3D74 Pheromone Binding Protein date May 20, 2008
title Crystal Structure Of A Pheromone Binding Protein Mutant D35a Apis Mellifera, Soaked At Ph 5.5
authors M.E.Pesenti, S.Spinelli, V.Bezirard, L.Briand, J.C.Pernollet, M.T C.Cambillau
compound source
Molecule: Pheromone-Binding Protein Asp1
Chain: A, B
Fragment: Unp Residues 26-144
Engineered: Yes
Mutation: Yes
Organism_scientific: Apis Mellifera
Organism_common: Honeybee
Organism_taxid: 7460
Expression_system: Pichia Pastoris
Expression_system_taxid: 4922
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Phil-D2
symmetry Space Group: P 21 21 2
R_factor 0.175 R_Free 0.229
length a length b length c angle alpha angle beta angle gamma
61.133 60.769 56.270 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.10 Å
ligand NBB enzyme
A, B

Primary referenceQueen Bee Pheromone Binding Protein pH-Induced Domain Swapping Favors Pheromone Release., Pesenti ME, Spinelli S, Bezirard V, Briand L, Pernollet JC, Campanacci V, Tegoni M, Cambillau C, J Mol Biol. 2009 May 28. PMID:19481550
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (45 Kb) [Save to disk]
  • Biological Unit Coordinates (3d74.pdb1.gz) 40 Kb
  • Biological Unit Coordinates (3d74.pdb2.gz) 20 Kb
  • Biological Unit Coordinates (3d74.pdb3.gz) 21 Kb
  • LPC: Ligand-Protein Contacts for 3D74
  • CSU: Contacts of Structural Units for 3D74
  • Likely Quarternary Molecular Structure file(s) for 3D74
  • Structure Factors (645 Kb)
  • Retrieve 3D74 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3D74 from S2C, [Save to disk]
  • Re-refined 3d74 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 3D74 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 3D74
  • 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 3D74, from MSDmotif at EBI
  • Fold representative 3d74 from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3d74] [3d74_B] [3d74_A]
  • SWISS-PROT database: [Q9U9J6]
  • Domain organization of [Q9U9J6_APIME] by SWISSPFAM
  • Domain found in 3D74: [PhBP ] by SMART
  • Other resources with information on 3D74
  • Community annotation for 3D74 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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