • 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 3RW9, from MSDmotif at EBI
  • Fold representative 3rw9 from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3rw9] [3rw9_A] [3rw9_B]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 3RW9
  • Community annotation for 3RW9 at PDBWiki (http://pdbwiki.org)
  • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

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