1QYP Transcription date Aug 19, 1997
title Thermococcus Celer Rpb9, Nmr, 25 Structures
authors B.Wang, D.N.M.Jones, B.P.Kaine, M.A.Weiss
compound source
Molecule: Rna Polymerase II
Chain: A
Fragment: Subunit Rpb9, C-Terminal Domain, Residues 58 -110
Engineered: Yes
Organism_scientific: Thermococcus Celer
Organism_taxid: 2264
Cell_line: Bl21
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Bl21 (De3) Lyss
Expression_system_plasmid: Pet15-B
methodSolution NMR
ligand ZN enzyme
note 1QYP is a representative structure
Gene
Ontology
ChainFunctionProcessComponent
A


Primary referenceHigh-resolution structure of an archaeal zinc ribbon defines a general architectural motif in eukaryotic RNA polymerases., Wang B, Jones DN, Kaine BP, Weiss MA, Structure 1998 May 15;6(5):555-69. PMID:9634694
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (378 Kb) [Save to disk]
  • Biological Unit Coordinates (1qyp.pdb1.gz) 16 Kb
  • LPC: Ligand-Protein Contacts for 1QYP
  • CSU: Contacts of Structural Units for 1QYP
  • Retrieve 1QYP in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1QYP from S2C, [Save to disk]
  • View 1QYP 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 1QYP
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
  • 3D motif for 1QYP, from MSDmotif at EBI
  • Genome occurence of 1QYP's fold from GeneCensus
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1qyp__, region [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: [1qyp] [1qyp_A]
  • SWISS-PROT database: [Q56254]
  • Domain organization of [RPOM_THECE] by SWISSPFAM
  • Domain found in 1QYP: [ZnF_C2C2 ] by SMART
  • Other resources with information on 1QYP
  • Community annotation for 1QYP 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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