1MC9 Hydrolase date Aug 06, 2002
title Strepromyces Lividans Xylan Binding Domain Cbm13 In Complex Xylopentaose
authors V.Notenboom, A.B.Boraston, S.J.Williams, D.G.Kilburn, D.R.Rose
compound source
Molecule: Endo-1,4-Beta-Xylanase A
Chain: A
Fragment: Carbohydrate Binding Module (Residues 348-477)
Synonym: Xylanase A, 1,4-Beta-D-Xylan Xylanohydrolase A
Ec: 3.2.1.8
Engineered: Yes
Organism_scientific: Streptomyces Lividans
Organism_taxid: 1916
Expression_system: Escherichia Coli
Expression_system_taxid: 562
symmetry Space Group: P 32 2 1
R_factor 0.164 R_Free 0.220
crystal
cell
length a length b length c angle alpha angle beta angle gamma
55.130 55.130 80.142 90.00 90.00 120.00
method X-Ray Diffractionresolution 1.70 Å
ligand GOL, SO4, XYP enzyme Hydrolase E.C.3.2.1.8 BRENDA
note 1MC9 supersedes 1KNN
related structures by homologous chain: 1KNL
Primary referenceHigh-resolution crystal structures of the lectin-like xylan binding domain from Streptomyces lividans xylanase 10A with bound substrates reveal a novel mode of xylan binding., Notenboom V, Boraston AB, Williams SJ, Kilburn DG, Rose DR, Biochemistry 2002 Apr 2;41(13):4246-54. PMID:11914070
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (29 Kb) [Save to disk]
  • Biological Unit Coordinates (1mc9.pdb1.gz) 24 Kb
  • LPC: Ligand-Protein Contacts for 1MC9
  • CSU: Contacts of Structural Units for 1MC9
  • Likely Quarternary Molecular Structure file(s) for 1MC9
  • Retrieve 1MC9 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1MC9 from S2C, [Save to disk]
  • View 1MC9 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 1MC9
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
  • 3D motif for 1MC9, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1mc9a_, 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: [1mc9_A] [1mc9]
  • SWISS-PROT database: [P26514]
  • Domain organization of [XYNA_STRLI] by SWISSPFAM
  • Domain found in 1MC9: [RICIN ] by SMART
  • Other resources with information on 1MC9
  • Community annotation for 1MC9 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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