2X10 Receptor date Dec 21, 2009
title Crystal Structure Of The Complete Epha2 Ectodomain
authors E.Seiradake, K.Harlos, G.Sutton, A.R.Aricescu, E.Y.Jones
compound source
Molecule: Ephrin Type-A Receptor 2
Chain: A
Fragment: Ectodomain, Residues 27-534
Synonym: Tyrosine-Protein Kinase Receptor Eck, Epithelial C Kinase, Epha2;
Ec: 2.7.10.1
Engineered: Yes
Other_details: Nag On Asn407, Di-Methylation Of Lysines
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Expression_system: Homo Sapiens
Expression_system_common: Human
Expression_system_taxid: 9606
Expression_system_variant: Gnti-Deficient
Expression_system_cell_line: Hek293
Expression_system_plasmid: Phlsec
symmetry Space Group: P 1
R_factor 0.236 R_Free 0.299
crystal
cell
length a length b length c angle alpha angle beta angle gamma
41.920 44.650 93.420 93.02 98.22 112.12
method X-Ray Diffractionresolution 3.00 Å
ligand CL, MSE, NAG enzyme Transferase E.C.2.7.10.1 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A


Primary referenceAn extracellular steric seeding mechanism for Eph-ephrin signaling platform assembly., Seiradake E, Harlos K, Sutton G, Aricescu AR, Jones EY, Nat Struct Mol Biol. 2010 Apr;17(4):398-402. Epub 2010 Mar 14. PMID:20228801
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (163 Kb) [Save to disk]
  • Biological Unit Coordinates (2x10.pdb1.gz) 157 Kb
  • LPC: Ligand-Protein Contacts for 2X10
  • CSU: Contacts of Structural Units for 2X10
  • Structure Factors (71 Kb)
  • Retrieve 2X10 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 2X10 from S2C, [Save to disk]
  • Re-refined 2x10 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 2X10 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 2X10
  • 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 2X10, from MSDmotif at EBI
  • Fold representative 2x10 from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [2x10_A] [2x10]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domains found in 2X10: [EGF_like] [EPH_lbd] [FN3 ] by SMART
  • Other resources with information on 2X10
  • Community annotation for 2X10 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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