1R85 Hydrolase date Oct 23, 2003
title Crystal Structure Of The Extracellular Xylanase From Geobaci Stearothermophilus T-6 (Xt6): The Wt Enzyme (Monoclinic For 1.45a Resolution
authors M.Bar, G.Golan, M.Nechama, G.Zolotnitsky, Y.Shoham, G.Shoham
compound source
Molecule: Endo-1,4-Beta-Xylanase
Chain: A
Synonym: Xylanase, 1,4-Beta-D-Xylan Xylanohydrolase, Xylana
Ec: 3.2.1.8
Engineered: Yes
Organism_scientific: Geobacillus Stearothermophilus
Organism_taxid: 1422
Gene: Xyna
Expression_system: Escherichia Coli Bl21
Expression_system_taxid: 511693
Expression_system_strain: Bl21
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet9d
symmetry Space Group: C 1 2 1
R_factor
R_Free
crystal
cell
length a length b length c angle alpha angle beta angle gamma
121.510 61.710 89.090 90.00 119.07 90.00
method X-Ray Diffractionresolution 1.45 Å
ligand CL, GOL, SO4, ZN enzyme Hydrolase E.C.3.2.1.8 BRENDA
related structures by homologous chain: 1R87
Gene
Ontology
ChainFunctionProcessComponent
A


Primary referenceMapping glycoside hydrolase substrate subsites by isothermal titration calorimetry., Zolotnitsky G, Cogan U, Adir N, Solomon V, Shoham G, Shoham Y, Proc Natl Acad Sci U S A 2004 Aug 3;101(31):11275-80. Epub 2004 Jul 26. PMID:15277671
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (162 Kb) [Save to disk]
  • Biological Unit Coordinates (1r85.pdb1.gz) 156 Kb
  • LPC: Ligand-Protein Contacts for 1R85
  • CSU: Contacts of Structural Units for 1R85
  • Likely Quarternary Molecular Structure file(s) for 1R85
  • Retrieve 1R85 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1R85 from S2C, [Save to disk]
  • View 1R85 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 1R85
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Conformational Epitope Prediction for 1R85 from the CEP Server.
  • Dipole moment, from Dipole Server at Weizmann Institute
  • 3D motif for 1R85, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1r85a_, region A [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: [1r85] [1r85_A]
  • SWISS-PROT database: [P40943]
  • Domain organization of [XYN1_BACST] by SWISSPFAM
  • Domain found in 1R85: [Glyco_10 ] by SMART
  • Other resources with information on 1R85
  • Community annotation for 1R85 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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