2V53 Cell Adhesion date Oct 01, 2008
title Crystal Structure Of A Sparc-Collagen Complex
authors E.Hohenester, T.Sasaki, C.Giudici, R.W.Farndale, H.P.Bachinger
compound source
Molecule: Sparc
Chain: A
Fragment: Fs And Ec Domains, Residues 70-212,221-303
Synonym: Secreted Protein Acidic And Rich In Cysteine, Oste On, Basement-Membrane Protein 40, Bm-40;
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Expression_system: Homo Sapiens
Expression_system_taxid: 9606
Expression_system_cell_line: 293-Ebna
Expression_system_vector: Pcep-Pu

Molecule: Collagen Alpha-1(III) Chain
Chain: B, C, D
Fragment: Residues 564-584
Engineered: Yes

Synthetic: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
symmetry Space Group: P 42 21 2
R_factor 0.254 R_Free 0.320
length a length b length c angle alpha angle beta angle gamma
89.790 89.790 127.100 90.00 90.00 90.00
method X-Ray Diffractionresolution 3.20 Å
ligand CA, HYP, NAG, SO4 enzyme

Primary referenceStructural basis of sequence-specific collagen recognition by SPARC., Hohenester E, Sasaki T, Giudici C, Farndale RW, Bachinger HP, Proc Natl Acad Sci U S A. 2008 Nov 25;105(47):18273-7. Epub 2008 Nov 14. PMID:19011090
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (107 Kb) [Save to disk]
  • Biological Unit Coordinates (2v53.pdb1.gz) 99 Kb
  • LPC: Ligand-Protein Contacts for 2V53
  • CSU: Contacts of Structural Units for 2V53
  • Likely Quarternary Molecular Structure file(s) for 2V53
  • Structure Factors (66 Kb)
  • Retrieve 2V53 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 2V53 from S2C, [Save to disk]
  • Re-refined 2v53 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 2V53 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 2V53
  • 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 2V53, from MSDmotif at EBI
  • Fold representative 2v53 from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [2v53] [2v53_B] [2v53_C] [2v53_A] [2v53_D]
  • SWISS-PROT database: [P02461] [P09486]
  • Domain organization of [CO3A1_HUMAN] [SPRC_HUMAN] by SWISSPFAM
  • Domains found in 2V53: [FOLN] [KAZAL ] by SMART
  • Other resources with information on 2V53
  • Community annotation for 2V53 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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