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Q54IZ9

- RPC2_DICDI

UniProt

Q54IZ9 - RPC2_DICDI

Protein

DNA-directed RNA polymerase III subunit rpc2

Gene

polr3b

Organism
Dictyostelium discoideum (Slime mold)
Status
Reviewed - Annotation score: 4 out of 5- Protein inferred from homologyi
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    • History
      Entry version 74 (01 Oct 2014)
      Sequence version 1 (24 May 2005)
      Previous versions | rss
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    Functioni

    DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates. Second largest core component of RNA polymerase III which synthesizes small RNAs, such as 5S rRNA and tRNAs. Proposed to contribute to the polymerase catalytic activity and forms the polymerase active center together with the largest subunit. Pol III is composed of mobile elements and rpc2 is part of the core element with the central large cleft and probably a clamp element that moves to open and close the cleft By similarity.By similarity

    Catalytic activityi

    Nucleoside triphosphate + RNA(n) = diphosphate + RNA(n+1).

    Sites

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Metal bindingi1557 – 15571ZincBy similarity
    Metal bindingi1560 – 15601ZincBy similarity
    Metal bindingi1569 – 15691ZincBy similarity
    Metal bindingi1572 – 15721ZincBy similarity

    Regions

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Zinc fingeri1557 – 157216C4-typeAdd
    BLAST

    GO - Molecular functioni

    1. DNA binding Source: InterPro
    2. DNA-directed RNA polymerase activity Source: dictyBase
    3. metal ion binding Source: UniProtKB-KW
    4. ribonucleoside binding Source: InterPro

    GO - Biological processi

    1. intein-mediated protein splicing Source: InterPro
    2. transcription from RNA polymerase I promoter Source: dictyBase

    Keywords - Molecular functioni

    Nucleotidyltransferase, Transferase

    Keywords - Biological processi

    Transcription

    Keywords - Ligandi

    Metal-binding, Zinc

    Enzyme and pathway databases

    ReactomeiREACT_210379. RNA Polymerase III Abortive And Retractive Initiation.
    REACT_212902. RNA Polymerase III Chain Elongation.
    REACT_213694. RNA Polymerase III Transcription Initiation From Type 1 Promoter.
    REACT_217461. RNA Polymerase III Transcription Initiation From Type 2 Promoter.
    REACT_219299. RNA Polymerase III Transcription Termination.

    Names & Taxonomyi

    Protein namesi
    Recommended name:
    DNA-directed RNA polymerase III subunit rpc2 (EC:2.7.7.6)
    Short name:
    RNA polymerase III subunit C2
    Alternative name(s):
    DNA-directed RNA polymerase III subunit B
    Cleaved into the following chain:
    Gene namesi
    Name:polr3b
    Synonyms:rpc2
    ORF Names:DDB_G0288449
    OrganismiDictyostelium discoideum (Slime mold)
    Taxonomic identifieri44689 [NCBI]
    Taxonomic lineageiEukaryotaAmoebozoaMycetozoaDictyosteliidaDictyostelium
    ProteomesiUP000002195: Chromosome 5, UP000002195: Unassembled WGS sequence

    Organism-specific databases

    dictyBaseiDDB_G0288449. rpc2.

    Subcellular locationi

    Nucleus By similarity

    GO - Cellular componenti

    1. DNA-directed RNA polymerase I complex Source: dictyBase

    Keywords - Cellular componenti

    DNA-directed RNA polymerase, Nucleus

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Chaini1 – 505505DNA-directed RNA polymerase III subunit rpc2, 1st partSequence AnalysisPRO_0000328068Add
    BLAST
    Chaini506 – 969464Ddi rpc2 inteinSequence AnalysisPRO_0000328069Add
    BLAST
    Chaini970 – 1608639DNA-directed RNA polymerase III subunit rpc2, 2nd partSequence AnalysisPRO_0000328070Add
    BLAST

    Post-translational modificationi

    This protein undergoes a protein self splicing that involves a post-translational excision of the intervening region (intein) followed by peptide ligation.Curated

    Keywords - PTMi

    Autocatalytic cleavage, Protein splicing

    Proteomic databases

    PRIDEiQ54IZ9.

    Interactioni

    Subunit structurei

    Component of the RNA polymerase III (Pol III) complex.

    Protein-protein interaction databases

    STRINGi44689.DDB_0216313.

    Family & Domainsi

    Compositional bias

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Compositional biasi612 – 62413Poly-AsnAdd
    BLAST
    Compositional biasi720 – 7267Poly-Gln
    Compositional biasi731 – 7377Poly-Gln
    Compositional biasi899 – 9079Poly-Asn

    Sequence similaritiesi

    Belongs to the RNA polymerase beta chain family.Curated

    Zinc finger

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Zinc fingeri1557 – 157216C4-typeAdd
    BLAST

    Keywords - Domaini

    Zinc-finger

    Phylogenomic databases

    eggNOGiCOG0085.
    KOiK03021.
    OMAiQIPYACK.

    Family and domain databases

    Gene3Di2.170.16.10. 2 hits.
    2.40.270.10. 2 hits.
    2.40.50.150. 1 hit.
    3.90.1110.10. 1 hit.
    InterProiIPR015712. DNA-dir_RNA_pol_su2.
    IPR007120. DNA-dir_RNA_pol_su2_6.
    IPR028992. Hedgehog/Intein_dom.
    IPR003587. Hint_dom_N.
    IPR006141. Intein_splice_site.
    IPR007121. RNA_pol_bsu_CS.
    IPR007644. RNA_pol_bsu_protrusion.
    IPR007642. RNA_pol_Rpb2_2.
    IPR007645. RNA_pol_Rpb2_3.
    IPR007646. RNA_pol_Rpb2_4.
    IPR007647. RNA_pol_Rpb2_5.
    IPR007641. RNA_pol_Rpb2_7.
    IPR014724. RNA_pol_RPB2_OB-fold.
    [Graphical view]
    PANTHERiPTHR20856. PTHR20856. 1 hit.
    PfamiPF04563. RNA_pol_Rpb2_1. 1 hit.
    PF04561. RNA_pol_Rpb2_2. 1 hit.
    PF04565. RNA_pol_Rpb2_3. 1 hit.
    PF04566. RNA_pol_Rpb2_4. 1 hit.
    PF04567. RNA_pol_Rpb2_5. 1 hit.
    PF00562. RNA_pol_Rpb2_6. 1 hit.
    PF04560. RNA_pol_Rpb2_7. 1 hit.
    [Graphical view]
    SMARTiSM00306. HintN. 1 hit.
    [Graphical view]
    SUPFAMiSSF51294. SSF51294. 2 hits.
    TIGRFAMsiTIGR01443. intein_Cterm. 1 hit.
    TIGR01445. intein_Nterm. 1 hit.
    PROSITEiPS50818. INTEIN_C_TER. 1 hit.
    PS50817. INTEIN_N_TER. 1 hit.
    PS01166. RNA_POL_BETA. 1 hit.
    [Graphical view]

    Sequencei

    Sequence statusi: Complete.

    Sequence processingi: The displayed sequence is further processed into a mature form.

    Q54IZ9-1 [UniParc]FASTAAdd to Basket

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    MDPESVGYCN NPDFLHKGSM DELYNISKLT DDIKPVEEKW KLVPAFMKCR     50
    GLVKQHIDSF NFFINVEMKK IVKANERLTA ENDPSYFVRF TDINVGSPTS 100
    TEDNLDSVQL TPQRCRLRDM TYSAPIFVNI EYTRNKQIIS KRDVHIGNIP 150
    IMLRSSNCVL SKKTPEQMAA LGECPMDPGG YFIVRGQEKV ILNHEQLSKN 200
    RIIIEMDSKG LPSASVTSST HERKSRTGVT LKNEKLYLKH NTFGEDIPVA 250
    IVLKGMGVET DQEMAQLVGS DDVFLNAITP SLEECQKCGV HTAAQALDYL 300
    GSRIKVFRRP YGVQNKKTKS EEARDILAGV VLNHVPVRRY NFRLKVIYLS 350
    LMIRRIIMAS KDKSCLDDKD YYGNKRIELS GQLISLLFED CFKKFQSELK 400
    KSVDQAIAKA NRAENLDLPK LIRTDTITNG FTHAISSGQW NLKRFRMERS 450
    GVSQVLSRLS YISCMGMMTR IQSQFEKTRK VAGPRSLQPS QWGMLCPSDT 500
    PEGEACLHPD TIITMSNGQQ KPIRQLKDGD SIITLDPITM EAHSTRIYSH 550
    FIKSSSQYGK QLLKITTITG KEIICTNDHR FLTSNGNWKQ SKDLLLNDKL 600
    FLISSSNQLE FNNNNNENNN ENNNDIIEIL NENQLINQGV VPIKIIQELK 650
    SIELLPLLNN NEKLITISRI IGSIDKIGSN KQNEPIIQYQ FNLISDFDQF 700
    LKDLQYLGFI NPIYKLNEEQ QQQQQQKIDH QQQQQQQVEQ QQKSIIIDFI 750
    GSSFGYFIQS LLNEKNWIEK SNNQFVKKEF LSSFISNVNR IQFNIIEEIN 800
    QQNNDSNFKI LLNYKQQKQQ QNEKEERAVV DHDNEIFNIK SLQILLNQFN 850
    VISSIDFEES NLIIINSSLK KFIDLINIKF NQKLNNQIIQ IREYLNYINY 900
    NNNNNNNEEI NIKKKDFGYF KKLKIKRNSF EIEIEKIEQL NYQDCPEISD 950
    FTTESDYHSM ISNGFVSHNC GLVKNFALMS HVTTDDSEGP LLRLAYNLGV 1000
    QDILLVTGEE LNSRNAYLVL LNGQIIGIHN SPDYFVTTLR KMRRAGRIRE 1050
    FVSICKNKAQ QTISVACDGG RLCRPVIIVD DQRPRLTQEH IEDLKDGLRT 1100
    FDDFIREGII EYLDVNEEND SFLAWREAAI QPWTTHLEIE PFTMLGCVAG 1150
    LIPYPHHNQS PRNTYQCAMG KQAIGAIAYN QLTRIDTLLY LLVHTQRPLC 1200
    QTRTIDLLNW YKLPAGHNAT VAVMSYSGYD IEDALVMNKA SLDRGFGRCI 1250
    VLKKQVTSIK KHGNDTSDRI FPPTPNDLRQ PKYGLLDSDG IAKPGELAQK 1300
    GQILVNKYSP LNTIDATPNP ELIPDSAYKS SYMGYKYDNP AFIDKVLLTS 1350
    GDDEQLLIKM LMRSTRRPEL GDKFSSRHGQ KGVCGIIVKQ EDMPFSDLGI 1400
    CPDIIMNPHG FPSRMTIGKM IELLAGKAGV LSGKFGFGTC FGGDRVENIS 1450
    KVLISKGFSY GGKDYVTSGV TGEPLACFIF FGPIFYQKLK HMVMDKMHAR 1500
    ARGPTVTLTR QPTEGRARGG GLRLGEMERD CLIGYGASAL IMERLMISSD 1550
    RFTVYACKNC GFLGYEGYCQ YCKSSVDIST IQIPYACKLL FQELQAMNIV 1600
    PRLKLVDS 1608
    Length:1,608
    Mass (Da):183,030
    Last modified:May 24, 2005 - v1
    Checksum:i16D3C2AC009EAF5A
    GO

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    AAFI02000111 Genomic DNA. Translation: EAL63250.1.
    RefSeqiXP_636731.1. XM_631639.1.

    Genome annotation databases

    EnsemblProtistsiDDB0216313; DDB0216313; DDB_G0288449.
    GeneIDi8626608.
    KEGGiddi:DDB_G0288449.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    AAFI02000111 Genomic DNA. Translation: EAL63250.1 .
    RefSeqi XP_636731.1. XM_631639.1.

    3D structure databases

    ModBasei Search...
    MobiDBi Search...

    Protein-protein interaction databases

    STRINGi 44689.DDB_0216313.

    Proteomic databases

    PRIDEi Q54IZ9.

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    EnsemblProtistsi DDB0216313 ; DDB0216313 ; DDB_G0288449 .
    GeneIDi 8626608.
    KEGGi ddi:DDB_G0288449.

    Organism-specific databases

    dictyBasei DDB_G0288449. rpc2.

    Phylogenomic databases

    eggNOGi COG0085.
    KOi K03021.
    OMAi QIPYACK.

    Enzyme and pathway databases

    Reactomei REACT_210379. RNA Polymerase III Abortive And Retractive Initiation.
    REACT_212902. RNA Polymerase III Chain Elongation.
    REACT_213694. RNA Polymerase III Transcription Initiation From Type 1 Promoter.
    REACT_217461. RNA Polymerase III Transcription Initiation From Type 2 Promoter.
    REACT_219299. RNA Polymerase III Transcription Termination.

    Miscellaneous databases

    PROi Q54IZ9.

    Family and domain databases

    Gene3Di 2.170.16.10. 2 hits.
    2.40.270.10. 2 hits.
    2.40.50.150. 1 hit.
    3.90.1110.10. 1 hit.
    InterProi IPR015712. DNA-dir_RNA_pol_su2.
    IPR007120. DNA-dir_RNA_pol_su2_6.
    IPR028992. Hedgehog/Intein_dom.
    IPR003587. Hint_dom_N.
    IPR006141. Intein_splice_site.
    IPR007121. RNA_pol_bsu_CS.
    IPR007644. RNA_pol_bsu_protrusion.
    IPR007642. RNA_pol_Rpb2_2.
    IPR007645. RNA_pol_Rpb2_3.
    IPR007646. RNA_pol_Rpb2_4.
    IPR007647. RNA_pol_Rpb2_5.
    IPR007641. RNA_pol_Rpb2_7.
    IPR014724. RNA_pol_RPB2_OB-fold.
    [Graphical view ]
    PANTHERi PTHR20856. PTHR20856. 1 hit.
    Pfami PF04563. RNA_pol_Rpb2_1. 1 hit.
    PF04561. RNA_pol_Rpb2_2. 1 hit.
    PF04565. RNA_pol_Rpb2_3. 1 hit.
    PF04566. RNA_pol_Rpb2_4. 1 hit.
    PF04567. RNA_pol_Rpb2_5. 1 hit.
    PF00562. RNA_pol_Rpb2_6. 1 hit.
    PF04560. RNA_pol_Rpb2_7. 1 hit.
    [Graphical view ]
    SMARTi SM00306. HintN. 1 hit.
    [Graphical view ]
    SUPFAMi SSF51294. SSF51294. 2 hits.
    TIGRFAMsi TIGR01443. intein_Cterm. 1 hit.
    TIGR01445. intein_Nterm. 1 hit.
    PROSITEi PS50818. INTEIN_C_TER. 1 hit.
    PS50817. INTEIN_N_TER. 1 hit.
    PS01166. RNA_POL_BETA. 1 hit.
    [Graphical view ]
    ProtoNeti Search...

    Publicationsi

    1. "The genome of the social amoeba Dictyostelium discoideum."
      Eichinger L., Pachebat J.A., Gloeckner G., Rajandream M.A., Sucgang R., Berriman M., Song J., Olsen R., Szafranski K., Xu Q., Tunggal B., Kummerfeld S., Madera M., Konfortov B.A., Rivero F., Bankier A.T., Lehmann R., Hamlin N.
      , Davies R., Gaudet P., Fey P., Pilcher K., Chen G., Saunders D., Sodergren E.J., Davis P., Kerhornou A., Nie X., Hall N., Anjard C., Hemphill L., Bason N., Farbrother P., Desany B., Just E., Morio T., Rost R., Churcher C.M., Cooper J., Haydock S., van Driessche N., Cronin A., Goodhead I., Muzny D.M., Mourier T., Pain A., Lu M., Harper D., Lindsay R., Hauser H., James K.D., Quiles M., Madan Babu M., Saito T., Buchrieser C., Wardroper A., Felder M., Thangavelu M., Johnson D., Knights A., Loulseged H., Mungall K.L., Oliver K., Price C., Quail M.A., Urushihara H., Hernandez J., Rabbinowitsch E., Steffen D., Sanders M., Ma J., Kohara Y., Sharp S., Simmonds M.N., Spiegler S., Tivey A., Sugano S., White B., Walker D., Woodward J.R., Winckler T., Tanaka Y., Shaulsky G., Schleicher M., Weinstock G.M., Rosenthal A., Cox E.C., Chisholm R.L., Gibbs R.A., Loomis W.F., Platzer M., Kay R.R., Williams J.G., Dear P.H., Noegel A.A., Barrell B.G., Kuspa A.
      Nature 435:43-57(2005) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
      Strain: AX4.
    2. "Multiple, non-allelic, intein-coding sequences in eukaryotic RNA polymerase genes."
      Goodwin T.J., Butler M.I., Poulter R.T.
      BMC Biol. 4:38-38(2006) [PubMed] [Europe PMC] [Abstract]
      Cited for: IDENTIFICATION OF INTEIN, NOMENCLATURE.

    Entry informationi

    Entry nameiRPC2_DICDI
    AccessioniPrimary (citable) accession number: Q54IZ9
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: April 8, 2008
    Last sequence update: May 24, 2005
    Last modified: October 1, 2014
    This is version 74 of the entry and version 1 of the sequence. [Complete history]
    Entry statusiReviewed (UniProtKB/Swiss-Prot)

    Miscellaneousi

    Keywords - Technical termi

    Complete proteome, Reference proteome

    Documents

    1. Dictyostelium discoideum
      Dictyostelium discoideum: entries, gene names and cross-references to dictyBase
    2. Intein-containing proteins
      List of intein-containing protein entries
    3. SIMILARITY comments
      Index of protein domains and families

    External Data

    Dasty 3