4KGL Hydrolase Hydrolase Inhibitor date Apr 29, 2013
title Crystal Structure Of Human Alpha-L-Iduronidase Complex With 5s]-2-Carboxy-3,4,5-Trihydroxy-Piperidine
authors H.Bie, J.Yin, X.He, A.R.Kermode, E.D.Goddard-Borger, S.G.Withers, M.N.G.James
compound source
Molecule: Alpha-L-Iduronidase
Chain: A, B
Fragment: Unp Residues 27-653
Ec: 3.2.1.76
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Idua
Expression_system: Arabidopsis Thaliana
Expression_system_common: Thale Cress
Expression_system_taxid: 3702
Expression_system_strain: Cgl1 1
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Parc5s3
symmetry Space Group: H 3
R_factor 0.204 R_Free 0.254
crystal
cell
length a length b length c angle alpha angle beta angle gamma
259.359 259.359 71.568 90.00 90.00 120.00
method X-Ray Diffractionresolution 2.70 Å
ligand BMA, GOL, IDJ, MAN, NAG, TLA enzyme Hydrolase E.C.3.2.1.76 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A, B


Primary referenceInsights into mucopolysaccharidosis I from the structure and action of alpha-L-iduronidase., Bie H, Yin J, He X, Kermode AR, Goddard-Borger ED, Withers SG, James MN, Nat Chem Biol. 2013 Sep 11. doi: 10.1038/nchembio.1357. PMID:24036510
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (210 Kb) [Save to disk]
  • Biological Unit Coordinates (4kgl.pdb1.gz) 101 Kb
  • Biological Unit Coordinates (4kgl.pdb2.gz) 106 Kb
  • LPC: Ligand-Protein Contacts for 4KGL
  • CSU: Contacts of Structural Units for 4KGL
  • Structure Factors (661 Kb)
  • Retrieve 4KGL in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 4KGL from S2C, [Save to disk]
  • Re-refined 4kgl structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 4KGL 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 4KGL
  • 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 4KGL, from MSDmotif at EBI
  • Fold representative 4kgl from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [4kgl_B] [4kgl] [4kgl_A]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 4KGL
  • Community annotation for 4KGL at PDBWiki (http://pdbwiki.org)

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