4BSJ Transferase date Jun 10, 2013
title Crystal Structure Of Vegfr-3 Extracellular Domains D4-5
authors V.M.Leppanen, D.Tvorogov, K.Kisko, A.E.Prota, M.Jeltsch, A.Anisi S.Markovic-Mueller, E.Stuttfeld, K.N.Goldie, K.Ballmer-Hofer, K
compound source
Molecule: Vascular Endothelial Growth Factor Receptor 3
Chain: A
Fragment: Extracellular Domains 4 And 5 (D4-5), Residues 33
Synonym: Vegfr-3, Fms-Like Tyrosine Kinase 4, Flt-4, Tyrosi Kinase Receptor Flt4, Vegfr-3;
Ec: 2.7.10.1
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Expression_system: Spodoptera Frugiperda
Expression_system_common: Fall Armyworm
Expression_system_taxid: 7108
Expression_system_cell_line: Sf21
Expression_system_vector_type: Baculovirus
Expression_system_plasmid: Pfastbac1
symmetry Space Group: P 31 2 1
R_factor 0.210 R_Free 0.253
crystal
cell
length a length b length c angle alpha angle beta angle gamma
133.340 133.340 48.930 90.00 90.00 120.00
method X-Ray Diffractionresolution 2.50 Å
ligand NAG enzyme Transferase E.C.2.7.10.1 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A


Primary referenceStructural and mechanistic insights into VEGF receptor 3 ligand binding and activation., Leppanen VM, Tvorogov D, Kisko K, Prota AE, Jeltsch M, Anisimov A, Markovic-Mueller S, Stuttfeld E, Goldie KN, Ballmer-Hofer K, Alitalo K, Proc Natl Acad Sci U S A. 2013 Jul 22. PMID:23878260
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (41 Kb) [Save to disk]
  • Biological Unit Coordinates (4bsj.pdb1.gz) 69 Kb
  • Biological Unit Coordinates (4bsj.pdb2.gz) 36 Kb
  • LPC: Ligand-Protein Contacts for 4BSJ
  • CSU: Contacts of Structural Units for 4BSJ
  • Structure Factors (124 Kb)
  • Retrieve 4BSJ in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 4BSJ from S2C, [Save to disk]
  • Re-refined 4bsj structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 4BSJ 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 4BSJ
  • 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 4BSJ, from MSDmotif at EBI
  • Fold representative 4bsj from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [4bsj_A] [4bsj]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domain found in 4BSJ: [IG ] by SMART
  • Other resources with information on 4BSJ
  • Community annotation for 4BSJ at PDBWiki (http://pdbwiki.org)

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