5XA1 Crystal structure of inositol 1,4,5-trisphosphate receptor cytosolic domain with inositol 1,4,5-trisphosphate date
authors Hamada, K., Miyatake, H., Terauchi, A., Mikoshiba, K.
compound source
symmetry
R_factor
R_Free 0.3823
crystal
cell
length a length b length c angle alpha angle beta angle gamma
method X-Ray Diffractionresolution 6.20
ligand I3P enzyme
Gene
Ontology
ChainFunctionProcessComponent
A, B


Primary referenceIP3-mediated gating mechanism of the IP3 receptor revealed by mutagenesis and X-ray crystallography., Hamada K, Miyatake H, Terauchi A, Mikoshiba K, Proc Natl Acad Sci U S A. 2017 May 2;114(18):4661-4666. doi:, 10.1073/pnas.1701420114. Epub 2017 Apr 17. PMID:28416699
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (481 Kb) [Save to disk]
  • Biological Unit Coordinates (5xa1.pdb1.gz) 233 Kb
  • Biological Unit Coordinates (5xa1.pdb2.gz) 233 Kb
  • LPC: Ligand-Protein Contacts for 5XA1
  • CSU: Contacts of Structural Units for 5XA1
  • Structure Factors (167 Kb)
  • Retrieve 5XA1 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 5XA1 from S2C, [Save to disk]
  • Re-refined 5xa1 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 5XA1 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 5XA1
  • Cartoon representation from PDB Cartoon
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
  • Crystal Contacts, from CryCo at Weizmann Institute
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1g5xa1, region A:2-253 [Jmol] [rasmolscript] [script source]
        - Domain d1d5xa1, region A:82-181 [Jmol] [rasmolscript] [script source]
        - Domain d1n5xa1, region A:93-165 [Jmol] [rasmolscript] [script source]
  • Fold representative 5xa1 from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [5xa1] [5xa1_B] [5xa1_A]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 5XA1
  • Community annotation for 5XA1 at PDBWiki (http://pdbwiki.org)

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