3GXU Transferase date Apr 03, 2009
title Crystal Structure Of Eph Receptor And Ephrin Complex
authors H.N.Qin, J.X.Song
compound source
Molecule: Ephrin Type-A Receptor 4
Chain: A
Fragment: Unp Residues 29-203
Synonym: Tyrosine-Protein Kinase Receptor Sek, Receptor Protein-Tyrosine Kinase Hek8, Tyrosine-Protein Kinase Tyro1;
Ec: 2.7.10.1
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Epha4, Hek8, Sek, Tyro1
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet32a

Molecule: Ephrin-B2
Chain: B
Fragment: Unp Residues 27-169
Synonym: Eph-Related Receptor Tyrosine Kinase Ligand 5, Lerk-5, Htk Ligand, Htk-L;
Engineered: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Efnb2, Eplg5, Htkl, Lerk5
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet32a
symmetry Space Group: P 1 21 1
R_factor 0.182 R_Free 0.273
crystal
cell
length a length b length c angle alpha angle beta angle gamma
54.651 48.711 64.469 90.00 110.43 90.00
method X-Ray Diffractionresolution 2.50 Å
ligand
enzyme Transferase E.C.2.7.10.1 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
B


Primary referenceStructural characterization of the EphA4-ephrin-B2 complex reveals new features enabling Eph-ephrin binding promiscuity., Qin H, Noberini R, Huan X, Shi J, Pasquale EB, Song J, J Biol Chem. 2009 Oct 29. PMID:19875447
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (62 Kb) [Save to disk]
  • Biological Unit Coordinates (3gxu.pdb1.gz) 58 Kb
  • CSU: Contacts of Structural Units for 3GXU
  • Structure Factors (82 Kb)
  • Retrieve 3GXU in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3GXU from S2C, [Save to disk]
  • Re-refined 3gxu structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 3GXU 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 3GXU
  • Cartoon representation from PDB Cartoon
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
  • Crystal Contacts, from CryCo at Weizmann Institute
  • 3D motif for 3GXU, from MSDmotif at EBI
  • Fold representative 3gxu from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3gxu_B] [3gxu] [3gxu_A]
  • SWISS-PROT database: [P52799] [P54764]
  • Domain organization of [EFNB2_HUMAN] [EPHA4_HUMAN] by SWISSPFAM
  • Domain found in 3GXU: [EPH_lbd ] by SMART
  • Other resources with information on 3GXU
  • Community annotation for 3GXU 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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