1Y1I Oxidoreductase date Nov 18, 2004
title Hyuman Formylglycine Generating Enzyme, Reduced Form
authors M.G.Rudolph, A.Dickmanns, R.Ficner
compound source
Molecule: C-Alpha-Formyglycine-Generating Enzyme
Chain: X
Fragment: Residues 73-383
Synonym: Fge
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Expression_system: Homo Sapiens
Expression_system_common: Human
Expression_system_taxid: 9606
Expression_system_cell_line: Ht1080
Expression_system_cell: Fibrosarcoma Tumor Cells
symmetry Space Group: P 21 21 2
R_factor 0.150 R_Free 0.252
crystal
cell
length a length b length c angle alpha angle beta angle gamma
61.633 109.365 43.364 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.61 Å
ligand CA, NAG enzyme
related structures by homologous chain: 1Y1F
Primary referenceMolecular basis for multiple sulfatase deficiency and mechanism for formylglycine generation of the human formylglycine-generating enzyme., Dierks T, Dickmanns A, Preusser-Kunze A, Schmidt B, Mariappan M, von Figura K, Ficner R, Rudolph MG, Cell. 2005 May 20;121(4):541-52. PMID:15907468
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (55 Kb) [Save to disk]
  • Biological Unit Coordinates (1y1i.pdb1.gz) 50 Kb
  • LPC: Ligand-Protein Contacts for 1Y1I
  • CSU: Contacts of Structural Units for 1Y1I
  • Likely Quarternary Molecular Structure file(s) for 1Y1I
  • Structure Factors (138 Kb)
  • Retrieve 1Y1I in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1Y1I from S2C, [Save to disk]
  • Re-refined 1y1i structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 1Y1I 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 1Y1I
  • 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 1Y1I, from MSDmotif at EBI
  • Fold representative 1y1i from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [1y1i] [1y1i_X]
  • SWISS-PROT database: [Q8NBK3]
  • Domain organization of [SUMF1_HUMAN] by SWISSPFAM
  • Other resources with information on 1Y1I
  • Community annotation for 1Y1I 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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