P22138 (RPA2_YEAST) Reviewed, UniProtKB/Swiss-Prot

Names and origin

Protein names

Recommended name:
DNA-directed RNA polymerase I subunit RPA135
EC=2.7.7.6

Alternative name(s):
DNA-directed RNA polymerase I 135 kDa polypeptide
Short name=A135
DNA-directed RNA polymerase I polypeptide 2
Short name=RNA polymerase I subunit 2

Gene names

Name:	RPA135
Synonyms:	RPA2, RRN2, SRP3
Ordered Locus Names:	YPR010C
ORF Names:	YP9531.03C

Organism

Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)

Taxonomic identifier

559292 [NCBI]

Taxonomic lineage

Eukaryota › Fungi › Dikarya › Ascomycota › Saccharomycotina › Saccharomycetes › Saccharomycetales › Saccharomycetaceae › Saccharomyces

Protein attributes

Sequence length	1203 AA.
Sequence status	Complete.
Protein existence	Evidence at protein level

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 I which synthesizes ribosomal RNA precursors. Proposed to contribute to the polymerase catalytic activity and forms the polymerase active center together with the largest subunit. Pol I is composed of mobile elements and RPA2 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 I (Pol I) complex consisting of 14 subunits.
Subcellular location	Nucleus › nucleolus Ref.10 Ref.11.
Miscellaneous	Three distinct zinc-containing RNA polymerases are found in eukaryotic nuclei: polymerase I for the ribosomal RNA precursor, polymerase II for the mRNA precursor, and polymerase III for 5S and tRNA genes. Present with 14100 molecules/cell in log phase SD medium. Ref.12
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	Phosphoprotein
Technical term	Complete proteome Direct protein sequencing Reference proteome
Gene Ontology (GO)
Biological process	transcription of nuclear large rRNA transcript from RNA polymerase I promoter Inferred from genetic interaction. Source: SGD
Cellular component	DNA-directed RNA polymerase I complex Inferred from direct assay. Source: SGD
Molecular function	DNA binding Inferred from electronic annotation. Source: InterPro DNA-directed RNA polymerase activity Inferred from electronic annotation. Source: UniProtKB-KW metal ion binding Inferred from electronic annotation. Source: UniProtKB-KW protein binding Inferred from physical interaction. Source: IntAct ribonucleoside binding Inferred from electronic annotation. Source: InterPro
Complete GO annotation...

Binary interactions

With	Entry	#Exp.	IntAct	Notes
RPA190	P10964	5	EBI-15736,EBI-15730

Sequence annotation (Features)

	Feature key	Position(s)	Length	Description	Graphical view	Feature identifier
Molecule processing
	Chain	1 – 1203	1203	DNA-directed RNA polymerase I subunit RPA135		PRO_0000048080
Regions
	Zinc finger	1104 – 1131	28	C4-type Potential
Amino acid modifications
	Modified residue	81	1	Phosphoserine Ref.5 Ref.6
	Modified residue	88	1	Phosphoserine Ref.5
	Modified residue	1085	1	Phosphoserine Ref.6
	Modified residue	1116	1	Phosphoserine Ref.6
Experimental info
	Mutagenesis	1104	1	C → A: No effect; when associated with A-1107; A-1128 and A-1131. Ref.10
	Mutagenesis	1107	1	C → A: Lethal. Abolishes recruitment of RPA1 to Pol I. No effect; when associated with A-1104; A-1128 and A-1131. Ref.10
	Mutagenesis	1127	1	C → R: Responsible of suppression of RPA190-5 and RPA190-1 mutations.
	Mutagenesis	1128	1	C → A: No effect; when associated with A-1104; A-1107 and A-1131. Ref.10
	Mutagenesis	1131	1	C → A: No effect; when associated with A-1104; A-1107 and A-1128. Ref.10

Sequences

	Sequence		Length	Mass (Da)
	P22138 [UniParc]. Last modified August 1, 1991. Version 1. Checksum: 72FA95B66F98C5F8	FASTA	1,203	135,742
	10 20 30 40 50 60 MSKVIKPPGQ ARTADFRTLE RESRFINPPK DKSAFPLLQE AVQPHIGSFN ALTEGPDGGL 70 80 90 100 110 120 LNLGVKDIGE KVIFDGKPLN SEDEISNSGY LGNKLSVSVE QVSIAKPMSN DGVSSAVERK 130 140 150 160 170 180 VYPSESRQRL TSYRGKLLLK LKWSVNNGEE NLFEVRDCGG LPVMLQSNRC HLNKMSPYEL 190 200 210 220 230 240 VQHKEESDEI GGYFIVNGIE KLIRMLIVQR RNHPMAIIRP SFANRGASYS HYGIQIRSVR 250 260 270 280 290 300 PDQTSQTNVL HYLNDGQVTF RFSWRKNEYL VPVVMILKAL CHTSDREIFD GIIGNDVKDS 310 320 330 340 350 360 FLTDRLELLL RGFKKRYPHL QNRTQVLQYL GDKFRVVFQA SPDQSDLEVG QEVLDRIVLV 370 380 390 400 410 420 HLGKDGSQDK FRMLLFMIRK LYSLVAGECS PDNPDATQHQ EVLLGGFLYG MILKEKIDEY 430 440 450 460 470 480 LQNIIAQVRM DINRGMAINF KDKRYMSRVL MRVNENIGSK MQYFLSTGNL VSQSGLDLQQ 490 500 510 520 530 540 VSGYTVVAEK INFYRFISHF RMVHRGSFFA QLKTTTVRKL LPESWGFLCP VHTPDGSPCG 550 560 570 580 590 600 LLNHFAHKCR ISTQQSDVSR IPSILYSLGV APASHTFAAG PSLCCVQIDG KIIGWVSHEQ 610 620 630 640 650 660 GKIIADTLRY WKVEGKTPGL PIDLEIGYVP PSTRGQYPGL YLFGGHSRML RPVRYLPLDK 670 680 690 700 710 720 EDIVGPFEQV YMNIAVTPQE IQNNVHTHVE FTPTNILSIL ANLTPFSDFN QSPRNMYQCQ 730 740 750 760 770 780 MGKQTMGTPG VALCHRSDNK LYRLQTGQTP IVKANLYDDY GMDNFPNGFN AVVAVISYTG 790 800 810 820 830 840 YDMDDAMIIN KSADERGFGY GTMYKTEKVD LALNRNRGDP ITQHFGFGND EWPKEWLEKL 850 860 870 880 890 900 DEDGLPYIGT YVEEGDPICA YFDDTLNKTK IKTYHSSEPA YIEEVNLIGD ESNKFQELQT 910 920 930 940 950 960 VSIKYRIRRT PQIGDKFSSR HGQKGVCSRK WPTIDMPFSE TGIQPDIIIN PHAFPSRMTI 970 980 990 1000 1010 1020 GMFVESLAGK AGALHGIAQD STPWIFNEDD TPADYFGEQL AKAGYNYHGN EPMYSGATGE 1030 1040 1050 1060 1070 1080 ELRADIYVGV VYYQRLRHMV NDKFQVRSTG PVNSLTMQPV KGRKRHGGIR VGEMERDALI 1090 1100 1110 1120 1130 1140 GHGTSFLLQD RLLNSSDYTQ ASVCRECGSI LTTQQSVPRI GSISTVCCRR CSMRFEDAKK 1150 1160 1170 1180 1190 1200 LLTKSEDGEK IFIDDSQIWE DGQGNKFVGG NETTTVAIPF VLKYLDSELS AMGIRLRYNV EPK

References

	« Hide 'large scale' referencesShow 'large scale' references »
[1]	"Suppressor analysis of temperature-sensitive mutations of the largest subunit of RNA polymerase I in Saccharomyces cerevisiae: a suppressor gene encodes the second-largest subunit of RNA polymerase I." Yano R., Nomura M. Mol. Cell. Biol. 11:754-764(1991) [PubMed: 1990281] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA], PROTEIN SEQUENCE OF 971-989 AND 1003-1020.
[2]	"The nucleotide sequence of Saccharomyces cerevisiae chromosome XVI." Bussey H., Storms R.K., Ahmed A., Albermann K., Allen E., Ansorge W., Araujo R., Aparicio A., Barrell B.G., Badcock K., Benes V., Botstein D., Bowman S., Brueckner M., Carpenter J., Cherry J.M., Chung E., Churcher C.M. , Coster F., Davis K., Davis R.W., Dietrich F.S., Delius H., DiPaolo T., Dubois E., Duesterhoeft A., Duncan M., Floeth M., Fortin N., Friesen J.D., Fritz C., Goffeau A., Hall J., Hebling U., Heumann K., Hilbert H., Hillier L.W., Hunicke-Smith S., Hyman R.W., Johnston M., Kalman S., Kleine K., Komp C., Kurdi O., Lashkari D., Lew H., Lin A., Lin D., Louis E.J., Marathe R., Messenguy F., Mewes H.-W., Mirtipati S., Moestl D., Mueller-Auer S., Namath A., Nentwich U., Oefner P., Pearson D., Petel F.X., Pohl T.M., Purnelle B., Rajandream M.A., Rechmann S., Rieger M., Riles L., Roberts D., Schaefer M., Scharfe M., Scherens B., Schramm S., Schroeder M., Sdicu A.-M., Tettelin H., Urrestarazu L.A., Ushinsky S., Vierendeels F., Vissers S., Voss H., Walsh S.V., Wambutt R., Wang Y., Wedler E., Wedler H., Winnett E., Zhong W.-W., Zollner A., Vo D.H., Hani J. Nature 387:103-105(1997) [PubMed: 9169875] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]. Strain: ATCC 204511 / S288c / AB972.
[3]	Saccharomyces Genome Database Submitted (DEC-2009) to the EMBL/GenBank/DDBJ databases Cited for: GENOME REANNOTATION. Strain: ATCC 204508 / S288c.
[4]	"Differential roles of phosphorylation in the formation of transcriptional active RNA polymerase I." Fath S., Milkereit P., Peyroche G., Riva M., Carles C., Tschochner H. Proc. Natl. Acad. Sci. U.S.A. 98:14334-14339(2001) [PubMed: 11717393] [Abstract] Cited for: IDENTIFICATION IN THE RNA POL I COMPLEX.
[5]	"Proteome-wide identification of in vivo targets of DNA damage checkpoint kinases." Smolka M.B., Albuquerque C.P., Chen S.H., Zhou H. Proc. Natl. Acad. Sci. U.S.A. 104:10364-10369(2007) [PubMed: 17563356] [Abstract] Cited for: PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT SER-81 AND SER-88, MASS SPECTROMETRY.
[6]	"A multidimensional chromatography technology for in-depth phosphoproteome analysis." Albuquerque C.P., Smolka M.B., Payne S.H., Bafna V., Eng J., Zhou H. Mol. Cell. Proteomics 7:1389-1396(2008) [PubMed: 18407956] [Abstract] Cited for: PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT SER-81; SER-1085 AND SER-1116, MASS SPECTROMETRY.
[7]	"Localization of the yeast RNA polymerase I-specific subunits." Bischler N., Brino L., Carles C., Riva M., Tschochner H., Mallouh V., Schultz P. EMBO J. 21:4136-4144(2002) [PubMed: 12145213] [Abstract] Cited for: ELECTRON MICROSCOPY OF THE RNA POLYMERASE I COMPLEX.
[8]	"Rpa12p, a conserved RNA polymerase I subunit with two functional domains." Van Mullem V., Landrieux E., Vandenhaute J., Thuriaux P. Mol. Microbiol. 43:1105-1113(2002) [PubMed: 11918799] [Abstract] Cited for: IDENTIFICATION IN THE RNA POL I COMPLEX.
[9]	"The A14-A43 heterodimer subunit in yeast RNA pol I and their relationship to Rpb4-Rpb7 pol II subunits." Peyroche G., Levillain E., Siaut M., Callebaut I., Schultz P., Sentenac A., Riva M., Carles C. Proc. Natl. Acad. Sci. U.S.A. 99:14670-14675(2002) [PubMed: 12407181] [Abstract] Cited for: IDENTIFICATION IN THE RNA POL I COMPLEX.
[10]	"Role of second-largest RNA polymerase I subunit Zn-binding domain in enzyme assembly." Naryshkina T., Bruning A., Gadal O., Severinov K. Eukaryot. Cell 2:1046-1052(2003) [PubMed: 14555487] [Abstract] Cited for: SUBCELLULAR LOCATION, MUTAGENESIS OF CYS-1104; CYS-1107; CYS-1128 AND CYS-1131.
[11]	"Global analysis of protein localization in budding yeast." Huh W.-K., Falvo J.V., Gerke L.C., Carroll A.S., Howson R.W., Weissman J.S., O'Shea E.K. Nature 425:686-691(2003) [PubMed: 14562095] [Abstract] Cited for: SUBCELLULAR LOCATION [LARGE SCALE ANALYSIS].
[12]	"Global analysis of protein expression in yeast." Ghaemmaghami S., Huh W.-K., Bower K., Howson R.W., Belle A., Dephoure N., O'Shea E.K., Weissman J.S. Nature 425:737-741(2003) [PubMed: 14562106] [Abstract] Cited for: LEVEL OF PROTEIN EXPRESSION [LARGE SCALE ANALYSIS].
+	Additional computationally mapped references.

Cross-references

Sequence databases
EMBL GenBank DDBJ	U31900 Genomic DNA. Translation: AAA97589.1. M62804 Genomic DNA. Translation: AAA34993.1. Z49919 Genomic DNA. Translation: CAA90154.1. Z71255 Genomic DNA. Translation: CAA95050.1. BK006949 Genomic DNA. Translation: DAA11437.1.
PIR	A39607.
RefSeq	NP_015335.1. NM_001184107.1.
3D structure databases
ProteinModelPortal	P22138.
ModBase	Search...
Protein-protein interaction databases
DIP	DIP-135N.
IntAct	P22138. 50 interactions.
MINT	MINT-423299.
STRING	P22138.
Proteomic databases
PeptideAtlas	P22138.
Protocols and materials databases
StructuralBiologyKnowledgebase	Search...
Genome annotation databases
EnsemblFungi	YPR010C; YPR010C; YPR010C.
GeneID	856119.
KEGG	sce:YPR010C.
NMPDR	fig|4932.3.peg.6469.
Organism-specific databases
CYGD	YPR010c.
SGD	S000006214. RPA135.
Phylogenomic databases
eggNOG	fuNOG04707.
GeneTree	EFGT00050000004610.
HOGENOM	HBG631122.
OMA	DYHIADV.
OrthoDB	EOG4W11N4.
Gene expression databases
ArrayExpress	P22138.
Genevestigator	P22138.
GermOnline	YPR010C. Saccharomyces cerevisiae.
Family and domain databases
InterPro	IPR015712. DNA-dir_RNA_pol_su2. IPR007120. DNA-dir_RNA_pol_su2_6. IPR007121. RNA_pol_bsu_CS. IPR007644. RNA_pol_bsu_protrusion. IPR009674. RNA_pol_Rpa2-specific. IPR007642. RNA_pol_Rpb2_2. IPR007645. RNA_pol_Rpb2_3. IPR007647. RNA_pol_Rpb2_5. IPR007641. RNA_pol_Rpb2_7. [Graphical view]
Gene3D	G3DSA:2.40.270.10. G3DSA:2.40.270.10. 2 hits.
KO	K03002.
PANTHER	PTHR20856. RNA_pol_I_sub2. 1 hit.
Pfam	PF06883. RNA_pol_Rpa2_4. 1 hit. PF04563. RNA_pol_Rpb2_1. 1 hit. PF04561. RNA_pol_Rpb2_2. 1 hit. PF04565. RNA_pol_Rpb2_3. 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]
PROSITE	PS01166. RNA_POL_BETA. 1 hit. [Graphical view]
ProtoNet	Search...
Other
NextBio	981198.

Entry information

Entry name

RPA2_YEAST

Accession

Primary (citable) accession number: P22138
Secondary accession number(s): D6W421

Entry history

Integrated into UniProtKB/Swiss-Prot:	August 1, 1991
Last sequence update:	August 1, 1991
Last modified:	December 14, 2011
This is version 113 of the entry and version 1 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation program

Fungal Protein Annotation Program