2Y3U Hydrolase date Dec 26, 2010
title Crystal Structure Of Apo Collagenase G From Clostridium Histolyticum At 2.55 Angstrom Resolution
authors U.Eckhard, H.Brandstetter
compound source
Molecule: Collagenase
Chain: A
Fragment: Residues 119-880
Synonym: Collagenase G
Ec: 3.4.24.3
Engineered: Yes
Organism_scientific: Clostridium Histolyticum
Organism_taxid: 1498
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: B834
Expression_system_vector_type: Plasmid
Expression_system_vector: Pet-15b
symmetry Space Group: P 21 21 21
R_factor 0.20806 R_Free 0.25645
crystal
cell
length a length b length c angle alpha angle beta angle gamma
56.960 109.050 182.460 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.55 Å
ligand FLC, MSE, P6G, PEG enzyme Hydrolase E.C.3.4.24.3 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A


Primary referenceStructure of collagenase G reveals a chew-and-digest mechanism of bacterial collagenolysis., Eckhard U, Schonauer E, Nuss D, Brandstetter H, Nat Struct Mol Biol. 2011 Sep 25;18(10):1109-14. doi: 10.1038/nsmb.2127. PMID:21947205
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (244 Kb) [Save to disk]
  • Biological Unit Coordinates (2y3u.pdb1.gz) 233 Kb
  • LPC: Ligand-Protein Contacts for 2Y3U
  • CSU: Contacts of Structural Units for 2Y3U
  • Structure Factors (442 Kb)
  • Retrieve 2Y3U in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 2Y3U from S2C, [Save to disk]
  • Re-refined 2y3u structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 2Y3U 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 2Y3U
  • 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 2Y3U, from MSDmotif at EBI
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [2y3u] [2y3u_A]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domain found in 2Y3U: [PKD ] by SMART
  • Other resources with information on 2Y3U
  • Community annotation for 2Y3U at PDBWiki (http://pdbwiki.org)
  • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

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