1XSK Hydrolase date Oct 19, 2004
title Structure Of A Family 31 Alpha Glycosidase Glycosyl-Enzyme Intermediate
authors A.L.Lovering, S.S.Lee, Y.W.Kim, S.G.Withers, N.C.Strynadka
compound source
Molecule: Putative Family 31 Glucosidase Yici
Chain: A, B, C, D, E, F
Ec: 3.2.1.-
Engineered: Yes
Organism_scientific: Escherichia Coli
Organism_taxid: 562
Gene: Yici
Expression_system: Escherichia Coli
Expression_system_taxid: 562
symmetry Space Group: P 21 21 21
R_factor 0.235 R_Free 0.272
crystal
cell
length a length b length c angle alpha angle beta angle gamma
162.142 175.465 210.854 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.20 Å
ligand MPO, SO4, XYF enzyme Hydrolase E.C.3.2.1 BRENDA
related structures by homologous chain: 1WE5, 1XSI
Gene
Ontology
ChainFunctionProcessComponent
F, A, D, C, E, B


Primary referenceMechanistic and Structural Analysis of a Family 31 {alpha}-Glycosidase and Its Glycosyl-enzyme Intermediate., Lovering AL, Lee SS, Kim YW, Withers SG, Strynadka NC, J Biol Chem 2005 Jan 21;280(3):2105-15. Epub 2004 Oct 22. PMID:15501829
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (753 Kb) [Save to disk]
  • Biological Unit Coordinates (1xsk.pdb1.gz) 747 Kb
  • LPC: Ligand-Protein Contacts for 1XSK
  • CSU: Contacts of Structural Units for 1XSK
  • Likely Quarternary Molecular Structure file(s) for 1XSK
  • Structure Factors (2670 Kb)
  • Retrieve 1XSK in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1XSK from S2C, [Save to disk]
  • Re-refined 1xsk structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 1XSK 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 1XSK
  • 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 1XSK, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1xska2, region A:1-247 [Jmol] [rasmolscript] [script source]
        - Domain d1xska4, region A:248-585 [Jmol] [rasmolscript] [script source]
        - Domain d1xska3, region A:586-665 [Jmol] [rasmolscript] [script source]
        - Domain d1xska1, region A:666-773 [Jmol] [rasmolscript] [script source]
        - Domain d1xskb2, region B:1-247 [Jmol] [rasmolscript] [script source]
        - Domain d1xskb4, region B:248-585 [Jmol] [rasmolscript] [script source]
        - Domain d1xskb3, region B:586-665 [Jmol] [rasmolscript] [script source]
        - Domain d1xskb1, region B:666-773 [Jmol] [rasmolscript] [script source]
        - Domain d1xskc2, region C:1-247 [Jmol] [rasmolscript] [script source]
        - Domain d1xskc4, region C:248-585 [Jmol] [rasmolscript] [script source]
        - Domain d1xskc3, region C:586-665 [Jmol] [rasmolscript] [script source]
        - Domain d1xskc1, region C:666-773 [Jmol] [rasmolscript] [script source]
        - Domain d1xskd2, region D:1-247 [Jmol] [rasmolscript] [script source]
        - Domain d1xskd4, region D:248-585 [Jmol] [rasmolscript] [script source]
        - Domain d1xskd3, region D:586-665 [Jmol] [rasmolscript] [script source]
        - Domain d1xskd1, region D:666-773 [Jmol] [rasmolscript] [script source]
        - Domain d1xske2, region E:1-247 [Jmol] [rasmolscript] [script source]
        - Domain d1xske4, region E:248-585 [Jmol] [rasmolscript] [script source]
        - Domain d1xske3, region E:586-665 [Jmol] [rasmolscript] [script source]
        - Domain d1xske1, region E:666-773 [Jmol] [rasmolscript] [script source]
        - Domain d1xskf2, region F:1-247 [Jmol] [rasmolscript] [script source]
        - Domain d1xskf4, region F:248-585 [Jmol] [rasmolscript] [script source]
        - Domain d1xskf3, region F:586-665 [Jmol] [rasmolscript] [script source]
        - Domain d1xskf1, region F:666-773 [Jmol] [rasmolscript] [script source]
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [1xsk] [1xsk_C] [1xsk_B] [1xsk_F] [1xsk_E] [1xsk_D] [1xsk_A]
  • SWISS-PROT database: [P31434]
  • Domain organization of [XYLS_ECOLI] by SWISSPFAM
  • Other resources with information on 1XSK
  • Community annotation for 1XSK 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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