3AL9 Signaling Protein date Jul 28, 2010
title Mouse Plexin A2 Extracellular Domain
authors T.Nogi, N.Yasui, E.Mihara, J.Takagi
compound source
Molecule: Plexin-A2
Chain: A, B
Fragment: Sema And Psi Domain (Unp Residues 31-561)
Synonym: Plexin-2, Plex 2
Engineered: Yes
Organism_scientific: Mus Musculus
Organism_taxid: 10090
Expression_system: Homo Sapiens
Expression_system_taxid: 9606
Expression_system_cell: Hek293s Gnti-
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pcdna3.1his-Myc
symmetry Space Group: P 1
R_factor 0.205 R_Free 0.257
crystal
cell
length a length b length c angle alpha angle beta angle gamma
55.702 60.677 95.385 109.80 92.47 112.53
method X-Ray Diffractionresolution 2.10 Å
ligand EDO, NAG enzyme
Gene
Ontology
ChainFunctionProcessComponent
A, B


Primary referenceStructural basis for semaphorin signalling through the plexin receptor., Nogi T, Yasui N, Mihara E, Matsunaga Y, Noda M, Yamashita N, Toyofuku T, Uchiyama S, Goshima Y, Kumanogoh A, Takagi J, Nature. 2010 Sep 29. PMID:20881961
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (175 Kb) [Save to disk]
  • Biological Unit Coordinates (3al9.pdb1.gz) 170 Kb
  • Biological Unit Coordinates (3al9.pdb2.gz) 87 Kb
  • Biological Unit Coordinates (3al9.pdb3.gz) 87 Kb
  • LPC: Ligand-Protein Contacts for 3AL9
  • CSU: Contacts of Structural Units for 3AL9
  • Structure Factors (3103 Kb)
  • Retrieve 3AL9 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3AL9 from S2C, [Save to disk]
  • Re-refined 3al9 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 3AL9 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 3AL9
  • 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 3AL9, from MSDmotif at EBI
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3al9_B] [3al9] [3al9_A]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domains found in 3AL9: [PSI] [Sema ] by SMART
  • Other resources with information on 3AL9
  • Community annotation for 3AL9 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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