5XAA Hydrolase date Mar 11, 2017
title Complete Structure Factors And An Atomic Model Of The Calciu (Serca1a) And Associated Phospholipids In The E2-Alf-(Tg) C P21212 Symmetry
authors Y.Norimatsu, K.Hasegawa, N.Shimizu, C.Toyoshima
compound source
Molecule: Sarcoplasmicendoplasmic Reticulum Calcium Atpase
Chain: A
Synonym: Sr Ca(2+)-Atpase 1,Calcium Pump 1,Calcium-Transpor Atpase Sarcoplasmic Reticulum Type,Fast Twitch Skeletal Mus Isoform,Endoplasmic Reticulum Class 12 Ca(2+) Atpase;
Ec: 3.6.3.8
 Organism_scientific: Oryctolagus Cuniculus
Organism_common: Rabbit
Organism_taxid: 9986
symmetry Space Group: P 21 21 2
R_factor 0.227 R_Free 0.260
crystal
cell
length a length b length c angle alpha angle beta angle gamma
120.900 87.700 140.200 90.00 90.00 90.00
method X-Ray Diffractionresolution 3.20 Å
ligand ACE, ALF, MG, PCW, TG1 enzyme Hydrolase E.C.3.6.3.8 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A


Primary referenceProtein-phospholipid interplay revealed with crystals of a calcium pump., Norimatsu Y, Hasegawa K, Shimizu N, Toyoshima C, Nature. 2017 May 11;545(7653):193-198. doi: 10.1038/nature22357. Epub 2017 May 3. PMID:28467821
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (354 Kb) [Save to disk]
  • Biological Unit Coordinates (5xaa.pdb1.gz) 343 Kb
  • LPC: Ligand-Protein Contacts for 5XAA
  • CSU: Contacts of Structural Units for 5XAA
  • Structure Factors (260 Kb)
  • Retrieve 5XAA in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 5XAA from S2C, [Save to disk]
  • Re-refined 5xaa structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 5XAA 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 5XAA
  • 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
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [5xaa] [5xaa_A]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
    • Other resources with information on 5XAA
  • Community annotation for 5XAA at PDBWiki (http://pdbwiki.org)

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