2R17 Protein Transport date Aug 22, 2007
title Functional Architecture Of The Retromer Cargo-Recognition Co
authors A.Hierro, A.L.Rojas, R.Rojas, N.Murthy, G.Effantin, A.V.Kajava, A. J.S.Bonifacino, J.H.Hurley
compound source
Molecule: Vacuolar Protein Sorting-Associated Protein 29
Chain: A, B
Synonym: Vesicle Protein Sorting 29, Hvps29, Pep11
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Vps29
Expression_system: Escherichia Coli Bl21(De3)
Expression_system_taxid: 469008
Expression_system_strain: Bl21(De3)

Molecule: Vacuolar Protein Sorting-Associated Protein 35
Chain: C, D
Synonym: Vesicle Protein Sorting 35, Hvps35, Maternal-Embry
Engineered: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Vps35, Mem3
Expression_system: Escherichia Coli Bl21(De3)
Expression_system_taxid: 469008
Expression_system_strain: Bl21(De3)
symmetry Space Group: P 21 21 21
R_factor 0.216 R_Free 0.268
crystal
cell
length a length b length c angle alpha angle beta angle gamma
66.250 128.471 140.452 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.80 Å
ligand GOL, MSE enzyme
Gene
Ontology
ChainFunctionProcessComponent
A, B


Primary referenceFunctional architecture of the retromer cargo-recognition complex., Hierro A, Rojas AL, Rojas R, Murthy N, Effantin G, Kajava AV, Steven AC, Bonifacino JS, Hurley JH, Nature. 2007 Oct 25;449(7165):1063-7. Epub 2007 Sep 23. PMID:17891154
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (161 Kb) [Save to disk]
  • Biological Unit Coordinates (2r17.pdb1.gz) 81 Kb
  • Biological Unit Coordinates (2r17.pdb2.gz) 78 Kb
  • LPC: Ligand-Protein Contacts for 2R17
  • CSU: Contacts of Structural Units for 2R17
  • Likely Quarternary Molecular Structure file(s) for 2R17
  • Structure Factors (547 Kb)
  • Retrieve 2R17 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 2R17 from S2C, [Save to disk]
  • Re-refined 2r17 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 2R17 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 2R17
  • 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 2R17, from MSDmotif at EBI
  • Fold representative 2r17 from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [2r17] [2r17_A] [2r17_D] [2r17_B] [2r17_C]
  • SWISS-PROT database: [Q9UBQ0] [Q96QK1]
  • Domain organization of [VPS29_HUMAN] [VPS35_HUMAN] by SWISSPFAM
  • Alignments of the sequence of 2R17 with the sequences similar proteins can be viewed for 2R17's classification [VPS29_HUMAN] [VPS35_HUMAN] at ProtoMap. Click on "Neighbors List", then on the "See Alignments" button below the list.
  • A sequence distance tree ("phylogenetic tree") can be viewed for 1ACL's classification [VPS29_HUMAN] [VPS35_HUMAN] at ProtoMap. Click on the Cluster number.
  • Other resources with information on 2R17
  • Community annotation for 2R17 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