4IRP Transferase date Jan 15, 2013
title Crystal Structure Of Catalytic Domain Of Human Beta1,4- Galactosyltransferase-7 In Open Conformation With Manganses
authors Y.Tsutsui, B.Ramakrishnan, P.K.Qasba
compound source
Molecule: Beta-1,4-Galactosyltransferase 7
Chain: A, B
Synonym: Beta-1,4-Galtase 7, Beta4gal-T7, B4gal-T7, Udp-Gal
Glcnac Beta-1,4-Galactosyltransferase 7, Udp-Galactose: Beta Acetylglucosamine Beta-1,4-Galactosyltransferase 7, Xylosyl
Beta-Galactosyltransferase, Proteoglycan Udp-Galactose: Beta
Beta1,4-Galactosyltransferase I, Udp-Galactose: Beta-Xylose Galactosyltransferase, Xgpt, Xgalt-1, Xylosylprotein Beta-1 Galactosyltransferase;
Ec: 2.4.1.-,
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: 4galactosyltransferase, B4galt7, Beta1, Unq748pro147 Xgalt1;
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Bl21
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet23a
symmetry Space Group: P 41 21 2
R_factor 0.218 R_Free 0.275
length a length b length c angle alpha angle beta angle gamma
125.186 125.186 87.326 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.10 Å
ligand ACT, IMD, MN, UDP enzyme Transferase E.C.2.4.1 BRENDA
A, B

Primary referenceCrystal Structures of beta-1,4-Galactosyltransferase 7 Enzyme Reveal Conformational Changes and Substrate Binding., Tsutsui Y, Ramakrishnan B, Qasba PK, J Biol Chem. 2013 Nov 1;288(44):31963-70. doi: 10.1074/jbc.M113.509984. Epub 2013, Sep 19. PMID:24052259
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (94 Kb) [Save to disk]
  • Biological Unit Coordinates (4irp.pdb1.gz) 47 Kb
  • Biological Unit Coordinates (4irp.pdb2.gz) 44 Kb
  • Biological Unit Coordinates (4irp.pdb3.gz) 88 Kb
  • LPC: Ligand-Protein Contacts for 4IRP
  • CSU: Contacts of Structural Units for 4IRP
  • Structure Factors (656 Kb)
  • Retrieve 4IRP in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 4IRP from S2C, [Save to disk]
  • Re-refined 4irp structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 4IRP 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 4IRP
  • 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 4IRP, from MSDmotif at EBI
  • Fold representative 4irp from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [4irp_A] [4irp] [4irp_B]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 4IRP
  • Community annotation for 4IRP at PDBWiki (http://pdbwiki.org)

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