1YX6 Hydrolase date Feb 19, 2005
title Solution Structure Of S5a Uim-2ubiquitin Complex
authors Q.Wang, P.Young, K.J.Walters
compound source
Molecule: 26s Proteasome Non-Atpase Regulatory Subunit 4
Chain: A
Fragment: Polyubiquitin Binding Region Of S5a
Synonym: 26s Proteasome Regulatory Subunit S5a, Rpn10, Mult Chain Binding Protein, Antisecretory Factor-1, Af, Asf;
Engineered: Yes
 Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Psmd4, Mcb1
Expression_system: Escherichia Coli
Expression_system_taxid: 562

Molecule: Ubiquitin
Chain: B
Fragment: Sequence Database Residues 1-76
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Expression_system: Escherichia Coli
Expression_system_taxid: 562
methodSolution NMR
related structures by homologous chain: 1YX5
Primary referenceStructure of s5a bound to monoubiquitin provides a model for polyubiquitin recognition., Wang Q, Young P, Walters KJ, J Mol Biol 2005 May 6;348(3):727-39. PMID:15826667
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (871 Kb) [Save to disk]
  • Biological Unit Coordinates (1yx6.pdb1.gz) 48 Kb
  • CSU: Contacts of Structural Units for 1YX6
  • Experimental data, such as chemical shifts, at BioMagResBank (BMRB)
  • NMR Restraints Grid from BioMagResBank (BMRB)
  • Retrieve 1YX6 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1YX6 from S2C, [Save to disk]
    • View 1YX6 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 1YX6
  • Ramachandran plot from PDBSum
    • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
  • 3D motif for 1YX6, from MSDmotif at EBI
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [1yx6_A] [1yx6_B] [1yx6]
  • SWISS-PROT database: [P55036] [P62988]
  • Domain organization of [PSMD4_HUMAN] [UBIQ_HUMAN] by SWISSPFAM
  • Domains found in 1YX6: [UBQ] [UIM ] by SMART
    • Other resources with information on 1YX6
  • Community annotation for 1YX6 at PDBWiki (http://pdbwiki.org)
  • NMR Ensemble (OLDERADO: core, domain and representative structure database)
  • MMDB (Entrez's Structure Database)
    • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

    • You may enter another PDB ID code
    Go [Back], to the [PDB Lite page], to the [OCA Search page] or to the [PDB Home page]
    OCA© by Jaime Prilusky, 1996-2014,2022
    Bioinformatics Unit
    Weizmann Institute of Science