2R2O Signaling Protein date Aug 27, 2007
title Crystal Structure Of The Effector Domain Of Human Plexin B1
authors Y.Tong, W.Tempel, L.Shen, C.H.Arrowsmith, A.M.Edwards, M.Sundstro J.Weigelt, A.Bochkarev, H.Park, Structural Genomics Consortium
compound source
Molecule: Plexin-B1
Chain: A, B
Fragment: Effector Domain: Residues 1743-1862
Synonym: Semaphorin Receptor Sep
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Plxnb1, Kiaa0407, Plxn5, Sep
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Bl21-Codonplus(De3)-Ril
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet28a-Mhl
symmetry Space Group: P 21 21 21
R_factor 0.222 R_Free 0.269
crystal
cell
length a length b length c angle alpha angle beta angle gamma
50.979 56.571 99.366 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.00 Å
ligand MSE, UNX enzyme
Gene
Ontology
ChainFunctionProcessComponent
A, B


Primary referenceBinding of Rac1, Rnd1, and RhoD to a novel Rho GTPase interaction motif destabilizes dimerization of the plexin-B1 effector domain., Tong Y, Chugha P, Hota PK, Alviani RS, Li M, Tempel W, Shen L, Park HW, Buck M, J Biol Chem. 2007 Dec 21;282(51):37215-24. Epub 2007 Oct 4. PMID:17916560
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (38 Kb) [Save to disk]
  • Biological Unit Coordinates (2r2o.pdb1.gz) 33 Kb
  • LPC: Ligand-Protein Contacts for 2R2O
  • CSU: Contacts of Structural Units for 2R2O
  • Likely Quarternary Molecular Structure file(s) for 2R2O
  • Structure Factors (619 Kb)
  • Retrieve 2R2O in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 2R2O from S2C, [Save to disk]
  • Re-refined 2r2o structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 2R2O 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 2R2O
  • 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 2R2O, from MSDmotif at EBI
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [2r2o_B] [2r2o] [2r2o_A]
  • SWISS-PROT database: [O43157]
  • Domain organization of [PLXB1_HUMAN] by SWISSPFAM
  • Other resources with information on 2R2O
  • Community annotation for 2R2O at PDBWiki (http://pdbwiki.org)
  • MMDB (Entrez's Structure Database)
  • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

  • You may enter another PDB ID code
    Go [Back], to the [PDB Lite page], to the [OCA Search page] or to the [PDB Home page]
    OCA© by Jaime Prilusky, 1996-2014,2022
    Bioinformatics Unit
    Weizmann Institute of Science