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UniProtKB - A0A325 (RPOC2_COFAR)

Entry version 41 (11 Dec 2019)
Sequence version 1 (14 Nov 2006)
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Protein

DNA-directed RNA polymerase subunit beta''

Gene

rpoC2

Organism
Coffea arabica (Arabian coffee)
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

Zn2+UniRule annotationNote: Binds 1 Zn2+ ion per subunit.UniRule annotation

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 bindingi224ZincUniRule annotation1
Metal bindingi295ZincUniRule annotation1
Metal bindingi302ZincUniRule annotation1
Metal bindingi305ZincUniRule 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
LigandMetal-binding, Zinc

<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)
Alternative name(s):
PEPUniRule annotation
Plastid-encoded RNA polymerase subunit beta''UniRule annotation
Short name:
RNA polymerase 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:rpoC2UniRule annotation
<p>This subsection of the <a href="http://www.uniprot.org/help/names%5Fand%5Ftaxonomy%5Fsection">Names and taxonomy</a> section indicates if the gene coding for the protein originates from the hydrogenosome, the mitochondrion, the nucleomorph, different plastids or a plasmid. The absence of this section means that the gene is located in one of the main chromosomal element(s).<p><a href='/help/encoded_on' target='_top'>More...</a></p>Encoded oniPlastid; Chloroplast
<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>OrganismiCoffea arabica (Arabian coffee)
<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 identifieri13443 [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 lineageiEukaryota › Viridiplantae › Streptophyta › Embryophyta › Tracheophyta › Spermatophyta › Magnoliopsida › eudicotyledons › Gunneridae › Pentapetalae › asterids › lamiids › Gentianales › Rubiaceae › Ixoroideae › Gardenieae complex › Bertiereae - Coffeeae clade › Coffeeae › Coffea

<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

Chloroplast, DNA-directed RNA polymerase, Plastid

<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_00002771871 – 1391DNA-directed RNA polymerase subunit beta''Add BLAST1391

<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

In plastids the minimal PEP RNA polymerase catalytic core is composed of four subunits: alpha, beta, beta', and beta''. When a (nuclear-encoded) sigma factor is associated with the core the holoenzyme is formed, which can initiate transcription.

UniRule annotation

<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		A0A325

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. RpoC2 subfamily.UniRule annotation

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_01324, RNApol_bact_RpoC2, 1 hit

Integrated resource of protein families, domains and functional sites

More...InterProi		View protein in InterPro
IPR012756, DNA-dir_RpoC2_beta_pp
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
PF05000, RNA_pol_Rpb1_4, 1 hit
PF04998, RNA_pol_Rpb1_5, 2 hits

TIGRFAMs; a protein family database

More...TIGRFAMsi		TIGR02388, rpoC2_cyan, 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.

A0A325-1 [UniParc]FASTAAdd to basket
« Hide
        10         20         30         40         50
MEVLMAERAN LVFHNKSIDG TAMKRLISRL IDHFGMAYTS HILDQVKTLG 
        60         70         80         90        100
FKQATATSIS LGIDDLLTIP SKGWLVQDAE QQSLILEKHH HYGNVHAVEK 
       110        120        130        140        150
LRQSIEIWYA TSEYLRQEMN PNFRMTDPFN PVHIMSFSGA RGNVSQVHQL 
       160        170        180        190        200
VGMRGLMSDP QGQMIDLPIQ SNLREGLSLT EYIISCYGAR KGVVDTAVRT 
       210        220        230        240        250
SDAGYLTRRL VEVVQHIVVR RTDCGTVRGI SVSPPNGMMP EKFFIQTLVG 
       260        270        280        290        300
RVLADDIYMG PRCIATRNQD IGIELVNRFI TFRAQPISIR TPFTCRSTSW 
       310        320        330        340        350
ICRLCYGRSP THGDLVELGE AVGIIAGQSI GEPGTQLTLR TFHTGGVFAG 
       360        370        380        390        400
GIAEHVRAPS NGKIKFNEDL VHPTRTRHGH PAFLCFIDLY VTIKSENILH 
       410        420        430        440        450
NVNIPPKSFL LVQNDQYVEA EQVIAEIRAG TSTLSFKEKV RKHIYSDSDG 
       460        470        480        490        500
EIHWSTDVYH APQFTYGNVH LLPKTSHLWI LLGGPCRSSL VSLSLHKDQD 
       510        520        530        540        550
QMNTHSLSVK RRYTYKLSVT NDRVRYKFFS SDFYGKKKNR IPDYLDLNRI 
       560        570        580        590        600
ICTGYCNRIY PAILHENSDL LSKRRRNRFI MPLQSIQERE NESPGISIEI 
       610        620        630        640        650
PINGIFRRNS ILSYFDDPRY RRKSSGITKY GTIEMHSLVK KEDLIEYRGV 
       660        670        680        690        700
KEFRPKYQMK VDRFFFIPEE VHILPGSSSI MVQNNSIIGI DTQITLNIRS 
       710        720        730        740        750
RVGGLVRVER KKKGIELKIF SGDIHFPGET DKISRHSGVL IPLPPGTGKI 
       760        770        780        790        800
NSKESKKLKN WIYVQRITPS KKGYFALVRP VITYEKRDGL NLATLFPPDL 
       810        820        830        840        850
LQERDNVRLQ VVNYILYGNG KPIRGISDTS IQLVRTCLVL NWDQDKKSSS 
       860        870        880        890        900
SEEAPASFVE IRTNGLIRHF LRIDLVKSPI SYIVKRNDPS GSGLLSDNGS 
       910        920        930        940        950
DCTNINPFSS IYSYSKARIQ QFLNPNQGTI HTLLNKNREF QSLIILLSSN 
       960        970        980        990       1000
CSRMGPFAGV KYHNVIKESI KNKKDPRISI RNSLGPLGSA PPIANFFSFS 
      1010       1020       1030       1040       1050
HLLTHNQILV TNYLQLDNIK ETFQVIKYYS MDENGKIYNP DPCNNIILNP 
      1060       1070       1080       1090       1100
LNLNWYFRHH NYCEETSTII SLGQFICENV CIAKNRPHLK PGQVIFVQVD 
      1110       1120       1130       1140       1150
SVVIRSAKPY LATPGATVHG HYGETLYEGD ILVTFIYEKS RSGDITQGLP 
      1160       1170       1180       1190       1200
KVEQILEVRS IDSISMNLQK RIEGWNKCIT RILGTPWGFL ISAELTIVQS 
      1210       1220       1230       1240       1250
QISLVNKIQK VYRSQGVQIH NKHIEIIVRQ ITSKVLISED GMSNVFSPGE 
      1260       1270       1280       1290       1300
LIGLLRAERM GRALEEAICY RAVLLGITRA SLNTQSFISE ASFQETARVL 
      1310       1320       1330       1340       1350
AKAALRGRID WLKGLKENVV LGGMIPVGTG FKGLVKPSKQ HNKALLETKK 
      1360       1370       1380       1390 
KNLFEGEMRD ILFHHRNFFD SFLLKKFHDP SEQSFIGFND S
Length:1,391
Mass (Da):157,609
Last modified:November 14, 2006 - 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:iDD51693CE052A484
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
EF044213 Genomic DNA Translation: ABJ89669.1

NCBI Reference Sequences

More...RefSeqi		YP_817472.1, NC_008535.1

Genome annotation databases

Database of genes from NCBI RefSeq genomes

More...GeneIDi		4421789

<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
EF044213 Genomic DNA Translation: ABJ89669.1
RefSeqiYP_817472.1, NC_008535.1

3D structure databases

SMRiA0A325
ModBaseiSearch...

Genome annotation databases

GeneIDi4421789

Family and domain databases

Gene3Di1.10.132.30, 1 hit
1.10.274.100, 1 hit
HAMAPiMF_01324, RNApol_bact_RpoC2, 1 hit
InterProiView protein in InterPro
IPR012756, DNA-dir_RpoC2_beta_pp
IPR042102, RNA_pol_Rpb1_3_sf
IPR007083, RNA_pol_Rpb1_4
IPR007081, RNA_pol_Rpb1_5
IPR038120, Rpb1_funnel_sf
PfamiView protein in Pfam
PF05000, RNA_pol_Rpb1_4, 1 hit
PF04998, RNA_pol_Rpb1_5, 2 hits
TIGRFAMsiTIGR02388, rpoC2_cyan, 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 nameiRPOC2_COFAR
<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: A0A325
<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: February 6, 2007
Last sequence update: November 14, 2006
Last modified: December 11, 2019
This is version 41 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 programPlant 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

Documents

  1. SIMILARITY comments
    Index of protein domains and families
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