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(-) Description

Title :  THE CRYSTAL STRUCTURE OF THE BETA SUBUNIT OF THE DNA-DIRECTED RNA POLYMERASE FROM VIBRIO CHOLERAE O1 BIOVAR ELTOR
 
Authors :  R. Zhang, R. Wu, L. Freeman, A. Joachimiak, Midwest Center For Structural Genomics (Mcsg)
Date :  18 Aug 08  (Deposition) - 14 Oct 08  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.70
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A,B  (2x)
Keywords :  Dna-Directed Rna Polymerase, Structural Genomics, Psi, Mcsg, Protein Structure Initiative, Midwest Center For Structural Genomics, Nucleotidyltransferase, Transcription, Transferase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  R. Zhang, R. Wu, L. Freeman, A. Joachimiak
The Crystal Structure Of The Beta Subunit Of The Dna-Directed Rna Polymerase From Vibrio Cholerae O1 Biovar Eltor
To Be Published
PubMed: search
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - DNA-DIRECTED RNA POLYMERASE SUBUNIT BETA
    Chains: A, B
    EC Number: 2.7.7.6
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PMCSG7
    Expression System Strain: BL21
    Expression System Vector Type: PLASMID
    Gene: RPOB, VC_0328
    Organism Scientific: VIBRIO CHOLERAE
    Organism Taxid: 666
    Strain: STR. N16961 CHROMOSOME I
    Synonym: RNAP SUBUNIT BETA, TRANSCRIPTASE SUBUNIT BETA, RNA POLYMERASE SUBUNIT BETA

 Structural Features

(-) Chains, Units

  12
Asymmetric Unit : AB
Biological Unit 1 (2x): AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (0, 0)

(no "Ligand,Modified Residues,Ions" information available for 3E7H)

(-) Sites  (0, 0)

(no "Site" information available for 3E7H)

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 3E7H)

(-) Cis Peptide Bonds  (0, 0)

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 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 3E7H)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 3E7H)

(-) Exons   (0, 0)

(no "Exon" information available for 3E7H)

(-) Sequences/Alignments

Asymmetric Unit
   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
(details for a mapped element are shown in a popup box when the mouse pointer rests over it) 
Chain A from PDB  Type:PROTEIN  Length:102
 aligned with RPOB_VIBCH | Q9KV30 from UniProtKB/Swiss-Prot  Length:1341

    Alignment length:102
                                   236       246       256       266       276       286       296       306       316       326  
           RPOB_VIBCH   227 KVNFEVKDQTLMMELVPERLRGETATFDIEADGKVYVEKGRRVTARHIRQLEKDGVNFIEVPVEYIVGKVSAKDYVNEATGELIITANQEISLEALANLSQA 328
               SCOP domains ------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .eeeeeeeeeeeee.hhhhhh.......eee..eeee......hhhhhhhhhhh...eeeehhhhhhh.............eeeeeeeeeehhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------ Transcript
                 3e7h A   0 AVNFEVKDQTLMMELVPERLRGETATFDIEADGKVYVEKGRRVTARHIRQLEKDGVNFIEVPVEYIVGKVSAKDYVNEATGELIITANQEISLEALANLSQA 101
                                     9        19        29        39        49        59        69        79        89        99  


Chain B from PDB  Type:PROTEIN  Length:101
 aligned with RPOB_VIBCH | Q9KV30 from UniProtKB/Swiss-Prot  Length:1341

    Alignment length:101
                                   236       246       256       266       276       286       296       306       316       326 
           RPOB_VIBCH   227 KVNFEVKDQTLMMELVPERLRGETATFDIEADGKVYVEKGRRVTARHIRQLEKDGVNFIEVPVEYIVGKVSAKDYVNEATGELIITANQEISLEALANLSQ 327
               SCOP domains ----------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeeeeeeeeeeehhhhhh.......eee..eeee......hhhhhhhhhhh...eeeehhhhhhh.......eeeeeeeeeeeeeeeehhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------- Transcript
                 3e7h B   0 AVNFEVKDQTLMMELVPERLRGETATFDIEADGKVYVEKGRRVTARHIRQLEKDGVNFIEVPVEYIVGKVSAKDYVNEATGELIITANQEISLEALANLSQ 100
                                     9        19        29        39        49        59        69        79        89        99
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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  (0, 0)

(no "SCOP Domain" information available for 3E7H)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 3E7H)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 3E7H)

(-) Gene Ontology  (7, 7)

Asymmetric Unit(hide GO term definitions)
Chain A,B   (RPOB_VIBCH | Q9KV30)
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:0016779    nucleotidyltransferase activity    Catalysis of the transfer of a nucleotidyl group to a reactant.
    GO:0032549    ribonucleoside binding    Interacting selectively and non-covalently with a ribonucleoside, a compound consisting of a purine or pyrimidine nitrogenous base linked to ribose.
    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.
biological process
    GO:0006351    transcription, DNA-templated    The cellular synthesis of RNA on a template of DNA.
cellular component
    GO:0000428    DNA-directed RNA polymerase complex    A protein complex that possesses DNA-directed RNA polymerase activity.

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