2HDA Transferase date Jun 20, 2006
title Yes Sh3 Domain
authors A.Camara-Artigas, I.Luque, J.Ruiz-Sanz, P.L.Mateo, J.M.Martin-Ga
compound source
Molecule: Proto-Oncogene Tyrosine-Protein Kinase Yes
Chain: A
Fragment: Sh3 Domain
Synonym: P61-Yes, C-Yes
Ec: 2.7.10.2
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Yes1, Yes
Expression_system: Escherichia Coli
Expression_system_taxid: 562
symmetry Space Group: P 63 2 2
R_factor 0.214 R_Free 0.270
crystal
cell
length a length b length c angle alpha angle beta angle gamma
46.009 46.009 90.431 90.00 90.00 120.00
method X-Ray Diffractionresolution 1.90 Å
ligand SO4 enzyme Transferase E.C.2.7.10.2 BRENDA
Primary referenceCrystallographic structure of the SH3 domain of the human c-Yes tyrosine kinase: Loop flexibility and amyloid aggregation., Martin-Garcia JM, Luque I, Mateo PL, Ruiz-Sanz J, Camara-Artigas A, FEBS Lett. 2007 Mar 30;. PMID:17418139
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (16 Kb) [Save to disk]
  • Biological Unit Coordinates (2hda.pdb1.gz) 11 Kb
  • Biological Unit Coordinates (2hda.pdb2.gz) 61 Kb
  • Biological Unit Coordinates (2hda.pdb3.gz) 31 Kb
  • LPC: Ligand-Protein Contacts for 2HDA
  • CSU: Contacts of Structural Units for 2HDA
  • Likely Quarternary Molecular Structure file(s) for 2HDA
  • Structure Factors (68 Kb)
  • Retrieve 2HDA in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 2HDA from S2C, [Save to disk]
  • Re-refined 2hda structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 2HDA 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 2HDA
  • 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
  • 3D motif for 2HDA, from MSDmotif at EBI
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [2hda] [2hda_A]
  • SWISS-PROT database: [P07947]
  • Domain organization of [YES_HUMAN] by SWISSPFAM
  • Domain found in 2HDA: [SH3 ] by SMART
  • Other resources with information on 2HDA
  • Community annotation for 2HDA 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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