1DQE Transport Protein date Jan 04, 2000
title Bombyx Mori Pheromone Binding Protein
authors B.H.Sandler, L.Nikonova, W.S.Leal, J.Clardy
compound source
Molecule: Pheromone-Binding Protein
Chain: A, B
Synonym: Pbp
Engineered: Yes
 Organism_scientific: Bombyx Mori
Organism_common: Domestic Silkworm
Organism_taxid: 7091
Expression_system: Escherichia Coli
Expression_system_taxid: 562
symmetry Space Group: P 41 21 2
R_factor 0.210 R_Free 0.273
crystal
cell
length a length b length c angle alpha angle beta angle gamma
53.180 53.180 191.540 90.00 90.00 90.00
method X-Ray Diffractionresolution 1.80 Å
ligand BOM enzyme
related structures by homologous chain: 1GM0
Gene
Ontology
ChainFunctionProcessComponent
A, B


Primary referenceSexual attraction in the silkworm moth: structure of the pheromone-binding-protein-bombykol complex., Sandler BH, Nikonova L, Leal WS, Clardy J, Chem Biol 2000 Feb;7(2):143-51. PMID:10662696
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (53 Kb) [Save to disk]
  • Biological Unit Coordinates (1dqe.pdb1.gz) 49 Kb
  • LPC: Ligand-Protein Contacts for 1DQE
  • CSU: Contacts of Structural Units for 1DQE
  • Likely Quarternary Molecular Structure file(s) for 1DQE
  • Structure Factors (185 Kb)
  • Retrieve 1DQE in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1DQE from S2C, [Save to disk]
  • Re-refined 1dqe structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 1DQE 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 1DQE
  • 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
  • 3D motif for 1DQE, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1dqea_, region A [Jmol] [rasmolscript] [script source]
        - Domain d1dqeb_, region B [Jmol] [rasmolscript] [script source]
  • Class (fold), Architecture (subfold), Topology, Homologous superfamily from CATH
  • Summaries and structural analyses of PDB data files from PDBSum
  • Identification of Protein Pockets & Cavities at CASTp
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [1dqe_A] [1dqe] [1dqe_B]
  • SWISS-PROT database: [P34174]
  • Domain organization of [PBP_BOMMO] by SWISSPFAM
  • Domain found in 1DQE: [PhBP ] by SMART
    • Other resources with information on 1DQE
  • Community annotation for 1DQE at PDBWiki (http://pdbwiki.org)
  • MMDB (Entrez's Structure Database)
    • Movements, Movies and Images
  • Domain movements in 1DQE from the Database of Macromolecular Movements.
  • Images from IMB Jena Image Library of Biological Macromolecules.

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