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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

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).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
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
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 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.
InParanoidiQ54IZ9.
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 [UniParc]FASTAAdd to Basket

« Hide

        10         20         30         40         50
MDPESVGYCN NPDFLHKGSM DELYNISKLT DDIKPVEEKW KLVPAFMKCR
60 70 80 90 100
GLVKQHIDSF NFFINVEMKK IVKANERLTA ENDPSYFVRF TDINVGSPTS
110 120 130 140 150
TEDNLDSVQL TPQRCRLRDM TYSAPIFVNI EYTRNKQIIS KRDVHIGNIP
160 170 180 190 200
IMLRSSNCVL SKKTPEQMAA LGECPMDPGG YFIVRGQEKV ILNHEQLSKN
210 220 230 240 250
RIIIEMDSKG LPSASVTSST HERKSRTGVT LKNEKLYLKH NTFGEDIPVA
260 270 280 290 300
IVLKGMGVET DQEMAQLVGS DDVFLNAITP SLEECQKCGV HTAAQALDYL
310 320 330 340 350
GSRIKVFRRP YGVQNKKTKS EEARDILAGV VLNHVPVRRY NFRLKVIYLS
360 370 380 390 400
LMIRRIIMAS KDKSCLDDKD YYGNKRIELS GQLISLLFED CFKKFQSELK
410 420 430 440 450
KSVDQAIAKA NRAENLDLPK LIRTDTITNG FTHAISSGQW NLKRFRMERS
460 470 480 490 500
GVSQVLSRLS YISCMGMMTR IQSQFEKTRK VAGPRSLQPS QWGMLCPSDT
510 520 530 540 550
PEGEACLHPD TIITMSNGQQ KPIRQLKDGD SIITLDPITM EAHSTRIYSH
560 570 580 590 600
FIKSSSQYGK QLLKITTITG KEIICTNDHR FLTSNGNWKQ SKDLLLNDKL
610 620 630 640 650
FLISSSNQLE FNNNNNENNN ENNNDIIEIL NENQLINQGV VPIKIIQELK
660 670 680 690 700
SIELLPLLNN NEKLITISRI IGSIDKIGSN KQNEPIIQYQ FNLISDFDQF
710 720 730 740 750
LKDLQYLGFI NPIYKLNEEQ QQQQQQKIDH QQQQQQQVEQ QQKSIIIDFI
760 770 780 790 800
GSSFGYFIQS LLNEKNWIEK SNNQFVKKEF LSSFISNVNR IQFNIIEEIN
810 820 830 840 850
QQNNDSNFKI LLNYKQQKQQ QNEKEERAVV DHDNEIFNIK SLQILLNQFN
860 870 880 890 900
VISSIDFEES NLIIINSSLK KFIDLINIKF NQKLNNQIIQ IREYLNYINY
910 920 930 940 950
NNNNNNNEEI NIKKKDFGYF KKLKIKRNSF EIEIEKIEQL NYQDCPEISD
960 970 980 990 1000
FTTESDYHSM ISNGFVSHNC GLVKNFALMS HVTTDDSEGP LLRLAYNLGV
1010 1020 1030 1040 1050
QDILLVTGEE LNSRNAYLVL LNGQIIGIHN SPDYFVTTLR KMRRAGRIRE
1060 1070 1080 1090 1100
FVSICKNKAQ QTISVACDGG RLCRPVIIVD DQRPRLTQEH IEDLKDGLRT
1110 1120 1130 1140 1150
FDDFIREGII EYLDVNEEND SFLAWREAAI QPWTTHLEIE PFTMLGCVAG
1160 1170 1180 1190 1200
LIPYPHHNQS PRNTYQCAMG KQAIGAIAYN QLTRIDTLLY LLVHTQRPLC
1210 1220 1230 1240 1250
QTRTIDLLNW YKLPAGHNAT VAVMSYSGYD IEDALVMNKA SLDRGFGRCI
1260 1270 1280 1290 1300
VLKKQVTSIK KHGNDTSDRI FPPTPNDLRQ PKYGLLDSDG IAKPGELAQK
1310 1320 1330 1340 1350
GQILVNKYSP LNTIDATPNP ELIPDSAYKS SYMGYKYDNP AFIDKVLLTS
1360 1370 1380 1390 1400
GDDEQLLIKM LMRSTRRPEL GDKFSSRHGQ KGVCGIIVKQ EDMPFSDLGI
1410 1420 1430 1440 1450
CPDIIMNPHG FPSRMTIGKM IELLAGKAGV LSGKFGFGTC FGGDRVENIS
1460 1470 1480 1490 1500
KVLISKGFSY GGKDYVTSGV TGEPLACFIF FGPIFYQKLK HMVMDKMHAR
1510 1520 1530 1540 1550
ARGPTVTLTR QPTEGRARGG GLRLGEMERD CLIGYGASAL IMERLMISSD
1560 1570 1580 1590 1600
RFTVYACKNC GFLGYEGYCQ YCKSSVDIST IQIPYACKLL FQELQAMNIV

PRLKLVDS
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.
InParanoidi Q54IZ9.
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: October 29, 2014
This is version 75 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