4YZD Transferase date Mar 24, 2015
title Crystal Structure Of Human Phosphorylated Ire1alpha In Compl Adp-Mg
authors N.O.Concha
compound source
Molecule: Serinethreonine-Protein Kinaseendoribonuclease
Chain: A, B, C
Fragment: Unp Residues 562-966
Synonym: Endoplasmic Reticulum-To-Nucleus Signaling 1,Inosi Requiring Protein 1,Hire1p,Ire1-Alpha,Ire1a;
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Ern1, Ire1
Expression_system: Spodoptera Frugiperda
Expression_system_common: Fall Armyworm
Expression_system_taxid: 7108
Expression_system_cell_line: Sf9
symmetry Space Group: C 1 2 1
R_factor 0.232 R_Free 0.273
length a length b length c angle alpha angle beta angle gamma
191.751 122.492 77.876 90.00 107.07 90.00
method X-Ray Diffractionresolution 3.10 Å
ligand ADP, MG enzyme Transferase E.C. BRENDA
A, C, B

Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (340 Kb) [Save to disk]
  • Biological Unit Coordinates (4yzd.pdb1.gz) 117 Kb
  • Biological Unit Coordinates (4yzd.pdb2.gz) 114 Kb
  • Biological Unit Coordinates (4yzd.pdb3.gz) 110 Kb
  • LPC: Ligand-Protein Contacts for 4YZD
  • CSU: Contacts of Structural Units for 4YZD
  • Structure Factors (884 Kb)
  • Retrieve 4YZD in mmCIF format [Save to disk]
  • Re-refined 4yzd structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 4YZD 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 4YZD
  • Cartoon representation from PDB Cartoon
  • 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
  • Crystal Contacts, from CryCo at Weizmann Institute
  • Fold representative 4yzd from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [4yzd] [4yzd_A] [4yzd_B] [4yzd_C]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domains found in 4YZD: [PUG] [STYKc ] by SMART
  • Other resources with information on 4YZD
  • Community annotation for 4YZD at PDBWiki (http://pdbwiki.org)

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