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Protein

DNA-directed RNA polymerase I subunit RPA12

Gene

RPA12

Organism
Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
Status
Reviewed-Annotation score: -Experimental evidence at protein leveli

Functioni

DNA-dependent RNA polymerases catalyze the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates. Component of RNA polymerase I (Pol I) which synthesizes ribosomal RNA precursors. Besides, RNA polymerase I has intrinsic RNA cleavage activity. Proposed to contribute to the polymerase catalytic activity and form the polymerase active center together with the two largest subunits. Subunit RPA12 contributes a catalytic zinc ribbon that is required for RNA cleavage by Pol I. Involved in transcriptional termination.4 Publications

Miscellaneous

Present with 8450 molecules/cell in log phase SD medium.1 Publication

Regions

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Zinc fingeri10 – 33C4-typeAdd BLAST24
Zinc fingeri82 – 122TFIIS-typePROSITE-ProRule annotation2 PublicationsAdd BLAST41

GO - Molecular functioni

  • nucleic acid binding Source: InterPro
  • RNA polymerase I activity Source: UniProtKB
  • RNA polymerase II sequence-specific DNA binding transcription factor binding Source: SGD
  • zinc ion binding Source: InterPro

GO - Biological processi

  • mRNA cleavage Source: InterPro
  • negative regulation of transcription by RNA polymerase II Source: SGD
  • nucleolar large rRNA transcription by RNA polymerase I Source: SGD
  • ribosome biogenesis Source: UniProtKB-KW
  • termination of RNA polymerase I transcription Source: SGD
  • transcription by RNA polymerase I Source: UniProtKB

Keywordsi

Biological processRibosome biogenesis, Transcription
LigandMetal-binding, Zinc

Enzyme and pathway databases

BioCyciYEAST:G3O-31696-MONOMER
ReactomeiR-SCE-73762 RNA Polymerase I Transcription Initiation

Names & Taxonomyi

Protein namesi
Recommended name:
DNA-directed RNA polymerase I subunit RPA12
Alternative name(s):
A12
A12.2
DNA-directed RNA polymerase I 13.7 kDa polypeptide
Gene namesi
Name:RPA12
Synonyms:RRN4
Ordered Locus Names:YJR063W
ORF Names:J1747
OrganismiSaccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
Taxonomic identifieri559292 [NCBI]
Taxonomic lineageiEukaryotaFungiDikaryaAscomycotaSaccharomycotinaSaccharomycetesSaccharomycetalesSaccharomycetaceaeSaccharomyces
Proteomesi
  • UP000002311 Componenti: Chromosome X

Organism-specific databases

EuPathDBiFungiDB:YJR063W
SGDiS000003824 RPA12

Subcellular locationi

Extracellular region or secreted Cytosol Plasma membrane Cell wall Cytoskeleton Vacuole Endosome Peroxisome ER Golgi apparatus Nucleus Mitochondrion Manual annotation Automatic computational assertionGraphics by Christian Stolte; Source: COMPARTMENTS

Keywords - Cellular componenti

DNA-directed RNA polymerase, Nucleus

Pathology & Biotechi

Mutagenesis

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Mutagenesisi10C → S: Severe growth defect. 1 Publication1
Mutagenesisi13C → S: No effect. 1 Publication1
Mutagenesisi30C → S: Limited growth defect. 1 Publication1
Mutagenesisi33C → S: No effect. 1 Publication1

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00001214651 – 125DNA-directed RNA polymerase I subunit RPA12Add BLAST125

Proteomic databases

MaxQBiP32529
PaxDbiP32529
PRIDEiP32529

PTM databases

iPTMnetiP32529

Interactioni

Subunit structurei

Component of the RNA polymerase I (Pol I) complex consisting of 14 subunits: RPA135, RPA190, RPC40, RPA14, RPB5, RPO26, RPA43, RPB8, RPA12, RPB10, RPC19, RPC10, RPA49 and RPA34. The complex is composed of a horseshoe-shaped core containing ten subunits (RPA135, RPA190, RPB5, RPO26, RPB8, RPB10, RPC10, RPA12, RPC19 and RPC40) where RPA135 and RPA190 form the DNA-binding cleft. Outside of the core, RPA14 and RPA43 form the stalk that mediates interactions with transcription initiation factors and newly synthesized RNA. Interacts with RPA2/RPA135. Peripheral subunit that binds the catalytic zinc ion that is required for RNA cleavage. The heterodimer formed by RPA34 and RPA49 stabilizes subunit RPA12 and stimulates RPA12-dependent RNA cleavage. Involved in the recruitment of RPA49 to Pol I.5 Publications

Binary interactionsi

Show more details

GO - Molecular functioni

Protein-protein interaction databases

BioGridi3382039 interactors.
DIPiDIP-236N
IntActiP32529 32 interactors.
MINTiP32529
STRINGi4932.YJR063W

Structurei

Secondary structure

1125
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details
Feature keyPosition(s)DescriptionActionsGraphical viewLength
Beta strandi7 – 9Combined sources3
Beta strandi11 – 13Combined sources3
Helixi20 – 22Combined sources3
Beta strandi24 – 29Combined sources6
Turni31 – 33Combined sources3
Beta strandi36 – 39Combined sources4
Beta strandi47 – 50Combined sources4
Helixi53 – 55Combined sources3
Helixi59 – 63Combined sources5
Beta strandi65 – 67Combined sources3
Beta strandi79 – 83Combined sources5
Turni87 – 89Combined sources3
Beta strandi92 – 99Combined sources8
Beta strandi104 – 106Combined sources3
Beta strandi109 – 114Combined sources6
Turni115 – 117Combined sources3
Beta strandi120 – 123Combined sources4

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
4C2MX-ray2.80I/X1-125[»]
4C3HX-ray3.27I1-125[»]
4C3IX-ray3.0I1-125[»]
4C3JX-ray3.35I1-125[»]
4YM7X-ray5.50AI/BI/CI/DI/EI/FI1-125[»]
5G5Lelectron microscopy4.80I1-125[»]
5LMXelectron microscopy4.90I1-125[»]
5M3Felectron microscopy3.80I1-125[»]
5M3Melectron microscopy4.00I1-125[»]
5M5Welectron microscopy3.80I1-125[»]
5M5Xelectron microscopy4.00I1-125[»]
5M5Yelectron microscopy4.00I1-125[»]
5M64electron microscopy4.60I1-125[»]
5N5Yelectron microscopy7.70I1-125[»]
5N5Zelectron microscopy7.70I1-125[»]
5N60electron microscopy7.70I1-125[»]
5N61electron microscopy3.40I1-125[»]
5OA1electron microscopy4.40I1-125[»]
5W5Yelectron microscopy3.80I1-125[»]
5W64electron microscopy4.20I1-125[»]
5W65electron microscopy4.30I1-125[»]
5W66electron microscopy3.90I1-125[»]
ProteinModelPortaliP32529
SMRiP32529
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Region

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Regioni1 – 69Necessary and sufficient for recruitment into Pol IAdd BLAST69
Regioni1 – 60Interaction with RPA21 PublicationAdd BLAST60
Regioni79 – 125Required for RNA cleavage, but not essential for elongation activityAdd BLAST47

Sequence similaritiesi

Zinc finger

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Zinc fingeri10 – 33C4-typeAdd BLAST24
Zinc fingeri82 – 122TFIIS-typePROSITE-ProRule annotation2 PublicationsAdd BLAST41

Keywords - Domaini

Zinc-finger

Phylogenomic databases

GeneTreeiENSGT00390000008126
HOGENOMiHOG000228133
InParanoidiP32529
KOiK03000
OMAiVFYTCTS
OrthoDBiEOG092C5UXV

Family and domain databases

CDDicd10507 Zn-ribbon_RPA12, 1 hit
InterProiView protein in InterPro
IPR019761 DNA-dir_RNA_pol-M_15_CS
IPR001529 DNA-dir_RNA_pol_M/15kDasu
IPR012164 Rpa12/Rpb9/Rpc10/TFS
IPR034004 Zn_ribbon_RPA12_C
IPR001222 Znf_TFIIS
PfamiView protein in Pfam
PF02150 RNA_POL_M_15KD, 1 hit
PF01096 TFIIS_C, 1 hit
PIRSFiPIRSF005586 RNApol_RpoM, 1 hit
SMARTiView protein in SMART
SM00661 RPOL9, 1 hit
SM00440 ZnF_C2C2, 1 hit
PROSITEiView protein in PROSITE
PS01030 RNA_POL_M_15KD, 1 hit
PS00466 ZF_TFIIS_1, 1 hit
PS51133 ZF_TFIIS_2, 1 hit

Sequencei

Sequence statusi: Complete.

P32529-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MSVVGSLIFC LDCGDLLENP NAVLGSNVEC SQCKAIYPKS QFSNLKVVTT
60 70 80 90 100
TADDAFPSSL RAKKSVVKTS LKKNELKDGA TIKEKCPQCG NEEMNYHTLQ
110 120
LRSADEGATV FYTCTSCGYK FRTNN
Length:125
Mass (Da):13,661
Last modified:October 1, 1993 - v1
Checksum:iD79372070819987C
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
L00708 Genomic DNA Translation: AAA34992.1
L35564 Genomic DNA Translation: AAB59319.1
Z49563 Genomic DNA Translation: CAA89591.1
L47993 Genomic DNA Translation: AAB39289.1
AY558313 Genomic DNA Translation: AAS56639.1
BK006943 Genomic DNA Translation: DAA08850.1
PIRiA48107
RefSeqiNP_012597.1, NM_001181721.1

Genome annotation databases

EnsemblFungiiYJR063W; YJR063W; YJR063W
GeneIDi853526
KEGGisce:YJR063W

Similar proteinsi

Entry informationi

Entry nameiRPA12_YEAST
AccessioniPrimary (citable) accession number: P32529
Secondary accession number(s): D6VWN4
Entry historyiIntegrated into UniProtKB/Swiss-Prot: October 1, 1993
Last sequence update: October 1, 1993
Last modified: March 28, 2018
This is version 165 of the entry and version 1 of the sequence. See complete history.
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programFungal Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

3D-structure, Complete proteome, Direct protein sequencing, Reference proteome