5IRS Protein Binding date Mar 14, 2016
title Crystal Structure Of The Proteasomal Rpn13 Pru-Domain
authors X.Chen, K.Shi, K.Walters, H.Aihara
compound source
Molecule: Proteasomal Ubiquitin Receptor Adrm1
Chain: A
Synonym: 110 Kda Cell Membrane Glycoprotein,Gp110,Adhesion- Molecule 1,Arm-1,Proteasome Regulatory Particle Non-Atpase Rpn13 Homolog;
Engineered: Yes
 Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Adrm1, Gp110
Expression_system: Escherichia Coli
Expression_system_taxid: 562
symmetry Space Group: P 21 21 21
R_factor 0.167 R_Free 0.209
crystal
cell
length a length b length c angle alpha angle beta angle gamma
42.555 56.476 64.089 90.00 90.00 90.00
method X-Ray Diffractionresolution 1.80 Å
ligand DTT enzyme
Gene
Ontology
ChainFunctionProcessComponent
A


Primary referenceStructures of Rpn1 T1:Rad23 and hRpn13:hPLIC2 Reveal Distinct Binding Mechanisms between Substrate Receptors and Shuttle Factors of the Proteasome., Chen X, Randles L, Shi K, Tarasov SG, Aihara H, Walters KJ, Structure. 2016 Jul 6. pii: S0969-2126(16)30125-3. doi:, 10.1016/j.str.2016.05.018. PMID:27396824
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (66 Kb) [Save to disk]
  • Biological Unit Coordinates (5irs.pdb1.gz) 59 Kb
  • LPC: Ligand-Protein Contacts for 5IRS
  • CSU: Contacts of Structural Units for 5IRS
  • Structure Factors (233 Kb)
  • Retrieve 5IRS in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 5IRS from S2C, [Save to disk]
  • Re-refined 5irs structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 5IRS 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 5IRS
  • 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: [5irs_A] [5irs]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
    • Other resources with information on 5IRS
  • Community annotation for 5IRS at PDBWiki (http://pdbwiki.org)

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