1Y4J Sugar Binding Protein date Dec 01, 2004
title Crystal Structure Of The Paralogue Of The Human Formylglycin Generating Enzyme
authors A.Dickmanns, M.G.Rudolph, R.Ficner
compound source
Molecule: Sulfatase Modifying Factor 2
Chain: A, B
Synonym: C-Alpha-Formyglycine- Generating Enzyme 2, Unq1968
Engineered: Yes
 Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Sumf2
Other_details: Ht1080 Cells
symmetry Space Group: P 1 21 1
R_factor 0.170 R_Free 0.205
crystal
cell
length a length b length c angle alpha angle beta angle gamma
47.078 100.750 62.704 90.00 101.68 90.00
method X-Ray Diffractionresolution 1.86 Å
ligand CA, FUC, MPD, NAG enzyme
Gene
Ontology
ChainFunctionProcessComponent
A, B


Primary referenceCrystal Structure of Human pFGE, the Paralog of the C{alpha}-formylglycine-generating Enzyme., Dickmanns A, Schmidt B, Rudolph MG, Mariappan M, Dierks T, von Figura K, Ficner R, J Biol Chem 2005 Apr 15;280(15):15180-7. Epub 2005 Feb 1. PMID:15687489
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (105 Kb) [Save to disk]
  • Biological Unit Coordinates (1y4j.pdb1.gz) 98 Kb
  • LPC: Ligand-Protein Contacts for 1Y4J
  • CSU: Contacts of Structural Units for 1Y4J
  • Likely Quarternary Molecular Structure file(s) for 1Y4J
  • Structure Factors (709 Kb)
  • Retrieve 1Y4J in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1Y4J from S2C, [Save to disk]
  • Re-refined 1y4j structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 1Y4J 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 1Y4J
  • 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 1Y4J, from MSDmotif at EBI
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [1y4j] [1y4j_A] [1y4j_B]
  • SWISS-PROT database: [Q8NBJ7]
  • Domain organization of [SUMF2_HUMAN] by SWISSPFAM
    • Other resources with information on 1Y4J
  • Community annotation for 1Y4J 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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