1BKD Complex(Oncogene Protein Exchange Factr) date Jul 06, 1998
title Complex Of Human H-Ras With Human Sos-1
authors P.A.Boriack-Sjodin, S.M.Margarit, D.B.Sagi, J.Kuriyan
compound source
Molecule: H-Ras
Chain: R
Fragment: Residues 1-166
Synonym: P21
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Cell_line: Bl21
Organ: Brain
Cellular_location: Cytoplasm
Expression_system: Escherichia Coli Bl21(De3)
Expression_system_taxid: 469008
Expression_system_strain: Bl21 (De3)
Expression_system_plasmid: Proex Htb

Molecule: Son Of Sevenless-1
Chain: S
Fragment: Ras Guanine Nucleotide Exchange Factor Fragment
Synonym: Sos
Engineered: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Cell_line: Bl21
Organ: Brain
Cellular_location: Membrane-Anchored
Expression_system: Escherichia Coli Bl21(De3)
Expression_system_taxid: 469008
Expression_system_strain: Bl21 (De3)
Expression_system_plasmid: Proex Htb
symmetry Space Group: I 4 2 2
R_factor 0.222 R_Free 0.281
crystal
cell
length a length b length c angle alpha angle beta angle gamma
142.700 142.700 207.900 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.80 Å
note 1BKD (Molecule of the Month:pdb148)
related structures by homologous chain: 1PLK, 1PLL, 1XD2
Gene
Ontology
ChainFunctionProcessComponent
R


S


Primary referenceThe structural basis of the activation of Ras by Sos., Boriack-Sjodin PA, Margarit SM, Bar-Sagi D, Kuriyan J, Nature 1998 Jul 23;394(6691):337-43. PMID:9690470
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (106 Kb) [Save to disk]
  • Biological Unit Coordinates (1bkd.pdb1.gz) 401 Kb
  • CSU: Contacts of Structural Units for 1BKD
  • Likely Quarternary Molecular Structure file(s) for 1BKD
  • Structure Factors (207 Kb)
  • Retrieve 1BKD in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1BKD from S2C, [Save to disk]
  • Re-refined 1bkd structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 1BKD 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 1BKD
  • 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 1BKD, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1bkdr_, region R [Jmol] [rasmolscript] [script source]
        - Domain d1bkds_, region S [Jmol] [rasmolscript] [script source]
  • Fold representative 1bkd from FSSP and Dali (Families of Structurally Similar Proteins)
  • Class (fold), Architecture (subfold), Topology, Homologous superfamily from CATH
  • Summaries and structural analyses of PDB data files from PDBSum
  • Identification of Protein Pockets & Cavities at CASTp
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [1bkd_S] [1bkd_R] [1bkd]
  • SWISS-PROT database: [P01112] [Q07889]
  • Domain organization of [RASH_HUMAN] [SOS1_HUMAN] by SWISSPFAM
  • Domains found in 1BKD: [RAS] [RasGEF] [RasGEFN ] by SMART
  • Other resources with information on 1BKD
  • Community annotation for 1BKD at PDBWiki (http://pdbwiki.org)
  • MMDB (Entrez's Structure Database)
  • Movements, Movies and Images
  • Domain movements in 1BKD from the Database of Macromolecular Movements.
  • 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
    Bioinformatics Unit
    Weizmann Institute of Science