2ZMV Transport Protein date Apr 21, 2008
title Crystal Structure Of Synbindin
authors F.Fan
compound source
Molecule: Trafficking Protein Particle Complex Subunit 4
Chain: A, B
Synonym: Synbindin, Trs23 Homolog, Hematopoietic Stemproge Protein 172;
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Trappc4, Sbdn, Cgi-104, Hspc172, Ptd009
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Bl21 De3
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet22b
symmetry Space Group: P 21 3
R_factor 0.243 R_Free 0.290
length a length b length c angle alpha angle beta angle gamma
124.391 124.391 124.391 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.80 Å
A, B

Primary referenceCrystal structure of human synbindin reveals two conformations of longin domain., Fan S, Wei Z, Xu H, Gong W, Biochem Biophys Res Commun. 2008 May 5;. PMID:18466758
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (73 Kb) [Save to disk]
  • Biological Unit Coordinates (2zmv.pdb1.gz) 191 Kb
  • Biological Unit Coordinates (2zmv.pdb2.gz) 65 Kb
  • CSU: Contacts of Structural Units for 2ZMV
  • Likely Quarternary Molecular Structure file(s) for 2ZMV
  • Structure Factors (660 Kb)
  • Retrieve 2ZMV in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 2ZMV from S2C, [Save to disk]
  • Re-refined 2zmv structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 2ZMV 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 2ZMV
  • 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 2ZMV, from MSDmotif at EBI
  • Fold representative 2zmv from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [2zmv] [2zmv_B] [2zmv_A]
  • SWISS-PROT database: [Q9Y296]
  • Domain organization of [TPPC4_HUMAN] by SWISSPFAM
  • Domain found in 2ZMV: [Sybindin ] by SMART
  • Other resources with information on 2ZMV
  • Community annotation for 2ZMV 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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