1YRT Layse, Toxin date Feb 04, 2005
title Crystal Structure Analysis Of The Adenylyl Cyclaes Catalytic Adenylyl Cyclase Toxin Of Bordetella Pertussis In Presence Terminal Calmodulin
authors Q.Guo, Y.Shen, Y.S.Lee, C.S.Gibbs, M.Mrksich, W.J.Tang
compound source
Molecule: Bifunctional Hemolysin-Adenylate Cyclase
Chain: A
Fragment: Calmodulin-Sensitive Adenylate Cyclase
Synonym: Cyclolysin, Act, Ac-Hly
Ec: 4.6.1.1
Engineered: Yes
Organism_scientific: Bordetella Pertussis
Organism_taxid: 520
Gene: Cya, Cyaa
Expression_system: Escherichia Coli Bl21(De3)
Expression_system_taxid: 469008
Expression_system_strain: Bl21(De3)
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pex

Molecule: Calmodulin
Chain: B
Synonym: Cam, Calm, Cam1
Engineered: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Calm1, Calm2, Calm3
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Bl21(De3)Pubs520
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pproex
symmetry Space Group: P 41 21 2
R_factor 0.220 R_Free 0.270
crystal
cell
length a length b length c angle alpha angle beta angle gamma
79.362 79.362 139.211 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.10 Å
ligand CA enzyme Lyase E.C.4.6.1.1 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A


B


Primary referenceStructural basis for the interaction of Bordetella pertussis adenylyl cyclase toxin with calmodulin., Guo Q, Shen Y, Lee YS, Gibbs CS, Mrksich M, Tang WJ, EMBO J 2005 Sep 21;24(18):3190-201. Epub 2005 Sep 1. PMID:16138079
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (74 Kb) [Save to disk]
  • Biological Unit Coordinates (1yrt.pdb1.gz) 68 Kb
  • LPC: Ligand-Protein Contacts for 1YRT
  • CSU: Contacts of Structural Units for 1YRT
  • Likely Quarternary Molecular Structure file(s) for 1YRT
  • Structure Factors (361 Kb)
  • Retrieve 1YRT in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1YRT from S2C, [Save to disk]
  • Re-refined 1yrt structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 1YRT 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 1YRT
  • 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 1YRT, from MSDmotif at EBI
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [1yrt_B] [1yrt] [1yrt_A]
  • SWISS-PROT database: [P62158] [P15318]
  • Belongs to the pore-forming rtx toxin (rtx-toxin) family according to TCDB.
  • Belongs to the calmodulin calcium binding protein (calmodulin) family according to TCDB.
  • Domain organization of [CALM_HUMAN] [CYAA_BORPE] by SWISSPFAM
  • Domain found in 1YRT: [EFh ] by SMART
  • Other resources with information on 1YRT
  • Community annotation for 1YRT 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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