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(-) Description

Title :  THERMOCOCCUS CELER RPB9, NMR, 25 STRUCTURES
 
Authors :  B. Wang, D. N. M. Jones, B. P. Kaine, M. A. Weiss
Date :  19 Aug 97  (Deposition) - 24 Dec 97  (Release) - 24 Feb 09  (Revision)
Method :  SOLUTION NMR
Resolution :  NOT APPLICABLE
Chains :  NMR Structure  :  A  (25x)
Keywords :  Transcription, Rna Polymerase Ii Subunit, Rpb9, Zn Ribbon, Hyperthermophilic, Extremophile (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  B. Wang, D. N. Jones, B. P. Kaine, M. A. Weiss
High-Resolution Structure Of An Archaeal Zinc Ribbon Defines A General Architectural Motif In Eukaryotic Rna Polymerases.
Structure V. 6 555 1998
PubMed-ID: 9634694  |  Reference-DOI: 10.1016/S0969-2126(98)00058-6
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - RNA POLYMERASE II
    Cell Line: BL21
    Chains: A
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET15-B
    Expression System Strain: BL21 (DE3) LYSS
    Expression System Taxid: 562
    Fragment: SUBUNIT RPB9, C-TERMINAL DOMAIN, RESIDUES 58 - 110
    Organism Scientific: THERMOCOCCUS CELER
    Organism Taxid: 2264

 Structural Features

(-) Chains, Units

  
NMR Structure (25x): 

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 1)

NMR Structure (1, 1)
No.NameCountTypeFull Name
1ZN1Ligand/IonZINC ION

(-) Sites  (1, 1)

NMR Structure (1, 1)
No.NameEvidenceResiduesDescription
1AC1SOFTWARECYS A:18 , CYS A:21 , ASN A:23 , CYS A:46 , CYS A:49BINDING SITE FOR RESIDUE ZN A 58

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 1QYP)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 1QYP)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 1QYP)

(-) PROSITE Motifs  (2, 2)

NMR Structure (2, 2)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1ZF_TFIIS_2PS51133 Zinc finger TFIIS-type profile.TFS_THECE67-107  1A:14-54
2ZF_TFIIS_1PS00466 Zinc finger TFIIS-type signature.TFS_THECE71-106  1A:18-53

(-) Exons   (0, 0)

(no "Exon" information available for 1QYP)

(-) Sequences/Alignments

NMR Structure
   Reformat: Number of residues per line =  ('0' or empty: single-line sequence representation)
  Number of residues per labelling interval =   
  UniProt sequence: complete  aligned part    
   Show mapping: SCOP domains CATH domains Pfam domains Secondary structure (by author)
SAPs(SNPs) PROSITE motifs Exons
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Chain A from PDB  Type:PROTEIN  Length:57
 aligned with TFS_THECE | Q56254 from UniProtKB/Swiss-Prot  Length:110

    Alignment length:85
                                    35        45        55        65        75        85        95       105     
            TFS_THECE    26 GYEEPFDEEKDREKTVIKQEVKHKPDEGIVVIEQDLKTLPTTKITCPKCGNDTAYWWEMQTRAGDEPSTIFYKCTKCGHTWRSYE 110
               SCOP domains d                    1q        ypa_ A: RBP9 subunit of RNA polymerase II              SCOP domains
               CATH domains 1                    qy        pA00 A:1-57  [code=2.20.25.10, no name defined]        CATH domains
               Pfam domains ------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .--------------------..--------.........eee.........eeeeee..........eeeeee....eeee... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------- SAPs(SNPs)
                PROSITE (1) -----------------------------------------ZF_TFIIS_2  PDB: A:14-54 UniProt: 67-107 --- PROSITE (1)
                PROSITE (2) ---------------------------------------------ZF_TFIIS_1  PDB: A:18-53            ---- PROSITE (2)
                 Transcript ------------------------------------------------------------------------------------- Transcript
                 1qyp A   1 G--------------------SH--------MEQDLKTLPTTKITCPKCGNDTAYWWEMQTRAGDEPSTIFYKCTKCGHTWRSYE  57
                            |        -         - ||      - |      12        22        32        42        52     
                            |                    2|        4                                                     
                            1                     3
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  x → Chemical Group (purple background, 'x', labelled with number + name, e.g. ACE or NH2)
  extra numbering lines below/above indicate numbering irregularities and modified residue names etc., number ends below/above '|'

 Classification and Annotation

(-) SCOP Domains  (1, 1)

NMR Structure
(-)
Class: Small proteins (3458)

(-) CATH Domains  (1, 1)

NMR Structure
(-)
Class: Mainly Beta (13760)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 1QYP)

(-) Gene Ontology  (6, 6)

NMR Structure(hide GO term definitions)
Chain A   (TFS_THECE | Q56254)
molecular function
    GO:0003677    DNA binding    Any molecular function by which a gene product interacts selectively and non-covalently with DNA (deoxyribonucleic acid).
    GO:0046872    metal ion binding    Interacting selectively and non-covalently with any metal ion.
    GO:0003676    nucleic acid binding    Interacting selectively and non-covalently with any nucleic acid.
    GO:0008270    zinc ion binding    Interacting selectively and non-covalently with zinc (Zn) ions.
biological process
    GO:0006355    regulation of transcription, DNA-templated    Any process that modulates the frequency, rate or extent of cellular DNA-templated transcription.
    GO:0006351    transcription, DNA-templated    The cellular synthesis of RNA on a template of DNA.

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  1qyp
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