2GY5 Transferase date May 09, 2006
title Tie2 Ligand-Binding Domain Crystal Structure
authors W.A.Barton, D.B.Nikolov
compound source
Molecule: Angiopoietin-1 Receptor
Chain: A
Fragment: Ligand-Binding Domain (Residues 23-445)
Synonym: Tyrosine-Protein Kinase Receptor Tie-2, Htie2, Tyr Protein Kinase Receptor Tek, P140 Tek, Tunica Interna Endot Cell Kinase, Cd202b Antigen;
Ec: 2.7.10.1
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Expression_system: Cell Free Synthesis
Expression_system_cell_line: Hek 293
Expression_system_vector: Pcdna3.1 (Invitrogen)
symmetry Space Group: P 41 21 2
R_factor 0.240 R_Free 0.294
crystal
cell
length a length b length c angle alpha angle beta angle gamma
114.653 114.653 113.774 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.90 Å
ligand NAG, NDG, SO4 enzyme Transferase E.C.2.7.10.1 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A


Primary referenceCrystal structures of the Tie2 receptor ectodomain and the angiopoietin-2-Tie2 complex., Barton WA, Tzvetkova-Robev D, Miranda EP, Kolev MV, Rajashankar KR, Himanen JP, Nikolov DB, Nat Struct Mol Biol. 2006 Jun;13(6):524-532. Epub 2006 May 28. PMID:16732286
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (75 Kb) [Save to disk]
  • Biological Unit Coordinates (2gy5.pdb1.gz) 70 Kb
  • LPC: Ligand-Protein Contacts for 2GY5
  • CSU: Contacts of Structural Units for 2GY5
  • Likely Quarternary Molecular Structure file(s) for 2GY5
  • Structure Factors (638 Kb)
  • Retrieve 2GY5 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 2GY5 from S2C, [Save to disk]
  • Re-refined 2gy5 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 2GY5 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 2GY5
  • 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 2GY5, from MSDmotif at EBI
  • Fold representative 2gy5 from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [2gy5] [2gy5_A]
  • SWISS-PROT database: [Q02763]
  • Domain organization of [TIE2_HUMAN] by SWISSPFAM
  • Domains found in 2GY5: [EGF] [IG_like ] by SMART
  • Other resources with information on 2GY5
  • Community annotation for 2GY5 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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