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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: Annotation score: 5 out of 5-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

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
  • zinc ion binding Source: InterPro

GO - Biological processi

  • ribosome biogenesis Source: UniProtKB-KW
  • termination of RNA polymerase I transcription Source: SGD
  • transcription from RNA polymerase I promoter Source: UniProtKB
  • transcription of nuclear large rRNA transcript from RNA polymerase I promoter Source: SGD
Complete GO annotation...

Keywords - Biological processi

Ribosome biogenesis, Transcription

Keywords - Ligandi

Metal-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

GO - Cellular componenti

  • DNA-directed RNA polymerase I complex Source: UniProtKB
Complete GO annotation...

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.
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

Protein-protein interaction databases

BioGridi33820. 34 interactors.
DIPiDIP-236N.
IntActiP32529. 27 interactors.
MINTiMINT-472816.

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[»]
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

Contains 1 TFIIS-type zinc finger.PROSITE-ProRule annotation

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.
OMAiHGWRVNN.
OrthoDBiEOG092C5UXV.

Family and domain databases

InterProiIPR019761. DNA-dir_RNA_pol-M_15_CS.
IPR001529. DNA-dir_RNA_pol_M/15kDasu.
IPR012164. Rpa12/Rpb9/Rpc10/TFS.
IPR001222. Znf_TFIIS.
[Graphical view]
PfamiPF02150. RNA_POL_M_15KD. 1 hit.
PF01096. TFIIS_C. 1 hit.
[Graphical view]
PIRSFiPIRSF005586. RNApol_RpoM. 1 hit.
SMARTiSM00661. RPOL9. 1 hit.
SM00440. ZnF_C2C2. 1 hit.
[Graphical view]
PROSITEiPS01030. RNA_POL_M_15KD. 1 hit.
PS00466. ZF_TFIIS_1. 1 hit.
PS51133. ZF_TFIIS_2. 1 hit.
[Graphical view]

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.

Cross-referencesi

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.

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[»]
ProteinModelPortaliP32529.
SMRiP32529.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi33820. 34 interactors.
DIPiDIP-236N.
IntActiP32529. 27 interactors.
MINTiMINT-472816.

PTM databases

iPTMnetiP32529.

Proteomic databases

MaxQBiP32529.
PRIDEiP32529.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblFungiiYJR063W; YJR063W; YJR063W.
GeneIDi853526.
KEGGisce:YJR063W.

Organism-specific databases

EuPathDBiFungiDB:YJR063W.
SGDiS000003824. RPA12.

Phylogenomic databases

GeneTreeiENSGT00390000008126.
HOGENOMiHOG000228133.
InParanoidiP32529.
KOiK03000.
OMAiHGWRVNN.
OrthoDBiEOG092C5UXV.

Enzyme and pathway databases

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

Miscellaneous databases

PROiP32529.

Family and domain databases

InterProiIPR019761. DNA-dir_RNA_pol-M_15_CS.
IPR001529. DNA-dir_RNA_pol_M/15kDasu.
IPR012164. Rpa12/Rpb9/Rpc10/TFS.
IPR001222. Znf_TFIIS.
[Graphical view]
PfamiPF02150. RNA_POL_M_15KD. 1 hit.
PF01096. TFIIS_C. 1 hit.
[Graphical view]
PIRSFiPIRSF005586. RNApol_RpoM. 1 hit.
SMARTiSM00661. RPOL9. 1 hit.
SM00440. ZnF_C2C2. 1 hit.
[Graphical view]
PROSITEiPS01030. RNA_POL_M_15KD. 1 hit.
PS00466. ZF_TFIIS_1. 1 hit.
PS51133. ZF_TFIIS_2. 1 hit.
[Graphical view]
ProtoNetiSearch...

Entry informationi

Entry nameiRPA12_YEAST
AccessioniPrimary (citable) accession number: P32529
Secondary accession number(s): D6VWN4
Entry historyi
Integrated into UniProtKB/Swiss-Prot: October 1, 1993
Last sequence update: October 1, 1993
Last modified: November 2, 2016
This is version 153 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programFungal Protein Annotation Program

Miscellaneousi

Miscellaneous

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

Keywords - Technical termi

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

Documents

  1. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
  2. SIMILARITY comments
    Index of protein domains and families
  3. Yeast
    Yeast (Saccharomyces cerevisiae): entries, gene names and cross-references to SGD
  4. Yeast chromosome X
    Yeast (Saccharomyces cerevisiae) chromosome X: entries and gene names

Similar proteinsi

Links to similar proteins from the UniProt Reference Clusters (UniRef) at 100%, 90% and 50% sequence identity:
100%UniRef100 combines identical sequences and sub-fragments with 11 or more residues from any organism into one UniRef entry.
90%UniRef90 is built by clustering UniRef100 sequences that have at least 90% sequence identity to, and 80% overlap with, the longest sequence (a.k.a seed sequence).
50%UniRef50 is built by clustering UniRef90 seed sequences that have at least 50% sequence identity to, and 80% overlap with, the longest sequence in the cluster.