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Q54IZ9

- RPC2_DICDI

UniProt

Q54IZ9 - RPC2_DICDI

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Protein
DNA-directed RNA polymerase III subunit rpc2
Gene
polr3b, rpc2, DDB_G0288449
Organism
Dictyostelium discoideum (Slime mold)
Status
Reviewed - Annotation score: 4 out of 5 - Protein inferred from homologyi

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.

Catalytic activityi

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

Sites

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

Regions

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Zinc fingeri1557 – 157216C4-type
Add
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
  3. transcription from RNA polymerase III promoter Source: GOC
Complete GO annotation...

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
  2. DNA-directed RNA polymerase III complex Source: RefGenome
Complete GO annotation...

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 part Reviewed prediction
PRO_0000328068Add
BLAST
Chaini506 – 969464Ddi rpc2 intein Reviewed prediction
PRO_0000328069Add
BLAST
Chaini970 – 1608639DNA-directed RNA polymerase III subunit rpc2, 2nd part Reviewed prediction
PRO_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 Reviewed prediction.

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-Asn
Add
BLAST
Compositional biasi720 – 7267Poly-Gln
Compositional biasi731 – 7377Poly-Gln
Compositional biasi899 – 9079Poly-Asn

Sequence similaritiesi

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

« Hide 'large scale' publications
  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: September 3, 2014
This is version 73 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