Q54IZ9 (RPC2_DICDI) Reviewed, UniProtKB/Swiss-Prot

Names and origin

Protein names

Recommended name:
DNA-directed RNA polymerase III subunit rpc2
Short name=RNA polymerase III subunit C2
EC=2.7.7.6

Alternative name(s):
DNA-directed RNA polymerase III subunit B

Cleaved into the following chain:

1. Ddi rpc2 intein

Gene names

Name:	polr3b
Synonyms:	rpc2
ORF Names:	DDB_G0288449

Organism

Dictyostelium discoideum (Slime mold) [Reference proteome]

Taxonomic identifier

44689 [NCBI]

Taxonomic lineage

cellular organisms › Eukaryota › Amoebozoa › Mycetozoa › Dictyosteliida › Dictyostelium

Protein attributes

Sequence length	1608 AA.
Sequence status	Complete.
Sequence processing	The displayed sequence is further processed into a mature form.
Protein existence	Inferred from homology

General annotation (Comments)

Function	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 activity	Nucleoside triphosphate + RNA(n) = diphosphate + RNA(n+1).
Subunit structure	Component of the RNA polymerase III (Pol III) complex.
Subcellular location	Nucleus By similarity.
Post-translational modification	This protein undergoes a protein self splicing that involves a post-translational excision of the intervening region (intein) followed by peptide ligation Potential.
Sequence similarities	Belongs to the RNA polymerase beta chain family.

Ontologies

Keywords
Biological process	Transcription
Cellular component	DNA-directed RNA polymerase Nucleus
Domain	Zinc-finger
Ligand	Metal-binding Zinc
Molecular function	Nucleotidyltransferase Transferase
PTM	Autocatalytic cleavage Protein splicing
Technical term	Complete proteome Reference proteome
Gene Ontology (GO)
Biological_process	intein-mediated protein splicing Inferred from electronic annotation. Source: InterPro transcription from RNA polymerase I promoter Inferred from sequence or structural similarity. Source: dictyBase
Cellular_component	DNA-directed RNA polymerase I complex Inferred from sequence or structural similarity. Source: dictyBase
Molecular_function	DNA binding Inferred from electronic annotation. Source: InterPro DNA-directed RNA polymerase activity Inferred from sequence or structural similarity. Source: dictyBase metal ion binding Inferred from electronic annotation. Source: UniProtKB-KW ribonucleoside binding Inferred from electronic annotation. Source: InterPro
Complete GO annotation...

Sequence annotation (Features)

	Feature key	Position(s)	Length	Description	Graphical view	Feature identifier
Molecule processing
	Chain	1 – 505	505	DNA-directed RNA polymerase III subunit rpc2, 1st part Potential		PRO_0000328068
	Chain	506 – 969	464	Ddi rpc2 intein Potential		PRO_0000328069
	Chain	970 – 1608	639	DNA-directed RNA polymerase III subunit rpc2, 2nd part Potential		PRO_0000328070
Regions
	Zinc finger	1557 – 1572	16	C4-type
	Compositional bias	612 – 624	13	Poly-Asn
	Compositional bias	720 – 726	7	Poly-Gln
	Compositional bias	731 – 737	7	Poly-Gln
	Compositional bias	899 – 907	9	Poly-Asn
Sites
	Metal binding	1557	1	Zinc By similarity
	Metal binding	1560	1	Zinc By similarity
	Metal binding	1569	1	Zinc By similarity
	Metal binding	1572	1	Zinc By similarity

Sequences

	Sequence		Length	Mass (Da)
	Q54IZ9 [UniParc]. Last modified May 24, 2005. Version 1. Checksum: 16D3C2AC009EAF5A	FASTA	1,608	183,030
	10 20 30 40 50 60 MDPESVGYCN NPDFLHKGSM DELYNISKLT DDIKPVEEKW KLVPAFMKCR GLVKQHIDSF 70 80 90 100 110 120 NFFINVEMKK IVKANERLTA ENDPSYFVRF TDINVGSPTS TEDNLDSVQL TPQRCRLRDM 130 140 150 160 170 180 TYSAPIFVNI EYTRNKQIIS KRDVHIGNIP IMLRSSNCVL SKKTPEQMAA LGECPMDPGG 190 200 210 220 230 240 YFIVRGQEKV ILNHEQLSKN RIIIEMDSKG LPSASVTSST HERKSRTGVT LKNEKLYLKH 250 260 270 280 290 300 NTFGEDIPVA IVLKGMGVET DQEMAQLVGS DDVFLNAITP SLEECQKCGV HTAAQALDYL 310 320 330 340 350 360 GSRIKVFRRP YGVQNKKTKS EEARDILAGV VLNHVPVRRY NFRLKVIYLS LMIRRIIMAS 370 380 390 400 410 420 KDKSCLDDKD YYGNKRIELS GQLISLLFED CFKKFQSELK KSVDQAIAKA NRAENLDLPK 430 440 450 460 470 480 LIRTDTITNG FTHAISSGQW NLKRFRMERS GVSQVLSRLS YISCMGMMTR IQSQFEKTRK 490 500 510 520 530 540 VAGPRSLQPS QWGMLCPSDT PEGEACLHPD TIITMSNGQQ KPIRQLKDGD SIITLDPITM 550 560 570 580 590 600 EAHSTRIYSH FIKSSSQYGK QLLKITTITG KEIICTNDHR FLTSNGNWKQ SKDLLLNDKL 610 620 630 640 650 660 FLISSSNQLE FNNNNNENNN ENNNDIIEIL NENQLINQGV VPIKIIQELK SIELLPLLNN 670 680 690 700 710 720 NEKLITISRI IGSIDKIGSN KQNEPIIQYQ FNLISDFDQF LKDLQYLGFI NPIYKLNEEQ 730 740 750 760 770 780 QQQQQQKIDH QQQQQQQVEQ QQKSIIIDFI GSSFGYFIQS LLNEKNWIEK SNNQFVKKEF 790 800 810 820 830 840 LSSFISNVNR IQFNIIEEIN QQNNDSNFKI LLNYKQQKQQ QNEKEERAVV DHDNEIFNIK 850 860 870 880 890 900 SLQILLNQFN VISSIDFEES NLIIINSSLK KFIDLINIKF NQKLNNQIIQ IREYLNYINY 910 920 930 940 950 960 NNNNNNNEEI NIKKKDFGYF KKLKIKRNSF EIEIEKIEQL NYQDCPEISD FTTESDYHSM 970 980 990 1000 1010 1020 ISNGFVSHNC GLVKNFALMS HVTTDDSEGP LLRLAYNLGV QDILLVTGEE LNSRNAYLVL 1030 1040 1050 1060 1070 1080 LNGQIIGIHN SPDYFVTTLR KMRRAGRIRE FVSICKNKAQ QTISVACDGG RLCRPVIIVD 1090 1100 1110 1120 1130 1140 DQRPRLTQEH IEDLKDGLRT FDDFIREGII EYLDVNEEND SFLAWREAAI QPWTTHLEIE 1150 1160 1170 1180 1190 1200 PFTMLGCVAG LIPYPHHNQS PRNTYQCAMG KQAIGAIAYN QLTRIDTLLY LLVHTQRPLC 1210 1220 1230 1240 1250 1260 QTRTIDLLNW YKLPAGHNAT VAVMSYSGYD IEDALVMNKA SLDRGFGRCI VLKKQVTSIK 1270 1280 1290 1300 1310 1320 KHGNDTSDRI FPPTPNDLRQ PKYGLLDSDG IAKPGELAQK GQILVNKYSP LNTIDATPNP 1330 1340 1350 1360 1370 1380 ELIPDSAYKS SYMGYKYDNP AFIDKVLLTS GDDEQLLIKM LMRSTRRPEL GDKFSSRHGQ 1390 1400 1410 1420 1430 1440 KGVCGIIVKQ EDMPFSDLGI CPDIIMNPHG FPSRMTIGKM IELLAGKAGV LSGKFGFGTC 1450 1460 1470 1480 1490 1500 FGGDRVENIS KVLISKGFSY GGKDYVTSGV TGEPLACFIF FGPIFYQKLK HMVMDKMHAR 1510 1520 1530 1540 1550 1560 ARGPTVTLTR QPTEGRARGG GLRLGEMERD CLIGYGASAL IMERLMISSD RFTVYACKNC 1570 1580 1590 1600 GFLGYEGYCQ YCKSSVDIST IQIPYACKLL FQELQAMNIV PRLKLVDS

References

	« Hide 'large scale' referencesShow 'large scale' references »
[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.

Cross-references

Sequence databases
EMBL GenBank DDBJ	AAFI02000111 Genomic DNA. Translation: EAL63250.1.
RefSeq	XP_636731.1. XM_631639.1.
3D structure databases
HSSP	HSSP built from PDB template 1TWF based on UniProtKB P08518.
ModBase	Search...
Protein-protein interaction databases
STRING	44689.DDB_0216313.
Protocols and materials databases
StructuralBiologyKnowledgebase	Search...
Genome annotation databases
EnsemblProtists	DDB0216313; DDB0216313; DDB_G0288449.
GeneID	8626608.
KEGG	ddi:DDB_G0288449.
Organism-specific databases
dictyBase	DDB_G0288449. rpc2.
Phylogenomic databases
eggNOG	COG0085.
KO	K03021.
OMA	IRRIIMA.
Family and domain databases
Gene3D	2.40.270.10. 2 hits. 2.40.50.150. 1 hit.
InterPro	IPR015712. DNA-dir_RNA_pol_su2. IPR007120. DNA-dir_RNA_pol_su2_6. 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]
PANTHER	PTHR20856. PTHR20856. 1 hit.
Pfam	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]
SMART	SM00306. HintN. 1 hit. [Graphical view]
TIGRFAMs	TIGR01443. intein_Cterm. 1 hit. TIGR01445. intein_Nterm. 1 hit.
PROSITE	PS50818. INTEIN_C_TER. 1 hit. PS50817. INTEIN_N_TER. 1 hit. PS01166. RNA_POL_BETA. 1 hit. [Graphical view]
ProtoNet	Search...

Entry information

Entry name

RPC2_DICDI

Accession

Primary (citable) accession number: Q54IZ9

Entry history

Integrated into UniProtKB/Swiss-Prot:	April 8, 2008
Last sequence update:	May 24, 2005
Last modified:	May 1, 2013
This is version 64 of the entry and version 1 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)