1O28 Crystal structure of Thymidylate Synthase Complementing Protein (TM0449) from Thermotoga maritima with FdUMP at 2.1 A resolution date
authors Mathews, I.I., Deacon, A.M., Canaves, J.M., McMullan, D., Lesley, S.A., Agarwalla, S., Kuhn, P., JCSG, Joint.Center.for.Structural.Genomics.
compound source
symmetry
R_factor
R_Free 0.2398
crystal
cell
length a length b length c angle alpha angle beta angle gamma
method X-Ray Diffractionresolution 2.10
ligand EPE, PGE, UFP enzyme
related structures by homologous chain: 1KQ4, 1O24
Gene
Ontology
ChainFunctionProcessComponent
A, D, C, B


Primary referenceFunctional analysis of substrate and cofactor complex structures of a thymidylate synthase-complementing protein., Mathews II, Deacon AM, Canaves JM, McMullan D, Lesley SA, Agarwalla S, Kuhn P, Structure (Camb) 2003 Jun;11(6):677-90. PMID:12791256
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (160 Kb) [Save to disk]
  • Biological Unit Coordinates (1o28.pdb1.gz) 154 Kb
  • LPC: Ligand-Protein Contacts for 1O28
  • CSU: Contacts of Structural Units for 1O28
  • Likely Quarternary Molecular Structure file(s) for 1O28
  • Structure Factors (381 Kb)
  • Retrieve 1O28 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1O28 from S2C, [Save to disk]
  • Re-refined 1o28 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 1O28 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 1O28
  • 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 1O28, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1o28a_, region A [Jmol] [rasmolscript] [script source]
        - Domain d1o28b_, region B [Jmol] [rasmolscript] [script source]
        - Domain d1o28c_, region C [Jmol] [rasmolscript] [script source]
        - Domain d1o28d_, region D [Jmol] [rasmolscript] [script source]
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [1o28_B] [1o28] [1o28_D] [1o28_C] [1o28_A]
  • SWISS-PROT database: [Q9WYT0]
  • Domain organization of [THYX_THEMA] by SWISSPFAM
    • Other resources with information on 1O28
  • Community annotation for 1O28 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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