1P1A Dna Binding Protein date Apr 11, 2003
title Nmr Structure Of Ubiquitin-Like Domain Of Hhr23b
authors K.S.Ryu, K.J.Lee, S.H.Bae, B.K.Kim, K.A.Kim, B.S.Choi
compound source
Molecule: Uv Excision Repair Protein Rad23 Homolog B
Chain: A
Fragment: Ubiquitin-Like Domain
Synonym: Rad23, Hhr23b
Engineered: Yes
 Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Hhr23b
Expression_system: Escherichia Coli Bl21(De3)
Expression_system_taxid: 469008
Expression_system_strain: Bl21 De3
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet15b
methodSolution NMR
related structures by homologous chain: 1OQY, 1P98
Primary referenceBinding surface mapping of intra- and interdomain interactions among hHR23B, ubiquitin, and polyubiquitin binding site 2 of S5a., Ryu KS, Lee KJ, Bae SH, Kim BK, Kim KA, Choi BS, J Biol Chem 2003 Sep 19;278(38):36621-7. Epub 2003 Jun 28. PMID:12832454
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (321 Kb) [Save to disk]
  • Biological Unit Coordinates (1p1a.pdb1.gz) 23 Kb
  • CSU: Contacts of Structural Units for 1P1A
  • Original NMR restraints for 1P1A from PDB
  • Retrieve 1P1A in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1P1A from S2C, [Save to disk]
    • View 1P1A 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 1P1A
  • Ramachandran plot from PDBSum
    • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
  • 3D motif for 1P1A, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1p1aa_, region A [Jmol] [rasmolscript] [script source]
  • 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: [1p1a] [1p1a_A]
  • SWISS-PROT database: [P54727]
  • Domain organization of [RD23B_HUMAN] by SWISSPFAM
  • Domain found in 1P1A: [UBQ ] by SMART
    • Other resources with information on 1P1A
  • Community annotation for 1P1A 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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