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UniProtKB - Q73JJ8 (RPOC_TREDE)

Entry version 98 (02 Dec 2020)
Sequence version 1 (05 Jul 2004)
Previous versions | rss
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Protein

DNA-directed RNA polymerase subunit beta'

Gene

rpoC

Organism
Treponema denticola (strain ATCC 35405 / CIP 103919 / DSM 14222)
Status
Reviewed-Annotation score:

Annotation score:3 out of 5

<p>The annotation score provides a heuristic measure of the annotation content of a UniProtKB entry or proteome. This score <strong>cannot</strong> be used as a measure of the accuracy of the annotation as we cannot define the 'correct annotation' for any given protein.<p><a href='/help/annotation_score' target='_top'>More...</a></p>-Protein inferred from homologyi <p>This indicates the type of evidence that supports the existence of the protein. Note that the 'protein existence' evidence does not give information on the accuracy or correctness of the sequence(s) displayed.<p><a href='/help/protein_existence' target='_top'>More...</a></p>

<p>This section provides any useful information about the protein, mostly biological knowledge.<p><a href='/help/function_section' target='_top'>More...</a></p>Functioni

DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates.UniRule annotation

<p>This subsection of the <a href="http://www.uniprot.org/help/function%5Fsection">Function</a> section describes the catalytic activity of an enzyme, i.e. a chemical reaction that the enzyme catalyzes.<p><a href='/help/catalytic_activity' target='_top'>More...</a></p>Catalytic activityi

<p>This subsection of the 'Function' section provides information relevant to cofactors. A cofactor is any non-protein substance required for a protein to be catalytically active. Some cofactors are inorganic, such as the metal atoms zinc, iron, and copper in various oxidation states. Others, such as most vitamins, are organic.<p><a href='/help/cofactor' target='_top'>More...</a></p>Cofactori

Protein has several cofactor binding sites:

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the <a href="http://www.uniprot.org/help/function%5Fsection">Function</a> section indicates at which position the protein binds a given metal ion. The nature of the metal is indicated in the 'Description' field.<p><a href='/help/metal' target='_top'>More...</a></p>Metal bindingi60Zinc 1UniRule annotation1
Metal bindingi62Zinc 1UniRule annotation1
Metal bindingi75Zinc 1UniRule annotation1
Metal bindingi78Zinc 1UniRule annotation1
Metal bindingi449MagnesiumUniRule annotation1
Metal bindingi451MagnesiumUniRule annotation1
Metal bindingi453MagnesiumUniRule annotation1
Metal bindingi783Zinc 2UniRule annotation1
Metal bindingi857Zinc 2UniRule annotation1
Metal bindingi864Zinc 2UniRule annotation1
Metal bindingi867Zinc 2UniRule annotation1

<p>The <a href="http://www.geneontology.org/">Gene Ontology (GO)</a> project provides a set of hierarchical controlled vocabulary split into 3 categories:<p><a href='/help/gene_ontology' target='_top'>More...</a></p>GO - Molecular functioni

Complete GO annotation on QuickGO ...

GO - Biological processi

Complete GO annotation on QuickGO ...

<p>UniProtKB Keywords constitute a <a href="http://www.uniprot.org/keywords">controlled vocabulary</a> with a hierarchical structure. Keywords summarise the content of a UniProtKB entry and facilitate the search for proteins of interest.<p><a href='/help/keywords' target='_top'>More...</a></p>Keywordsi

Molecular functionNucleotidyltransferase, Transferase
Biological processTranscription
LigandMagnesium, Metal-binding, Zinc

Enzyme and pathway databases

BioCyc Collection of Pathway/Genome Databases

More...BioCyci		TDEN243275:G1G0Q-2462-MONOMER

<p>This section provides information about the protein and gene name(s) and synonym(s) and about the organism that is the source of the protein sequence.<p><a href='/help/names_and_taxonomy_section' target='_top'>More...</a></p>Names & Taxonomyi

<p>This subsection of the <a href="http://www.uniprot.org/help/names%5Fand%5Ftaxonomy%5Fsection">Names and taxonomy</a> section provides an exhaustive list of all names of the protein, from commonly used to obsolete, to allow unambiguous identification of a protein.<p><a href='/help/protein_names' target='_top'>More...</a></p>Protein namesi
Recommended name:
DNA-directed RNA polymerase subunit beta'UniRule annotation (EC:2.7.7.6UniRule annotation)
Short name:
RNAP subunit beta'UniRule annotation
Alternative name(s):
RNA polymerase subunit beta'UniRule annotation
Transcriptase subunit beta'UniRule annotation
<p>This subsection of the <a href="http://www.uniprot.org/help/names%5Fand%5Ftaxonomy%5Fsection">Names and taxonomy</a> section indicates the name(s) of the gene(s) that code for the protein sequence(s) described in the entry. Four distinct tokens exist: 'Name', 'Synonyms', 'Ordered locus names' and 'ORF names'.<p><a href='/help/gene_name' target='_top'>More...</a></p>Gene namesi
Name:rpoCUniRule annotation
Ordered Locus Names:TDE_2420
<p>This subsection of the <a href="http://www.uniprot.org/help/names%5Fand%5Ftaxonomy%5Fsection">Names and taxonomy</a> section provides information on the name(s) of the organism that is the source of the protein sequence.<p><a href='/help/organism-name' target='_top'>More...</a></p>OrganismiTreponema denticola (strain ATCC 35405 / CIP 103919 / DSM 14222)
<p>This subsection of the <a href="http://www.uniprot.org/help/names%5Fand%5Ftaxonomy%5Fsection">Names and taxonomy</a> section shows the unique identifier assigned by the NCBI to the source organism of the protein. This is known as the 'taxonomic identifier' or 'taxid'.<p><a href='/help/taxonomic_identifier' target='_top'>More...</a></p>Taxonomic identifieri243275 [NCBI]
<p>This subsection of the <a href="http://www.uniprot.org/help/names%5Fand%5Ftaxonomy%5Fsection">Names and taxonomy</a> section contains the taxonomic hierarchical classification lineage of the source organism. It lists the nodes as they appear top-down in the taxonomic tree, with the more general grouping listed first.<p><a href='/help/taxonomic_lineage' target='_top'>More...</a></p>Taxonomic lineageiBacteria › Spirochaetes › Spirochaetales › Spirochaetaceae › Treponema ›
<p>This subsection of the <a href="http://www.uniprot.org/help/names%5Fand%5Ftaxonomy%5Fsection">Names and taxonomy</a> section is present for entries that are part of a <a href="http://www.uniprot.org/proteomes">proteome</a>, i.e. of a set of proteins thought to be expressed by organisms whose genomes have been completely sequenced.<p><a href='/help/proteomes_manual' target='_top'>More...</a></p>Proteomesi
  • UP000008212 <p>A UniProt <a href="http://www.uniprot.org/manual/proteomes%5Fmanual">proteome</a> can consist of several components.<br></br>The component name refers to the genomic component encoding a set of proteins.<p><a href='/help/proteome_component' target='_top'>More...</a></p> Componenti: Chromosome

<p>This section provides information on the location and the topology of the mature protein in the cell.<p><a href='/help/subcellular_location_section' target='_top'>More...</a></p>Subcellular locationi

Keywords - Cellular componenti

DNA-directed RNA polymerase

<p>This section describes post-translational modifications (PTMs) and/or processing events.<p><a href='/help/ptm_processing_section' target='_top'>More...</a></p>PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the 'PTM / Processing' section describes the extent of a polypeptide chain in the mature protein following processing or proteolytic cleavage.<p><a href='/help/chain' target='_top'>More...</a></p>ChainiPRO_00000678221 – 1424DNA-directed RNA polymerase subunit beta'Add BLAST1424

Proteomic databases

PRoteomics IDEntifications database

More...PRIDEi		Q73JJ8

<p>This section provides information on the quaternary structure of a protein and on interaction(s) with other proteins or protein complexes.<p><a href='/help/interaction_section' target='_top'>More...</a></p>Interactioni

<p>This subsection of the <a href="http://www.uniprot.org/help/interaction%5Fsection">'Interaction'</a> section provides information about the protein quaternary structure and interaction(s) with other proteins or protein complexes (with the exception of physiological receptor-ligand interactions which are annotated in the <a href="http://www.uniprot.org/help/function%5Fsection">'Function'</a> section).<p><a href='/help/subunit_structure' target='_top'>More...</a></p>Subunit structurei

The RNAP catalytic core consists of 2 alpha, 1 beta, 1 beta' and 1 omega subunit. When a sigma factor is associated with the core the holoenzyme is formed, which can initiate transcription.

UniRule annotation

Protein-protein interaction databases

STRING: functional protein association networks

More...STRINGi		243275.TDE_2420

<p>This section provides information on the tertiary and secondary structure of a protein.<p><a href='/help/structure_section' target='_top'>More...</a></p>Structurei

3D structure databases

SWISS-MODEL Repository - a database of annotated 3D protein structure models

More...SMRi		Q73JJ8

Database of comparative protein structure models

More...ModBasei		Search...

<p>This section provides information on sequence similarities with other proteins and the domain(s) present in a protein.<p><a href='/help/family_and_domains_section' target='_top'>More...</a></p>Family & Domainsi

<p>This subsection of the 'Family and domains' section provides information about the sequence similarity with other proteins.<p><a href='/help/sequence_similarities' target='_top'>More...</a></p>Sequence similaritiesi

Belongs to the RNA polymerase beta' chain family.UniRule annotation

Phylogenomic databases

evolutionary genealogy of genes: Non-supervised Orthologous Groups

More...eggNOGi		COG0086, Bacteria

The HOGENOM Database of Homologous Genes from Fully Sequenced Organisms

More...HOGENOMi		CLU_000524_3_1_12

Identification of Orthologs from Complete Genome Data

More...OMAi		YRNIRVE

Database of Orthologous Groups

More...OrthoDBi		4421at2

Family and domain databases

Gene3D Structural and Functional Annotation of Protein Families

More...Gene3Di		1.10.132.30, 1 hit
1.10.274.100, 1 hit

HAMAP database of protein families

More...HAMAPi		MF_01322, RNApol_bact_RpoC, 1 hit

Integrated resource of protein families, domains and functional sites

More...InterProi		View protein in InterPro
IPR012754, DNA-dir_RpoC_beta_prime
IPR000722, RNA_pol_asu
IPR006592, RNA_pol_N
IPR007080, RNA_pol_Rpb1_1
IPR007066, RNA_pol_Rpb1_3
IPR042102, RNA_pol_Rpb1_3_sf
IPR007083, RNA_pol_Rpb1_4
IPR007081, RNA_pol_Rpb1_5
IPR038120, Rpb1_funnel_sf

Pfam protein domain database

More...Pfami		View protein in Pfam
PF04997, RNA_pol_Rpb1_1, 1 hit
PF00623, RNA_pol_Rpb1_2, 2 hits
PF04983, RNA_pol_Rpb1_3, 1 hit
PF05000, RNA_pol_Rpb1_4, 1 hit
PF04998, RNA_pol_Rpb1_5, 1 hit

Simple Modular Architecture Research Tool; a protein domain database

More...SMARTi		View protein in SMART
SM00663, RPOLA_N, 1 hit

TIGRFAMs; a protein family database

More...TIGRFAMsi		TIGR02386, rpoC_TIGR, 1 hit

<p>This section displays by default the canonical protein sequence and upon request all isoforms described in the entry. It also includes information pertinent to the sequence(s), including <a href="http://www.uniprot.org/help/sequence%5Flength">length</a> and <a href="http://www.uniprot.org/help/sequences">molecular weight</a>. The information is filed in different subsections. The current subsections and their content are listed below:<p><a href='/help/sequences_section' target='_top'>More...</a></p>Sequencei

<p>This subsection of the <a href="http://www.uniprot.org/help/sequences%5Fsection">Sequence</a> section indicates if the <a href="http://www.uniprot.org/help/canonical%5Fand%5Fisoforms">canonical sequence</a> displayed by default in the entry is complete or not.<p><a href='/help/sequence_status' target='_top'>More...</a></p>Sequence statusi: Complete.

Q73JJ8-1 [UniParc]FASTAAdd to basket
« Hide
        10         20         30         40         50
MRDIQDFDSL MIRLASPDTI RAWSYGEVKK PETINYRTLR PERDGLFCER 
        60         70         80         90        100
IFGTTKEWEC FCGKFKSIRY KGVICDRCGV EVTHFKVRRE RMGHIELAAP 
       110        120        130        140        150
VSHIWYYRSV PSRMGLLLNL QVAALRSVLY YEKYIVIDAN DTDLEPMQLL 
       160        170        180        190        200
TEDEYRDAHE RYGAAFTAGM GAGAIKTLLQ NINLDELAAQ LRAKMIEKGA 
       210        220        230        240        250
KSDQRLLRRI EIVENFRASG NKPEWMILDV IPVIPPDLRP MVQLDGGRFA 
       260        270        280        290        300
TSDLNDLYRR VIHRNSRLSK LMELKAPDII IRNEKRMLQE AVDALFDNSK 
       310        320        330        340        350
RKKAIKGASN RPLKSISDLL KGKQGRFRQN LLGKRVDYSG RSVIVVGPEL 
       360        370        380        390        400
KLWQCGLPTK MALELFKPFI MKKLVQKEVV SNIKKAKLLV EQEAAEVFAV 
       410        420        430        440        450
LDEVVSEHPV LLNRAPTLHR LGIQAFEPVL VEGKAIRLHP LVCKAFNADF 
       460        470        480        490        500
DGDQMAIHVP LTQAAQMECW TLMLSARNLL DPANGKTIVF PTQDMVLGLY 
       510        520        530        540        550
YLTKERALPE GKKERLYSSV PEVLMAAECH AVGWQEPVLI DYETEPGKIE 
       560        570        580        590        600
TVRTTPGRIL FNEEMPEGVP FTNYALNDKK IRKLIENVFK DKGPWLAVQL 
       610        620        630        640        650
LDKLKAVGYK YATYFGATLS MEDMIIPPEK AGMLEKANKE VLEIYNQYKG 
       660        670        680        690        700
GHITQEERYN RVVDVWQKTN SNLKEILMKR LQEDKGGFNT IHMMETSGAR 
       710        720        730        740        750
GSKDQINQLA GMRGLMSKPT GDIIELPIRS NFKEGLNVME FFISTNGARK 
       760        770        780        790        800
GLTDTALKTS DAGYLTRRLV DIAQNVVVNE EDCGTINGIE YAAIKRGDEI 
       810        820        830        840        850
RESLSERIAG KYTLERVIHP ITGELLIDVN EYITDETAKK IEEAGVETVK 
       860        870        880        890        900
LRTVLTCESK HGVCVKCYGR DLARNRIVRI GEAVGIIAAQ SIGQPGTQLT 
       910        920        930        940        950
MRTFHEGGTA SKNVEENRIV FNDYSIIVRG IKGSYVTLKN GHFLFTRKGE 
       960        970        980        990       1000
FTFSRVLNEY ALKKGETALV STGTRVVKGN PLYTLKNGKE VLSENIAIAE 
      1010       1020       1030       1040       1050
VRDNIIYLTG QEQTIEIRNG SEVVVKENDV IKAGETVGTF DPFADPILAE 
      1060       1070       1080       1090       1100
YDGFVRFEDI LPGTTLKEEA DEETGVVEKR ISDAHFDKMQ PRIFISDESG 
      1110       1120       1130       1140       1150
NTVGEDSYFL PGGAQLLVEE GQEIKAGAIL AKIAKESVKT KDITGGLPRV 
      1160       1170       1180       1190       1200
SELLEARRPK SPAVLAAIAG VVTIKKGLLK GKRTIMVRDE YGHDVKHLVP 
      1210       1220       1230       1240       1250
IGKRMLVRDG DTVKAGEPLC DGSFDPHDIL NILGENALQN YLMKEIKEVY 
      1260       1270       1280       1290       1300
DAQGVTINDK HVGIIVRQML RKVKIVSVGD TKFIFDQQID KYRFHEENKR 
      1310       1320       1330       1340       1350
VKEEGGQPAV ARPMFQGITK AALNIDSFIS AASFQETTKV LTNAAIAGSS 
      1360       1370       1380       1390       1400
DELRGLKENV IIGHLIPAGT GMKQYRDIKL FDKNKSDLDI QMNEILERRR 
      1410       1420 
LEAEAAQALE EKELIEEENF LDDL
Length:1,424
Mass (Da):160,037
Last modified:July 5, 2004 - v1
<p>The checksum is a form of redundancy check that is calculated from the sequence. It is useful for tracking sequence updates.</p> <p>It should be noted that while, in theory, two different sequences could have the same checksum value, the likelihood that this would happen is extremely low.</p> <p>However UniProtKB may contain entries with identical sequences in case of multiple genes (paralogs).</p> <p>The checksum is computed as the sequence 64-bit Cyclic Redundancy Check value (CRC64) using the generator polynomial: x<sup>64</sup> + x<sup>4</sup> + x<sup>3</sup> + x + 1. The algorithm is described in the ISO 3309 standard. </p> <p class="publication">Press W.H., Flannery B.P., Teukolsky S.A. and Vetterling W.T.<br /> <strong>Cyclic redundancy and other checksums</strong><br /> <a href="http://www.nrbook.com/b/bookcpdf.php">Numerical recipes in C 2nd ed., pp896-902, Cambridge University Press (1993)</a>)</p> Checksum:iBC2778C13F3E30BC
GO

Sequence databases

Select the link destinations:

EMBL nucleotide sequence database

More...EMBLi

GenBank nucleotide sequence database

More...GenBanki

DNA Data Bank of Japan; a nucleotide sequence database

More...DDBJi
Links Updated
AE017226 Genomic DNA Translation: AAS12938.1

NCBI Reference Sequences

More...RefSeqi		NP_973019.1, NC_002967.9
WP_002680359.1, NC_002967.9

Genome annotation databases

Ensembl bacterial and archaeal genome annotation project

More...EnsemblBacteriai		AAS12938; AAS12938; TDE_2420

Database of genes from NCBI RefSeq genomes

More...GeneIDi		2739845

KEGG: Kyoto Encyclopedia of Genes and Genomes

More...KEGGi		tde:TDE2420

Pathosystems Resource Integration Center (PATRIC)

More...PATRICi		fig|243275.7.peg.2287

<p>This section provides links to proteins that are similar to the protein sequence(s) described in this entry at different levels of sequence identity thresholds (100%, 90% and 50%) based on their membership in UniProt Reference Clusters (<a href="http://www.uniprot.org/help/uniref">UniRef</a>).<p><a href='/help/similar_proteins_section' target='_top'>More...</a></p>Similar proteinsi

<p>This section is used to point to information related to entries and found in data collections other than UniProtKB.<p><a href='/help/cross_references_section' target='_top'>More...</a></p>Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AE017226 Genomic DNA Translation: AAS12938.1
RefSeqiNP_973019.1, NC_002967.9
WP_002680359.1, NC_002967.9

3D structure databases

SMRiQ73JJ8
ModBaseiSearch...

Protein-protein interaction databases

STRINGi243275.TDE_2420

Proteomic databases

PRIDEiQ73JJ8

Genome annotation databases

EnsemblBacteriaiAAS12938; AAS12938; TDE_2420
GeneIDi2739845
KEGGitde:TDE2420
PATRICifig|243275.7.peg.2287

Phylogenomic databases

eggNOGiCOG0086, Bacteria
HOGENOMiCLU_000524_3_1_12
OMAiYRNIRVE
OrthoDBi4421at2

Enzyme and pathway databases

BioCyciTDEN243275:G1G0Q-2462-MONOMER

Family and domain databases

Gene3Di1.10.132.30, 1 hit
1.10.274.100, 1 hit
HAMAPiMF_01322, RNApol_bact_RpoC, 1 hit
InterProiView protein in InterPro
IPR012754, DNA-dir_RpoC_beta_prime
IPR000722, RNA_pol_asu
IPR006592, RNA_pol_N
IPR007080, RNA_pol_Rpb1_1
IPR007066, RNA_pol_Rpb1_3
IPR042102, RNA_pol_Rpb1_3_sf
IPR007083, RNA_pol_Rpb1_4
IPR007081, RNA_pol_Rpb1_5
IPR038120, Rpb1_funnel_sf
PfamiView protein in Pfam
PF04997, RNA_pol_Rpb1_1, 1 hit
PF00623, RNA_pol_Rpb1_2, 2 hits
PF04983, RNA_pol_Rpb1_3, 1 hit
PF05000, RNA_pol_Rpb1_4, 1 hit
PF04998, RNA_pol_Rpb1_5, 1 hit
SMARTiView protein in SMART
SM00663, RPOLA_N, 1 hit
TIGRFAMsiTIGR02386, rpoC_TIGR, 1 hit

ProtoNet; Automatic hierarchical classification of proteins

More...ProtoNeti		Search...

MobiDB: a database of protein disorder and mobility annotations

More...MobiDBi		Search...

<p>This section provides general information on the entry.<p><a href='/help/entry_information_section' target='_top'>More...</a></p>Entry informationi

<p>This subsection of the 'Entry information' section provides a mnemonic identifier for a UniProtKB entry, but it is not a stable identifier. Each reviewed entry is assigned a unique entry name upon integration into UniProtKB/Swiss-Prot.<p><a href='/help/entry_name' target='_top'>More...</a></p>Entry nameiRPOC_TREDE
<p>This subsection of the 'Entry information' section provides one or more accession number(s). These are stable identifiers and should be used to cite UniProtKB entries. Upon integration into UniProtKB, each entry is assigned a unique accession number, which is called 'Primary (citable) accession number'.<p><a href='/help/accession_numbers' target='_top'>More...</a></p>AccessioniPrimary (citable) accession number: Q73JJ8
<p>This subsection of the 'Entry information' section shows the date of integration of the entry into UniProtKB, the date of the last sequence update and the date of the last annotation modification ('Last modified'). The version number for both the entry and the <a href="http://www.uniprot.org/help/canonical%5Fand%5Fisoforms">canonical sequence</a> are also displayed.<p><a href='/help/entry_history' target='_top'>More...</a></p>Entry historyiIntegrated into UniProtKB/Swiss-Prot: March 1, 2005
Last sequence update: July 5, 2004
Last modified: December 2, 2020
This is version 98 of the entry and version 1 of the sequence. See complete history.
<p>This subsection of the 'Entry information' section indicates whether the entry has been manually annotated and reviewed by UniProtKB curators or not, in other words, if the entry belongs to the Swiss-Prot section of UniProtKB (<strong>reviewed</strong>) or to the computer-annotated TrEMBL section (<strong>unreviewed</strong>).<p><a href='/help/entry_status' target='_top'>More...</a></p>Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

<p>This section contains any relevant information that doesn't fit in any other defined sections<p><a href='/help/miscellaneous_section' target='_top'>More...</a></p>Miscellaneousi

Keywords - Technical termi

Reference proteome

Documents

  1. SIMILARITY comments
    Index of protein domains and families
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