3BBP Protein Transport Splicing date Nov 09, 2007
title Rab6-Gtp:Gcc185 Rab Binding Domain Complex
authors A.Schweizer Burguete, T.D.Fenn, A.T.Brunger, S.R.Pfeffer
compound source
Molecule: Ras-Related Protein Rab-6a
Chain: A, B, C
Synonym: Rab-6
Engineered: Yes
Mutation: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Rab6a, Rab6
Expression_system: Escherichia Coli Bl21(De3)
Expression_system_taxid: 469008
Expression_system_strain: Bl21 De3
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet47b

Molecule: Grip And Coiled-Coil Domain-Containing Protein 2
Chain: D, E, F
Fragment: Unp Residues 1446-1511
Synonym: Golgi Coiled-Coil Protein Gcc185, Ran-Binding Prot 4, Ranbp2l4, Ctcl Tumor Antigen Se1-1, Cll-Associated Antig Renal Carcinoma Antigen Ny-Ren-53;
Engineered: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Gcc2, Kiaa0336, Ranbp2l4
Expression_system: Escherichia Coli Bl21(De3)
Expression_system_taxid: 469008
Expression_system_strain: Bl21 De3
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pgex-6p1
symmetry Space Group: P 64 2 2
R_factor 0.228 R_Free 0.268
crystal
cell
length a length b length c angle alpha angle beta angle gamma
168.599 168.599 168.955 90.00 90.00 120.00
method X-Ray Diffractionresolution 3.00 Å
ligand GTP, MG enzyme
note 3BBP is a representative structure
Gene
Ontology
ChainFunctionProcessComponent
A, C, B


Primary referenceRab and Arl GTPase family members cooperate in the localization of the golgin GCC185., Burguete AS, Fenn TD, Brunger AT, Pfeffer SR, Cell. 2008 Jan 25;132(2):286-98. PMID:18243103
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (216 Kb) [Save to disk]
  • Biological Unit Coordinates (3bbp.pdb1.gz) 142 Kb
  • Biological Unit Coordinates (3bbp.pdb2.gz) 137 Kb
  • Biological Unit Coordinates (3bbp.pdb3.gz) 29 Kb
  • Biological Unit Coordinates (3bbp.pdb4.gz) 58 Kb
  • Biological Unit Coordinates (3bbp.pdb5.gz) 60 Kb
  • Biological Unit Coordinates (3bbp.pdb6.gz) 60 Kb
  • Biological Unit Coordinates (3bbp.pdb7.gz) 13 Kb
  • LPC: Ligand-Protein Contacts for 3BBP
  • CSU: Contacts of Structural Units for 3BBP
  • Likely Quarternary Molecular Structure file(s) for 3BBP
  • Structure Factors (436 Kb)
  • Retrieve 3BBP in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3BBP from S2C, [Save to disk]
  • Re-refined 3bbp structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 3BBP 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 3BBP
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
  • 3D motif for 3BBP, from MSDmotif at EBI
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3bbp_E] [3bbp] [3bbp_B] [3bbp_C] [3bbp_A] [3bbp_D] [3bbp_F]
  • SWISS-PROT database: [Q8IWJ2] [P20340]
  • Domain organization of [GCC2_HUMAN] [RAB6A_HUMAN] by SWISSPFAM
  • Domain found in 3BBP: [RAB ] by SMART
  • Other resources with information on 3BBP
  • Community annotation for 3BBP 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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