1I72 Lyase date Mar 07, 2001
title Human S-Adenosylmethionine Decarboxylase With Covalently Bou Pyruvoyl Group And Covalently Bound 5'-Deoxy-5'-[N-Methyl-N Aminooxyethyl) Amino]Adenosine
authors W.D.Tolbert, J.L.Ekstrom, I.I.Mathews, J.A.Secrist Iii, A.E.Pegg S.E.Ealick
compound source
Molecule: S-Adenosylmethionine Decarboxylase Beta Chain
Chain: B
Ec: 4.1.1.50
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Expression_system: Escherichia Coli
Expression_system_taxid: 562

Molecule: S-Adenosylmethionine Decarboxylase Alpha Chain
Chain: A
Ec: 4.1.1.50
Engineered: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Expression_system: Escherichia Coli
Expression_system_taxid: 562
symmetry Space Group: C 1 2 1
R_factor 0.201 R_Free 0.232
crystal
cell
length a length b length c angle alpha angle beta angle gamma
100.473 50.833 68.904 90.00 105.28 90.00
method X-Ray Diffractionresolution 2.00 Å
ligand MAO, PUT, PYR BindingDB enzyme Lyase E.C.4.1.1.50 BRENDA
related structures by homologous chain: 1I79, 1I7B
Gene
Ontology
ChainFunctionProcessComponent
A, B


Primary referenceThe structural basis for substrate specificity and inhibition of human S-adenosylmethionine decarboxylase., Tolbert WD, Ekstrom JL, Mathews II, Secrist JA 3rd, Kapoor P, Pegg AE, Ealick SE, Biochemistry 2001 Aug 14;40(32):9484-94. PMID:11583147
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (62 Kb) [Save to disk]
  • Biological Unit Coordinates (1i72.pdb1.gz) 114 Kb
  • LPC: Ligand-Protein Contacts for 1I72
  • CSU: Contacts of Structural Units for 1I72
  • Likely Quarternary Molecular Structure file(s) for 1I72
  • Structure Factors (266 Kb)
  • Retrieve 1I72 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1I72 from S2C, [Save to disk]
  • Re-refined 1i72 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 1I72 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 1I72
  • 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 1I72, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1i72.1, region B:,A [Jmol] [rasmolscript] [script source]
  • Fold representative 1i72 from FSSP and Dali (Families of Structurally Similar Proteins)
  • 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: [1i72_B] [1i72] [1i72_A]
  • SWISS-PROT database: [P17707]
  • Domain organization of [DCAM_HUMAN] by SWISSPFAM
  • Other resources with information on 1I72
  • Community annotation for 1I72 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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