2ERF Sugar Binding Protein date Oct 24, 2005
title Crystal Structure Of The Thrombospondin-1 N-Terminal Domain At 1.45a Resolution
authors K.Tan, J.Wang, J.Lawler
compound source
Molecule: Thrombospondin-1
Chain: A
Fragment: N-Terminal Domain
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Thbs1, Tsp, Tsp1
Expression_system: Drosophila Melanogaster
Expression_system_common: Fruit Fly
Expression_system_taxid: 7227
Expression_system_cell_line: S2 Cell
Expression_system_vector_type: Pmtbipv5-His A
symmetry Space Group: P 1 21 1
R_factor 0.183 R_Free 0.217
crystal
cell
length a length b length c angle alpha angle beta angle gamma
43.310 40.489 60.086 90.00 106.99 90.00
method X-Ray Diffractionresolution 1.45 Å
Gene
Ontology
ChainFunctionProcessComponent
A


Primary referenceThe structures of the thrombospondin-1 N-terminal domain and its complex with a synthetic pentameric heparin., Tan K, Duquette M, Liu JH, Zhang R, Joachimiak A, Wang JH, Lawler J, Structure. 2006 Jan;14(1):33-42. PMID:16407063
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (77 Kb) [Save to disk]
  • Biological Unit Coordinates (2erf.pdb1.gz) 74 Kb
  • CSU: Contacts of Structural Units for 2ERF
  • Likely Quarternary Molecular Structure file(s) for 2ERF
  • Structure Factors (229 Kb)
  • Retrieve 2ERF in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 2ERF from S2C, [Save to disk]
  • Re-refined 2erf structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 2ERF 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 2ERF
  • 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 2ERF, from MSDmotif at EBI
  • Fold representative 2erf from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [2erf] [2erf_A]
  • SWISS-PROT database: [P07996]
  • Domain organization of [TSP1_HUMAN] by SWISSPFAM
  • Domain found in 2ERF: [TSPN ] by SMART
  • Other resources with information on 2ERF
  • Community annotation for 2ERF 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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