1Y1T Transcription date Nov 19, 2004
title Crystal Structure Of The Uridine Phosphorylase From Salmonel Typhimurium At 1.77a Resolution
authors A.G.Gabdoulkhakov, M.V.Dontsova, G.S.Kachalova, C.Betzel, S.E.Ea A.M.Mikhailov
compound source
Molecule: Uridine Phosphorylase
Chain: A, F
Synonym: Urdpase, Upase
Ec: 2.4.2.3
Engineered: Yes
Organism_scientific: Salmonella Typhimurium Lt2
Organism_taxid: 99287
Strain: Lt2
Gene: Udp
Expression_system: Escherichia Coli Bl21(De3)
Expression_system_taxid: 469008
Expression_system_strain: Bl21 De3
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pbluescript Iisk
symmetry Space Group: H 3
R_factor 0.184 R_Free 0.205
crystal
cell
length a length b length c angle alpha angle beta angle gamma
150.820 150.820 47.840 90.00 90.00 120.00
method X-Ray Diffractionresolution 1.77 Å
ligand GOL, SO4 enzyme Transferase E.C.2.4.2.3 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
F, A


Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (81 Kb) [Save to disk]
  • Biological Unit Coordinates (1y1t.pdb1.gz) 222 Kb
  • LPC: Ligand-Protein Contacts for 1Y1T
  • CSU: Contacts of Structural Units for 1Y1T
  • Likely Quarternary Molecular Structure file(s) for 1Y1T
  • Structure Factors (389 Kb)
  • Retrieve 1Y1T in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1Y1T from S2C, [Save to disk]
  • Re-refined 1y1t structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 1Y1T 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 1Y1T
  • 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 1Y1T, from MSDmotif at EBI
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [1y1t] [1y1t_A] [1y1t_F]
  • SWISS-PROT database: [P0A1F6]
  • Domain organization of [UDP_SALTY] by SWISSPFAM
  • Other resources with information on 1Y1T
  • Community annotation for 1Y1T 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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