1P9D Replication date May 10, 2003
title High-Resolution Structure Of The Complex Of Hhr23a Ubiquitin-Like Domain And The C-Terminal Ubiquitin- Interacting Motif Of Proteasome Subunit S5a
authors T.D.Mueller, J.Feigon
compound source
Molecule: 26s Proteasome Non-Atpase Regulatory Subunit 4
Chain: S
Fragment: C-Terminal Ubiquitin-Interacting Motif, Pubs2
Synonym: 26s Proteasome Regulatory Subunit S5a, Rpn10, Multiubiquitin Chain Binding Protein, Antisecretory Factor- 1, Af, Asf;
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Psmd4 Or Mcb1
Expression_system: Escherichia Coli
Expression_system_taxid: 562

Molecule: Uv Excision Repair Protein Rad23 Homolog A
Chain: U
Fragment: Ubiquitin-Like Domain
Synonym: Hhr23a
Engineered: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Rad23a
Expression_system: Escherichia Coli
Expression_system_taxid: 562
methodSolution NMR
related structures by homologous chain: 1P9C, 1UEL
Primary referenceStructural determinants for the binding of ubiquitin-like domains to the proteasome., Mueller TD, Feigon J, EMBO J 2003 Sep 15;22(18):4634-45. PMID:12970176
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (300 Kb) [Save to disk]
  • CSU: Contacts of Structural Units for 1P9D
  • Retrieve 1P9D in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1P9D from S2C, [Save to disk]
  • View 1P9D 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 1P9D
  • 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
  • 3D motif for 1P9D, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1p9ds_, region S [Jmol] [rasmolscript] [script source]
        - Domain d1p9du_, region U [Jmol] [rasmolscript] [script source]
  • Fold representative 1p9d from FSSP and Dali (Families of Structurally Similar Proteins)
  • Class (fold), Architecture (subfold), Topology, Homologous superfamily from CATH
  • Summaries and structural analyses of PDB data files from PDBSum
  • Identification of Protein Pockets & Cavities at CASTp
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [1p9d_U] [1p9d] [1p9d_S]
  • SWISS-PROT database: [P55036] [P54725]
  • Domain organization of [PSMD4_HUMAN] [RD23A_HUMAN] by SWISSPFAM
  • Domains found in 1P9D: [UBQ] [UIM ] by SMART
  • Other resources with information on 1P9D
  • Community annotation for 1P9D 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.

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