3KN1 Protein Binding date Nov 11, 2009
title Crystal Structure Of Golgi Phosphoprotein 3 N-Term Truncatio
authors K.R.Schmitz, N.J.Bessman, T.G.Setty, K.M.Ferguson
compound source
Molecule: Golgi Phosphoprotein 3
Chain: A
Fragment: Unp Residues 52-298
Synonym: Coat Protein Gpp34, Mitochondrial Dna Absence Fact
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Golph3, Gpp34
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: B834(De3)Plyss
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet-21a
symmetry Space Group: I 4 3 2
R_factor 0.213 R_Free 0.266
length a length b length c angle alpha angle beta angle gamma
174.369 174.369 174.369 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.90 Å
ligand MSE, SO4 enzyme

Primary referencePtdIns4P recognition by Vps74/GOLPH3 links PtdIns 4-kinase signaling to retrograde Golgi trafficking., Wood CS, Schmitz KR, Bessman NJ, Setty TG, Ferguson KM, Burd CG, J Cell Biol. 2009 Dec 28;187(7):967-75. Epub 2009 Dec 21. PMID:20026658
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (47 Kb) [Save to disk]
  • Biological Unit Coordinates (3kn1.pdb1.gz) 40 Kb
  • Biological Unit Coordinates (3kn1.pdb2.gz) 922 Kb
  • LPC: Ligand-Protein Contacts for 3KN1
  • CSU: Contacts of Structural Units for 3KN1
  • Structure Factors (192 Kb)
  • Retrieve 3KN1 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3KN1 from S2C, [Save to disk]
  • Re-refined 3kn1 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 3KN1 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 3KN1
  • 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 3KN1, from MSDmotif at EBI
  • Fold representative 3kn1 from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3kn1_A] [3kn1]
  • SWISS-PROT database: [Q9H4A6]
  • Domain organization of [GOLP3_HUMAN] by SWISSPFAM
  • Other resources with information on 3KN1
  • Community annotation for 3KN1 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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