3W5D Metal Transport date Jan 27, 2013
title Crystal Structure Of The Calcium Pump In The E2+Pi State
authors C.Toyoshima, S.Iwasawa, H.Ogawa, A.Hirata, J.Tsueda, G.Inesi
compound source
Molecule: Serca1a
Chain: A
Synonym: Sarcoplasmicendoplasmic Reticulum Calcium Atpase
 Organism_scientific: Oryctolagus Cuniculus
Organism_common: Rabbits
Organism_taxid: 9986
symmetry Space Group: P 41 21 2
R_factor 0.241 R_Free 0.271
crystal
cell
length a length b length c angle alpha angle beta angle gamma
71.248 71.248 587.086 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.45 Å
ligand ACE, NA, PTY, SO4 enzyme
Gene
Ontology
ChainFunctionProcessComponent
A


Primary referenceCrystal structures of the calcium pump and sarcolipin in the Mg2+-bound E1 state., Toyoshima C, Iwasawa S, Ogawa H, Hirata A, Tsueda J, Inesi G, Nature. 2013 Mar 14;495(7440):260-4. doi: 10.1038/nature11899. Epub 2013 Mar 3. PMID:23455422
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (166 Kb) [Save to disk]
  • Biological Unit Coordinates (3w5d.pdb1.gz) 161 Kb
  • LPC: Ligand-Protein Contacts for 3W5D
  • CSU: Contacts of Structural Units for 3W5D
  • Structure Factors (419 Kb)
  • Retrieve 3W5D in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3W5D from S2C, [Save to disk]
  • Re-refined 3w5d structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 3W5D 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 3W5D
  • 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 3W5D, from MSDmotif at EBI
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3w5d_A] [3w5d]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domain found in 3W5D: [Cation_ATPase_N ] by SMART
    • Other resources with information on 3W5D
  • Community annotation for 3W5D at PDBWiki (http://pdbwiki.org)

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