2D7C Protein Transport date Nov 16, 2005
title Crystal Structure Of Human Rab11 In Complex With Fip3 Rab- Binding Domain
authors T.Shiba, H.Koga, H.W.Shin, M.Kawasaki, R.Kato, K.Nakayama, S.Wakatsuki
compound source
Molecule: Ras-Related Protein Rab-11a
Chain: A, B
Fragment: Residues 7-173
Synonym: Rab-11
Engineered: Yes
Mutation: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Expression_system: Escherichia Coli Bl21
Expression_system_taxid: 511693
Expression_system_strain: Bl21
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pgex6p-1

Molecule: Rab11 Family-Interacting Protein 3
Chain: C, D
Fragment: Rab-Binding Domain
Synonym: Rab11-Fip3, Ef Hands-Containing Rab-Interacting Protein, Eferin;
Engineered: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Expression_system: Escherichia Coli Bl21
Expression_system_taxid: 511693
Expression_system_strain: Bl21
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pgex6p-1
symmetry Space Group: P 21 21 2
R_factor 0.202 R_Free 0.224
crystal
cell
length a length b length c angle alpha angle beta angle gamma
108.717 120.565 36.249 90.00 90.00 90.00
method X-Ray Diffractionresolution 1.75 Å
ligand GTP, MES, MG, MSE enzyme
note 2D7C is a representative structure
Gene
Ontology
ChainFunctionProcessComponent
A, B


D, C


Primary referenceStructural basis for Rab11-dependent membrane recruitment of a family of Rab11-interacting protein 3 (FIP3)/Arfophilin-1., Shiba T, Koga H, Shin HW, Kawasaki M, Kato R, Nakayama K, Wakatsuki S, Proc Natl Acad Sci U S A. 2006 Oct 17;103(42):15416-21. Epub 2006 Oct 9. PMID:17030804
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (83 Kb) [Save to disk]
  • Biological Unit Coordinates (2d7c.pdb1.gz) 41 Kb
  • Biological Unit Coordinates (2d7c.pdb2.gz) 40 Kb
  • LPC: Ligand-Protein Contacts for 2D7C
  • CSU: Contacts of Structural Units for 2D7C
  • Likely Quarternary Molecular Structure file(s) for 2D7C
  • Structure Factors (382 Kb)
  • Retrieve 2D7C in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 2D7C from S2C, [Save to disk]
  • Re-refined 2d7c structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 2D7C 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 2D7C
  • 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 2D7C, from MSDmotif at EBI
  • Fold representative 2d7c from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [2d7c] [2d7c_B] [2d7c_C] [2d7c_D] [2d7c_A]
  • SWISS-PROT database: [P62491] [O75154]
  • Domain organization of [RB11A_HUMAN] [RFIP3_HUMAN] by SWISSPFAM
  • Domain found in 2D7C: [RAB ] by SMART
  • Other resources with information on 2D7C
  • Community annotation for 2D7C 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
    Bioinformatics Unit
    Weizmann Institute of Science