3COG Lyase date Mar 28, 2008
title Crystal Structure Of Human Cystathionase (Cystathionine Gamm In Complex With Dl-Propargylglycine
authors R.Collins, T.Karlberg, L.Lehtio, C.H.Arrowsmith, H.Berglund, L.G. A.M.Edwards, S.Flodin, A.Flores, S.Graslund, M.Hammarstrom, I.Jo A.Kallas, T.Kotenyova, M.Moche, M.E.Nilsson, P.Nordlund, T.Nyman K.Olesen, C.Persson, H.Schuler, L.Svensson, A.G.Thorsell, L.Tres S.Van Den Berg, J.Sagermark, R.D.Busam, M.Welin, J.Weigelt, M.Wi Structural Genomics Consortium (Sgc)
compound source
Molecule: Cystathionine Gamma-Lyase
Chain: A, B, C, D
Synonym: Gamma-Cystathionase
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Gene: Cth
Expression_system: Escherichia Coli
Expression_system_strain: Bl21(De3)
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pnic-Bsa4
symmetry Space Group: P 21 21 21
R_factor 0.158 R_Free 0.204
length a length b length c angle alpha angle beta angle gamma
105.350 107.220 153.310 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.00 Å
ligand 2AG, GOL, NO3, PEG, PLP enzyme Lyase E.C. BRENDA
A, D, C, B

Primary referenceStructural basis for the inhibition mechanism of human cystathionine gamma-lyase, an enzyme responsible for the production of H(2)S., Sun Q, Collins R, Huang S, Holmberg-Schiavone L, Anand GS, Tan CH, van-den-Berg S, Deng LW, Moore PK, Karlberg T, Sivaraman J, J Biol Chem. 2009 Jan 30;284(5):3076-85. Epub 2008 Nov 19. PMID:19019829
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (270 Kb) [Save to disk]
  • Biological Unit Coordinates (3cog.pdb1.gz) 263 Kb
  • LPC: Ligand-Protein Contacts for 3COG
  • CSU: Contacts of Structural Units for 3COG
  • Likely Quarternary Molecular Structure file(s) for 3COG
  • Structure Factors (901 Kb)
  • Retrieve 3COG in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3COG from S2C, [Save to disk]
  • Re-refined 3cog structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 3COG 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 3COG
  • 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 3COG, from MSDmotif at EBI
  • Fold representative 3cog from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3cog_A] [3cog_D] [3cog_C] [3cog_B] [3cog]
  • SWISS-PROT database: [P32929]
  • Domain organization of [CGL_HUMAN] by SWISSPFAM
  • Other resources with information on 3COG
  • Community annotation for 3COG 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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