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(-) Description

Title :  SOLUTION STRUCTURE OF THE ESSENTIAL RNA POLYMERASE SUBUNIT RPB10 FROM METHANOBACTERIUM THERMOAUTOTROPHICUM
 
Authors :  C. D. Mackereth, C. H. Arrowsmith, A. M. Edwards, L. P. Mcintosh, Northeast Structural Genomics Consortium (Nesg)
Date :  07 Feb 00  (Deposition) - 14 Jun 00  (Release) - 24 Feb 09  (Revision)
Method :  SOLUTION NMR
Resolution :  NOT APPLICABLE
Chains :  NMR Structure  :  A  (20x)
Keywords :  Three Helix Bundle, Zinc Binding, Structural Genomics, Psi, Protein Structure Initiative, Northeast Structural Genomics Consortium, Nesg, Transferase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  C. D. Mackereth, C. H. Arrowsmith, A. M. Edwards, L. P. Mcintosh
Zinc-Bundle Structure Of The Essential Rna Polymerase Subunit Rpb10 From Methanobacterium Thermoautotrophicum.
Proc. Natl. Acad. Sci. Usa V. 97 6316 2000
PubMed-ID: 10841539  |  Reference-DOI: 10.1073/PNAS.97.12.6316
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - DNA-DIRECTED RNA POLYMERASE
    Chains: A
    EC Number: 2.7.7.6
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET15B
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Fragment: SUBUNIT RPB10
    Organism Scientific: METHANOTHERMOBACTER THERMAUTOTROPHICUS
    Organism Taxid: 145262
    Synonym: SUBUNIT N

 Structural Features

(-) Chains, Units

  
NMR Structure (20x): 

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:6 , CYS A:9 , CYS A:43 , CYS A:44BINDING SITE FOR RESIDUE ZN A 56

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 1EF4)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 1EF4)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 1EF4)

(-) PROSITE Motifs  (1, 1)

NMR Structure (1, 1)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1RNA_POL_N_8KDPS01112 RNA polymerases N / 8 Kd subunits signature.RPON_METTH1-10  1A:1-10

(-) Exons   (0, 0)

(no "Exon" information available for 1EF4)

(-) 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:55
 aligned with RPON_METTH | O26147 from UniProtKB/Swiss-Prot  Length:55

    Alignment length:55
                                    10        20        30        40        50     
            RPON_METTH    1 MIPVRCLSCGKPVSAYFNEYQRRVADGEDPKDVLDDLGLKRYCCRRMLISHVETW 55
               SCOP domains d1ef4a_ A: RNA polymerase subunit RPB10                 SCOP domains
               CATH domains 1ef4A00 A:1-55 Homeodomain-like                         CATH domains
               Pfam domains ------------------------------------------------------- Pfam domains
         Sec.struct. author .............hhhhhhhhhhhhh...hhhhhhhh.....hhhhhh....... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------- SAPs(SNPs)
                    PROSITE RNA_POL_N_--------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------- Transcript
                  1ef4 A  1 MIPVRCLSCGKPVSAYFNEYQRRVADGEDPKDVLDDLGLKRYCCRRMLISHVETW 55
                                    10        20        30        40        50
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  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: All alpha proteins (14657)

(-) CATH Domains  (1, 1)

NMR Structure
(-)
Class: Mainly Alpha (13335)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 1EF4)

(-) Gene Ontology  (7, 7)

NMR Structure(hide GO term definitions)
Chain A   (RPON_METTH | O26147)
molecular function
    GO:0003677    DNA binding    Any molecular function by which a gene product interacts selectively and non-covalently with DNA (deoxyribonucleic acid).
    GO:0003899    DNA-directed 5'-3' RNA polymerase activity    Catalysis of the reaction: nucleoside triphosphate + RNA(n) = diphosphate + RNA(n+1). Utilizes a DNA template, i.e. the catalysis of DNA-template-directed extension of the 3'-end of an RNA strand by one nucleotide at a time. Can initiate a chain 'de novo'.
    GO:0046872    metal ion binding    Interacting selectively and non-covalently with any metal ion.
    GO:0016779    nucleotidyltransferase activity    Catalysis of the transfer of a nucleotidyl group to a reactant.
    GO:0016740    transferase activity    Catalysis of the transfer of a group, e.g. a methyl group, glycosyl group, acyl group, phosphorus-containing, or other groups, from one compound (generally regarded as the donor) to another compound (generally regarded as the acceptor). Transferase is the systematic name for any enzyme of EC class 2.
    GO:0008270    zinc ion binding    Interacting selectively and non-covalently with zinc (Zn) ions.
biological process
    GO:0006351    transcription, DNA-templated    The cellular synthesis of RNA on a template of DNA.

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  1ef4
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  RPON_METTH | O26147
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  2.7.7.6
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tt11