3TW8 Protein Transport date Sep 21, 2011
title Gef Domain Of Dennd 1b In Complex With Rab Gtpase Rab35
authors X.D.Wu, D.Kummel, K.M.Reinisch
compound source
Molecule: Denn Domain-Containing Protein 1b
Chain: A, C
Fragment: Unp Residues 1-391
Synonym: Connecdenn 2, Protein Fam31b
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Dennd1b, C1orf218, Fam31b
Expression_system: Escherichia Coli
Expression_system_taxid: 469008
Expression_system_strain: Bl21(De3)

Molecule: Ras-Related Protein Rab-35
Chain: B, D
Fragment: Unp Residues 1-180
Synonym: Gtp-Binding Protein Ray, Ras-Related Protein Rab-1
Engineered: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Rab35, Rab1c, Ray
Expression_system: Escherichia Coli
Expression_system_taxid: 469008
Expression_system_strain: Bl21(De3)
symmetry Space Group: C 1 2 1
R_factor 0.227 R_Free 0.269
crystal
cell
length a length b length c angle alpha angle beta angle gamma
122.588 56.563 175.305 90.00 95.63 90.00
method X-Ray Diffractionresolution 2.10 Å
Gene
Ontology
ChainFunctionProcessComponent
A, C


D, B


Primary referenceInsights regarding guanine nucleotide exchange from the structure of a DENN-domain protein complexed with its Rab GTPase substrate., Wu X, Bradley MJ, Cai Y, Kummel D, De La Cruz EM, Barr FA, Reinisch KM, Proc Natl Acad Sci U S A. 2011 Nov 7. PMID:22065758
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (361 Kb) [Save to disk]
  • Biological Unit Coordinates (3tw8.pdb1.gz) 175 Kb
  • Biological Unit Coordinates (3tw8.pdb2.gz) 181 Kb
  • CSU: Contacts of Structural Units for 3TW8
  • Structure Factors (654 Kb)
  • Retrieve 3TW8 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3TW8 from S2C, [Save to disk]
  • Re-refined 3tw8 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 3TW8 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 3TW8
  • 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 3TW8, from MSDmotif at EBI
  • Fold representative 3tw8 from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3tw8] [3tw8_A] [3tw8_B] [3tw8_C] [3tw8_D]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domains found in 3TW8: [DENN] [RAB] [dDENN] [uDENN ] by SMART
  • Other resources with information on 3TW8
  • Community annotation for 3TW8 at PDBWiki (http://pdbwiki.org)
  • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

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