1YO8 Cell Adhesion date Jan 26, 2005
title Structure Of The C-Terminal Domain Of Human Thrombospondin-2
authors C.B.Carlson, D.A.Bernstein, D.S.Annis, T.M.Misenheimer, B.A.Hann D.F.Mosher, J.L.Keck
compound source
Molecule: Thrombospondin-2
Chain: A
Fragment: C-Terminal Domain
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Thbs2, Tsp2
Expression_system: Spodoptera Frugiperda
Expression_system_common: Fall Armyworm
Expression_system_taxid: 7108
Expression_system_strain: Sf21
Expression_system_vector_type: Baculovirus
Expression_system_plasmid: Pvl1392
symmetry Space Group: I 2 2 2
R_factor 0.218 R_Free 0.284
crystal
cell
length a length b length c angle alpha angle beta angle gamma
93.437 121.588 155.330 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.60 Å
ligand CA, MAN, MSE, NAG enzyme
Gene
Ontology
ChainFunctionProcessComponent
A


Primary referenceStructure of the calcium-rich signature domain of human thrombospondin-2., Carlson CB, Bernstein DA, Annis DS, Misenheimer TM, Hannah BL, Mosher DF, Keck JL, Nat Struct Mol Biol 2005 Oct;12(10):910-914. Epub 2005 Sep 25. PMID:16186819
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (115 Kb) [Save to disk]
  • Biological Unit Coordinates (1yo8.pdb1.gz) 103 Kb
  • LPC: Ligand-Protein Contacts for 1YO8
  • CSU: Contacts of Structural Units for 1YO8
  • Likely Quarternary Molecular Structure file(s) for 1YO8
  • Structure Factors (206 Kb)
  • Retrieve 1YO8 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1YO8 from S2C, [Save to disk]
  • Re-refined 1yo8 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 1YO8 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 1YO8
  • Cartoon representation from PDB Cartoon
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
  • Crystal Contacts, from CryCo at Weizmann Institute
  • 3D motif for 1YO8, from MSDmotif at EBI
  • Fold representative 1yo8 from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [1yo8] [1yo8_A]
  • SWISS-PROT database: [P35442]
  • Domain organization of [TSP2_HUMAN] by SWISSPFAM
  • Domain found in 1YO8: [EGF ] by SMART
  • Other resources with information on 1YO8
  • Community annotation for 1YO8 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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