P22139 (RPAB5_YEAST) Reviewed, UniProtKB/Swiss-Prot

Names and origin

Protein names

Recommended name:
DNA-directed RNA polymerases I, II, and III subunit RPABC5
Short name=RNA polymerases I, II, and III subunit ABC5

Alternative name(s):
ABC10-beta
ABC8
DNA-directed RNA polymerases I, II, and III 8.3 kDa polypeptide

Gene names

Name:	RPB10
Ordered Locus Names:	YOR210W

Organism

Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast) [Reference proteome]

Taxonomic identifier

559292 [NCBI]

Taxonomic lineage

cellular organisms › Eukaryota › Opisthokonta › Fungi › Dikarya › Ascomycota › saccharomyceta › Saccharomycotina › Saccharomycetes › Saccharomycetales › Saccharomycetaceae › Saccharomyces › Saccharomyces cerevisiae

Protein attributes

Sequence length	70 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. Common component of RNA polymerases I, II and III which synthesize ribosomal RNA precursors, mRNA precursors and many functional non-coding RNAs, and a small RNAs, such as 5S rRNA and tRNAs, respectively. Pol II is the central component of the basal RNA polymerase II transcription machinery. Pols are composed of mobile elements that move relative to each other. In Pol II, RBP10 is part of the core element with the central large cleft.
Subunit structure	Component of the RNA polymerase I (Pol I), RNA polymerase II (Pol II) and RNA polymerase III (Pol III) complexes consisting of 14, 12 and 17 subunits, respectively.
Subcellular location	Nucleus › nucleolus Ref.8.
Miscellaneous	Present with 5300 molecules/cell in log phase SD medium.
Sequence similarities	Belongs to the archaeal RpoN/eukaryotic RPB10 RNA polymerase subunit family.

Ontologies

Keywords
Biological process	Transcription
Cellular component	DNA-directed RNA polymerase Nucleus
Ligand	Metal-binding Zinc
Technical term	3D-structure Complete proteome Direct protein sequencing Reference proteome
Gene Ontology (GO)
Biological_process	transcription from RNA polymerase I promoter Inferred from mutant phenotype PubMed 10085073. Source: SGD transcription from RNA polymerase II promoter Inferred from mutant phenotype PubMed 17179178. Source: SGD transcription from RNA polymerase III promoter Inferred by curator PubMed 1748681. Source: SGD
Cellular_component	DNA-directed RNA polymerase I complex Inferred from direct assay PubMed 1748681PubMed 9837969. Source: SGD DNA-directed RNA polymerase II, core complex Inferred from direct assay PubMed 1331084PubMed 1748681. Source: SGD DNA-directed RNA polymerase III complex Inferred from direct assay PubMed 10611227PubMed 1748681. Source: SGD
Molecular_function	DNA binding Inferred from electronic annotation. Source: InterPro DNA-directed RNA polymerase activity Inferred from electronic annotation. Source: UniProtKB-KW zinc ion binding Inferred from electronic annotation. Source: InterPro
Complete GO annotation...

Binary interactions

With	Entry	#Exp.	IntAct	Notes
RBA50	Q04418	1	EBI-15802,EBI-38743

Sequence annotation (Features)

Feature key

Position(s)

Length

Description

Graphical view

Feature identifier

Molecule processing

Chain

1 – 70

70

DNA-directed RNA polymerases I, II, and III subunit RPABC5

PRO_0000121342

Sites

Metal binding

7

1

Zinc By similarity

Metal binding

10

1

Zinc By similarity

Metal binding

44

1

Zinc By similarity

Metal binding

45

1

Zinc By similarity

Secondary structure

1

.

.

.

.

.

.

.

.

.

.

.

.

.

70

Helix Strand Turn

Details...

Turn

8 – 10

3

Helix

15 – 17

3

Helix

18 – 26

9

Turn

27 – 29

3

Helix

32 – 38

7

Helix

44 – 51

8

Helix

57 – 61

5

Sequences

	Sequence		Length	Mass (Da)
	P22139 [UniParc]. Last modified October 1, 1993. Version 2. Checksum: E1F5733E8F466BE0	FASTA	70	8,278
	10 20 30 40 50 60 MIVPVRCFSC GKVVGDKWES YLNLLQEDEL DEGTALSRLG LKRYCCRRMI LTHVDLIEKF 70 LRYNPLEKRD

References

	« Hide 'large scale' referencesShow 'large scale' references »
[1]	"RNA polymerase II subunit RPB10 is essential for yeast cell viability." Woychik N.A., Young R.A. J. Biol. Chem. 265:17816-17819(1990) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA], PROTEIN SEQUENCE OF 1-27.
[2]	Erratum Woychik N.A., Young R.A. J. Biol. Chem. 268:12230-12230(1993) [PubMed] [Europe PMC] [Abstract] Cited for: SEQUENCE REVISION.
[3]	"Interactions between three common subunits of yeast RNA polymerases I and III." Lalo D., Carles C., Sentenac A., Thuriaux P. Proc. Natl. Acad. Sci. U.S.A. 90:5524-5528(1993) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA]. Strain: ATCC 28383 / FL100 / VTT C-80102.
[4]	"The nucleotide sequence of Saccharomyces cerevisiae chromosome XV." Dujon B., Albermann K., Aldea M., Alexandraki D., Ansorge W., Arino J., Benes V., Bohn C., Bolotin-Fukuhara M., Bordonne R., Boyer J., Camasses A., Casamayor A., Casas C., Cheret G., Cziepluch C., Daignan-Fornier B., Dang V.-D. , de Haan M., Delius H., Durand P., Fairhead C., Feldmann H., Gaillon L., Galisson F., Gamo F.-J., Gancedo C., Goffeau A., Goulding S.E., Grivell L.A., Habbig B., Hand N.J., Hani J., Hattenhorst U., Hebling U., Hernando Y., Herrero E., Heumann K., Hiesel R., Hilger F., Hofmann B., Hollenberg C.P., Hughes B., Jauniaux J.-C., Kalogeropoulos A., Katsoulou C., Kordes E., Lafuente M.J., Landt O., Louis E.J., Maarse A.C., Madania A., Mannhaupt G., Marck C., Martin R.P., Mewes H.-W., Michaux G., Paces V., Parle-McDermott A.G., Pearson B.M., Perrin A., Pettersson B., Poch O., Pohl T.M., Poirey R., Portetelle D., Pujol A., Purnelle B., Ramezani Rad M., Rechmann S., Schwager C., Schweizer M., Sor F., Sterky F., Tarassov I.A., Teodoru C., Tettelin H., Thierry A., Tobiasch E., Tzermia M., Uhlen M., Unseld M., Valens M., Vandenbol M., Vetter I., Vlcek C., Voet M., Volckaert G., Voss H., Wambutt R., Wedler H., Wiemann S., Winsor B., Wolfe K.H., Zollner A., Zumstein E., Kleine K. Nature 387:98-102(1997) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]. Strain: ATCC 96604 / S288c / FY1679.
[5]	Saccharomyces Genome Database Submitted (DEC-2009) to the EMBL/GenBank/DDBJ databases Cited for: GENOME REANNOTATION. Strain: ATCC 204508 / S288c.
[6]	"Approaching a complete repository of sequence-verified protein-encoding clones for Saccharomyces cerevisiae." Hu Y., Rolfs A., Bhullar B., Murthy T.V.S., Zhu C., Berger M.F., Camargo A.A., Kelley F., McCarron S., Jepson D., Richardson A., Raphael J., Moreira D., Taycher E., Zuo D., Mohr S., Kane M.F., Williamson J. , Simpson A.J.G., Bulyk M.L., Harlow E., Marsischky G., Kolodner R.D., LaBaer J. Genome Res. 17:536-543(2007) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA]. Strain: ATCC 204508 / S288c.
[7]	"The yeast RNA polymerase III transcription machinery: a paradigm for eukaryotic gene activation." Chedin S., Ferri M.L., Peyroche G., Andrau J.-C., Jourdain S., Lefebvre O., Werner M., Carles C., Sentenac A. Cold Spring Harb. Symp. Quant. Biol. 63:381-389(1998) [PubMed] [Europe PMC] [Abstract] Cited for: REVIEW ON THE RNA POL III COMPLEX.
[8]	"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] [Europe PMC] [Abstract] Cited for: SUBCELLULAR LOCATION [LARGE SCALE ANALYSIS].
[9]	"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] [Europe PMC] [Abstract] Cited for: LEVEL OF PROTEIN EXPRESSION [LARGE SCALE ANALYSIS].
[10]	"RNA polymerase II/TFIIF structure and conserved organization of the initiation complex." Chung W.H., Craighead J.L., Chang W.H., Ezeokonkwo C., Bareket-Samish A., Kornberg R.D., Asturias F.J. Mol. Cell 12:1003-1013(2003) [PubMed] [Europe PMC] [Abstract] Cited for: ELECTRON MICROSCOPY OF THE RNA POL II/TFIIF COMPLEX.
[11]	"Structural basis of transcription: RNA polymerase II at 2.8 A resolution." Cramer P., Bushnell D.A., Kornberg R.D. Science 292:1863-1876(2001) [PubMed] [Europe PMC] [Abstract] Cited for: X-RAY CRYSTALLOGRAPHY (2.8 ANGSTROMS) OF THE RNA POL II CORE COMPLEX.
[12]	"Structural basis of transcription: an RNA polymerase II elongation complex at 3.3 A resolution." Gnatt A.L., Cramer P., Fu J., Bushnell D.A., Kornberg R.D. Science 292:1876-1882(2001) [PubMed] [Europe PMC] [Abstract] Cited for: X-RAY CRYSTALLOGRAPHY (3.3 ANGSTROMS) OF THE RNA POL II CORE COMPLEX.
[13]	"Structural basis of transcription: alpha-amanitin-RNA polymerase II cocrystal at 2.8 A resolution." Bushnell D.A., Cramer P., Kornberg R.D. Proc. Natl. Acad. Sci. U.S.A. 99:1218-1222(2002) [PubMed] [Europe PMC] [Abstract] Cited for: X-RAY CRYSTALLOGRAPHY (2.8 ANGSTROMS) OF THE RNA POL II CORE COMPLEX IN COMPLEX WITH ALPHA-AMANITIN.
[14]	"Architecture of the RNA polymerase II-TFIIS complex and implications for mRNA cleavage." Kettenberger H., Armache K.J., Cramer P. Cell 114:347-357(2003) [PubMed] [Europe PMC] [Abstract] Cited for: X-RAY CRYSTALLOGRAPHY (3.8 ANGSTROMS) OF THE RNA POL II COMPLEX IN COMPLEX WITH DST1.
[15]	"Architecture of initiation-competent 12-subunit RNA polymerase II." Armache K.J., Kettenberger H., Cramer P. Proc. Natl. Acad. Sci. U.S.A. 100:6964-6968(2003) [PubMed] [Europe PMC] [Abstract] Cited for: X-RAY CRYSTALLOGRAPHY (4.2 ANGSTROMS) OF THE RNA POL II COMPLEX.
[16]	"Complete, 12-subunit RNA polymerase II at 4.1-A resolution: implications for the initiation of transcription." Bushnell D.A., Kornberg R.D. Proc. Natl. Acad. Sci. U.S.A. 100:6969-6973(2003) [PubMed] [Europe PMC] [Abstract] Cited for: X-RAY CRYSTALLOGRAPHY (4.1 ANGSTROMS) OF THE RNA POL II CORE COMPLEX.
[17]	"Structural basis of transcription: nucleotide selection by rotation in the RNA polymerase II active center." Westover K.D., Bushnell D.A., Kornberg R.D. Cell 119:481-489(2004) [PubMed] [Europe PMC] [Abstract] Cited for: X-RAY CRYSTALLOGRAPHY (2.3 ANGSTROMS) OF THE RNA POL II CORE COMPLEX.
[18]	"Complete RNA polymerase II elongation complex structure and its interactions with NTP and TFIIS." Kettenberger H., Armache K.J., Cramer P. Mol. Cell 16:955-965(2004) [PubMed] [Europe PMC] [Abstract] Cited for: X-RAY CRYSTALLOGRAPHY (4.5 ANGSTROMS).
[19]	"Structural basis of transcription: an RNA polymerase II-TFIIB cocrystal at 4.5 Angstroms." Bushnell D.A., Westover K.D., Davis R.E., Kornberg R.D. Science 303:983-988(2004) [PubMed] [Europe PMC] [Abstract] Cited for: X-RAY CRYSTALLOGRAPHY (4.5 ANGSTROMS) OF THE RNA POL II CORE COMPLEX.
[20]	"Structures of complete RNA polymerase II and its subcomplex, Rpb4/7." Armache K.J., Mitterweger S., Meinhart A., Cramer P. J. Biol. Chem. 280:7131-7134(2005) [PubMed] [Europe PMC] [Abstract] Cited for: X-RAY CRYSTALLOGRAPHY (3.8 ANGSTROMS) OF THE RNA POL II COMPLEX.
[21]	"Structural biology of RNA polymerase III: subcomplex C17/25 X-ray structure and 11 subunit enzyme model." Jasiak A.J., Armache K.J., Martens B., Jansen R.P., Cramer P. Mol. Cell 23:71-81(2006) [PubMed] [Europe PMC] [Abstract] Cited for: 3D-STRUCTURE MODELING OF THE POL III CORE COMPLEX.
[22]	"Structure of an RNA polymerase II-RNA inhibitor complex elucidates transcription regulation by noncoding RNAs." Kettenberger H., Eisenfuhr A., Brueckner F., Theis M., Famulok M., Cramer P. Nat. Struct. Mol. Biol. 13:44-48(2006) [PubMed] [Europe PMC] [Abstract] Cited for: X-RAY CRYSTALLOGRAPHY (3.8 ANGSTROMS) OF THE RNA POL II COMPLEX IN COMPLEX WITH INHIBITING NON-CODING RNA.
[23]	"Phasing RNA polymerase II using intrinsically bound Zn atoms: an updated structural model." Meyer P.A., Ye P., Zhang M., Suh M.H., Fu J. Structure 14:973-982(2006) [PubMed] [Europe PMC] [Abstract] Cited for: X-RAY CRYSTALLOGRAPHY (4.15 ANGSTROMS) OF THE RNA POL II COMPLEX.
+	Additional computationally mapped references.

Cross-references

Sequence databases

EMBL
GenBank
DDBJ

M60479 Genomic DNA. Translation: AAA34995.1. Sequence problems.
S62098 Genomic DNA. Translation: AAB27020.1.
L11274 Genomic DNA. Translation: AAB59318.1.
Z75118 Genomic DNA. Translation: CAA99425.1.
AY558433 Genomic DNA. Translation: AAS56759.1.
BK006948 Genomic DNA. Translation: DAA10982.1.

PIR

S48885.

RefSeq

NP_014853.3. NM_001183629.3.

3D structure databases

PDBe
RCSB PDB
PDBj

Entry	Method	Resolution (Å)	Chain	Positions	PDBsum
1I3Q	X-ray	3.10	J	1-70	[»]
1I50	X-ray	2.80	J	1-70	[»]
1I6H	X-ray	3.30	J	1-70	[»]
1K83	X-ray	2.80	J	1-70	[»]
1NIK	X-ray	4.10	J	1-70	[»]
1NT9	X-ray	4.20	J	1-70	[»]
1PQV	X-ray	3.80	J	1-70	[»]
1R5U	X-ray	4.50	J	1-70	[»]
1R9S	X-ray	4.25	J	1-70	[»]
1R9T	X-ray	3.50	J	1-70	[»]
1SFO	X-ray	3.61	J	1-70	[»]
1TWA	X-ray	3.20	J	1-70	[»]
1TWC	X-ray	3.00	J	1-70	[»]
1TWF	X-ray	2.30	J	1-70	[»]
1TWG	X-ray	3.30	J	1-70	[»]
1TWH	X-ray	3.40	J	1-70	[»]
1WCM	X-ray	3.80	J	1-70	[»]
1Y1V	X-ray	3.80	J	1-70	[»]
1Y1W	X-ray	4.00	J	1-70	[»]
1Y1Y	X-ray	4.00	J	1-70	[»]
1Y77	X-ray	4.50	J	1-70	[»]
2B63	X-ray	3.80	J	1-70	[»]
2B8K	X-ray	4.15	J	1-70	[»]
2E2H	X-ray	3.95	J	1-70	[»]
2E2I	X-ray	3.41	J	1-70	[»]
2E2J	X-ray	3.50	J	1-70	[»]
2JA5	X-ray	3.80	J	1-70	[»]
2JA6	X-ray	4.00	J	1-70	[»]
2JA7	X-ray	3.80	J/V	1-70	[»]
2JA8	X-ray	3.80	J	1-70	[»]
2NVQ	X-ray	2.90	J	1-70	[»]
2NVT	X-ray	3.36	J	1-70	[»]
2NVX	X-ray	3.60	J	1-70	[»]
2NVY	X-ray	3.40	J	1-70	[»]
2NVZ	X-ray	4.30	J	1-70	[»]
2R7Z	X-ray	3.80	J	1-70	[»]
2R92	X-ray	3.80	J	1-70	[»]
2R93	X-ray	4.00	J	1-70	[»]
2VUM	X-ray	3.40	J	1-70	[»]
2YU9	X-ray	3.40	J	1-70	[»]
3CQZ	X-ray	2.80	J	1-70	[»]
3FKI	X-ray	3.88	J	1-70	[»]
3GTG	X-ray	3.78	J	1-70	[»]
3GTJ	X-ray	3.42	J	1-70	[»]
3GTK	X-ray	3.80	J	1-70	[»]
3GTL	X-ray	3.38	J	1-70	[»]
3GTM	X-ray	3.80	J	1-70	[»]
3GTO	X-ray	4.00	J	1-70	[»]
3GTP	X-ray	3.90	J	1-70	[»]
3GTQ	X-ray	3.80	J	1-70	[»]
3H3V	X-ray	4.00	K	1-70	[»]
3HOU	X-ray	3.20	J/V	1-70	[»]
3HOV	X-ray	3.50	J	1-70	[»]
3HOW	X-ray	3.60	J	1-70	[»]
3HOX	X-ray	3.65	J	1-70	[»]
3HOY	X-ray	3.40	J	1-70	[»]
3HOZ	X-ray	3.65	J	1-70	[»]
3I4M	X-ray	3.70	J	1-70	[»]
3I4N	X-ray	3.90	J	1-70	[»]
3J1N	electron microscopy	16.00	J	1-70	[»]
3K1F	X-ray	4.30	J	1-70	[»]
3K7A	X-ray	3.80	J	1-70	[»]
3M3Y	X-ray	3.18	J	1-70	[»]
3M4O	X-ray	3.57	J	1-70	[»]
3PO2	X-ray	3.30	J	1-70	[»]
3PO3	X-ray	3.30	J	1-70	[»]
3QT1	X-ray	4.30	J	1-70	[»]
3RZD	X-ray	3.30	J	1-70	[»]
3RZO	X-ray	3.00	J	1-70	[»]
3S14	X-ray	2.85	J	1-70	[»]
3S15	X-ray	3.30	J	1-70	[»]
3S16	X-ray	3.24	J	1-70	[»]
3S17	X-ray	3.20	J	1-70	[»]
3S1M	X-ray	3.13	J	1-70	[»]
3S1N	X-ray	3.10	J	1-70	[»]
3S1Q	X-ray	3.30	J	1-70	[»]
3S1R	X-ray	3.20	J	1-70	[»]
3S2D	X-ray	3.20	J	1-70	[»]
3S2H	X-ray	3.30	J	1-70	[»]
4A3B	X-ray	3.50	J	1-70	[»]
4A3C	X-ray	3.50	J	1-70	[»]
4A3D	X-ray	3.40	J	1-70	[»]
4A3E	X-ray	3.40	J	1-70	[»]
4A3F	X-ray	3.50	J	1-70	[»]
4A3G	X-ray	3.50	J	1-70	[»]
4A3I	X-ray	3.80	J	1-70	[»]
4A3J	X-ray	3.70	J	1-70	[»]
4A3K	X-ray	3.50	J	1-70	[»]
4A3L	X-ray	3.50	J	1-70	[»]
4A3M	X-ray	3.90	J	1-70	[»]
4A93	X-ray	3.40	J	1-70	[»]
4BBR	X-ray	3.40	J	1-70	[»]
4BBS	X-ray	3.60	J	1-70	[»]

ProteinModelPortal

P22139.

SMR

P22139. Positions 1-65.

ModBase

Search...

Protein-protein interaction databases

DIP

DIP-825N.

IntAct

P22139. 16 interactions.

MINT

MINT-384345.

STRING

4932.YOR210W.

Proteomic databases

PaxDb

P22139.

PeptideAtlas

P22139.

Protocols and materials databases

StructuralBiologyKnowledgebase

Search...

Genome annotation databases

EnsemblFungi

YOR210W; YOR210W; YOR210W.

GeneID

854385.

KEGG

sce:YOR210W.
sce:YOR212W.

Organism-specific databases

CYGD

YOR210w.

SGD

S000005736. RPB10.

Phylogenomic databases

eggNOG

COG1644.

GeneTree

ENSGT00390000007087.

HOGENOM

HOG000109502.

KO

K03007.
K07972.

OMA

CRRMILT.

OrthoDB

EOG4ZGSP4.

Enzyme and pathway databases

Reactome

REACT_83470. Gene Expression.
REACT_87991. Transcription.

Gene expression databases

Genevestigator

P22139.

GermOnline

YOR210W. Saccharomyces cerevisiae.

Family and domain databases

Gene3D

1.10.10.60. 1 hit.

InterPro

IPR009057. Homeodomain-like.
IPR023580. RNA_pol_su_RPB10.
IPR020789. RNA_pol_suN_Zn-BS.
IPR000268. RNAP_N/Rpb10.
[Graphical view]

Pfam

PF01194. RNA_pol_N. 1 hit.
[Graphical view]

PIRSF

PIRSF005653. RNA_pol_N/8_sub. 1 hit.

ProDom

PD006539. RNA_pol_N/8_sub. 1 hit.
[Graphical view] [Entries sharing at least one domain]

SUPFAM

SSF46924. RNA_pol_N/8_sub. 1 hit.

PROSITE

PS01112. RNA_POL_N_8KD. 1 hit.
[Graphical view]

ProtoNet

Search...

Other

EvolutionaryTrace

P22139.

NextBio

976532.

Entry information

Entry name

RPAB5_YEAST

Accession

Primary (citable) accession number: P22139
Secondary accession number(s): D6W2R6

Entry history

Integrated into UniProtKB/Swiss-Prot:	August 1, 1991
Last sequence update:	October 1, 1993
Last modified:	May 1, 2013
This is version 137 of the entry and version 2 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation program

Fungal Protein Annotation Program