4BBV Signaling Protein date Sep 28, 2012
title The Pb0 Photocycle Intermediate Of Photoactive Yellow Protei
authors F.Schotte, H.S.Cho, V.R.I.Kaila, H.Kamikubo, N.Dashdorj, E.R.Henr T.J.Graber, R.Henning, M.Wulff, G.Hummer, M.Kataoka, P.A.Anfinru
compound source
Molecule: Photoactive Yellow Protein
Chain: A
Synonym: Pyp
Engineered: Yes
 Organism_scientific: Halorhodospira Halophila
Organism_taxid: 1053
Expression_system: Escherichia Coli
Expression_system_taxid: 469008
Expression_system_strain: Bl21(De3)
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet16b
symmetry Space Group: P 63
R_factor 0.255 R_Free 0.360
crystal
cell
length a length b length c angle alpha angle beta angle gamma
66.833 66.833 40.947 90.00 90.00 120.00
method X-Ray Diffractionresolution 1.60 Å
ligand HC4 enzyme
note 4BBV (Molecule of the Month:pdb183)
Gene
Ontology
ChainFunctionProcessComponent
A


Primary referenceWatching a signaling protein function in real time via 100-ps time-resolved Laue crystallography., Schotte F, Cho HS, Kaila VR, Kamikubo H, Dashdorj N, Henry ER, Graber TJ, Henning R, Wulff M, Hummer G, Kataoka M, Anfinrud PA, Proc Natl Acad Sci U S A. 2012 Nov 20;109(47):19256-61. doi:, 10.1073/pnas.1210938109. Epub 2012 Nov 6. PMID:23132943
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (28 Kb) [Save to disk]
  • Biological Unit Coordinates (4bbv.pdb1.gz) 23 Kb
  • LPC: Ligand-Protein Contacts for 4BBV
  • CSU: Contacts of Structural Units for 4BBV
  • Structure Factors (81 Kb)
  • Retrieve 4BBV in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 4BBV from S2C, [Save to disk]
  • Re-refined 4bbv structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 4BBV 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 4BBV
  • 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 4BBV, from MSDmotif at EBI
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [4bbv_A] [4bbv]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domain found in 4BBV: [PAS ] by SMART
    • Other resources with information on 4BBV
  • Community annotation for 4BBV at PDBWiki (http://pdbwiki.org)
    • 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, 1996-2014,2022
    Bioinformatics Unit
    Weizmann Institute of Science