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Protein

DNA-directed RNA polymerase II subunit RPB7

Gene

RPB7

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

Functioni

DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates. Component of RNA polymerase II which synthesizes mRNA precursors and many functional non-coding RNAs. Pol II is the central component of the basal RNA polymerase II transcription machinery. It is composed of mobile elements that move relative to each other. RPB7 is part of a subcomplex with RPB4 that binds to a pocket formed by RPB1, RPB2 and RPB6 at the base of the clamp element. The RBP4-RPB7 subcomplex seems to lock the clamp via RPB7 in the closed conformation thus preventing double-stranded DNA to enter the active site cleft. The RPB4-RPB7 subcomplex binds single-stranded DNA and RNA. The RPB4-RPB7 subcomplex recruits FCP1 to Pol II.3 Publications

Miscellaneous

Present with 6420 molecules/cell in log phase SD medium.1 Publication

GO - Molecular functioni

  • DNA-directed 5'-3' RNA polymerase activity Source: UniProtKB-KW
  • single-stranded DNA binding Source: SGD
  • single-stranded RNA binding Source: SGD
  • translation initiation factor binding Source: SGD

GO - Biological processi

  • nuclear-transcribed mRNA catabolic process, exonucleolytic Source: SGD
  • positive regulation of nuclear-transcribed mRNA poly(A) tail shortening Source: SGD
  • positive regulation of translational initiation Source: SGD
  • transcription, RNA-templated Source: GOC
  • transcription by RNA polymerase II Source: SGD
  • transcription initiation from RNA polymerase II promoter Source: SGD

Keywordsi

Biological processTranscription

Enzyme and pathway databases

BioCyciYEAST:G3O-29948-MONOMER
ReactomeiR-SCE-113418 Formation of the Early Elongation Complex
R-SCE-674695 RNA Polymerase II Pre-transcription Events
R-SCE-6781823 Formation of TC-NER Pre-Incision Complex
R-SCE-6782135 Dual incision in TC-NER
R-SCE-6782210 Gap-filling DNA repair synthesis and ligation in TC-NER
R-SCE-6796648 TP53 Regulates Transcription of DNA Repair Genes
R-SCE-6807505 RNA polymerase II transcribes snRNA genes
R-SCE-72086 mRNA Capping
R-SCE-72165 mRNA Splicing - Minor Pathway
R-SCE-73776 RNA Polymerase II Promoter Escape
R-SCE-73779 RNA Polymerase II Transcription Pre-Initiation And Promoter Opening
R-SCE-75953 RNA Polymerase II Transcription Initiation
R-SCE-76042 RNA Polymerase II Transcription Initiation And Promoter Clearance
R-SCE-77075 RNA Pol II CTD phosphorylation and interaction with CE
R-SCE-9018519 Estrogen-dependent gene expression

Names & Taxonomyi

Protein namesi
Recommended name:
DNA-directed RNA polymerase II subunit RPB7
Short name:
RNA polymerase II subunit B7
Alternative name(s):
B16
Gene namesi
Name:RPB7
Ordered Locus Names:YDR404C
ORF Names:D9509.22
OrganismiSaccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
Taxonomic identifieri559292 [NCBI]
Taxonomic lineageiEukaryotaFungiDikaryaAscomycotaSaccharomycotinaSaccharomycetesSaccharomycetalesSaccharomycetaceaeSaccharomyces
Proteomesi
  • UP000002311 Componenti: Chromosome IV

Organism-specific databases

EuPathDBiFungiDB:YDR404C
SGDiS000002812 RPB7

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

Cytoplasm, DNA-directed RNA polymerase, Nucleus

Pathology & Biotechi

Mutagenesis

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Mutagenesisi108 – 113Missing : Lowers nucleic-acid binding of RPB4-RPB7 by 10-fold; no effect on association with Pol II core complex; abolishes transcriptional activity of Pol II. 1 Publication6
Mutagenesisi151 – 158Missing : No effect on nucleic-acid binding of RPB4-RPB7 and on association with Pol II core complex; abolishes transcriptional activity of Pol II. 1 Publication8

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00000739931 – 171DNA-directed RNA polymerase II subunit RPB7Add BLAST171

Proteomic databases

MaxQBiP34087
PaxDbiP34087
PRIDEiP34087

Interactioni

Subunit structurei

Component of the RNA polymerase II (Pol II) complex consisting of 12 subunits. RPB4 and RPB7 form a subcomplex that protrudes from the 10-subunit Pol II core complex. The RPB4-RPB7 subcomplex probably associates with TFG1. Interacts with NRD1 and PAT1.5 Publications

Binary interactionsi

WithEntry#Exp.IntActNotes
RPB4P204338EBI-15790,EBI-15777

GO - Molecular functioni

  • translation initiation factor binding Source: SGD

Protein-protein interaction databases

BioGridi32464, 316 interactors
ComplexPortaliCPX-1891 RNA polymerase II, RPB4-RPB7 subcomplex
DIPiDIP-725N
IntActiP34087, 30 interactors
MINTiP34087
STRINGi4932.YDR404C

Structurei

Secondary structure

1171
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details
Feature keyPosition(s)DescriptionActionsGraphical viewLength
Beta strandi2 – 10Combined sources9
Helixi15 – 17Combined sources3
Beta strandi19 – 21Combined sources3
Helixi22 – 34Combined sources13
Beta strandi37 – 39Combined sources3
Turni40 – 42Combined sources3
Beta strandi43 – 48Combined sources6
Helixi51 – 53Combined sources3
Beta strandi59 – 61Combined sources3
Beta strandi63 – 65Combined sources3
Beta strandi71 – 79Combined sources9
Beta strandi86 – 95Combined sources10
Beta strandi98 – 103Combined sources6
Beta strandi106 – 111Combined sources6
Helixi112 – 114Combined sources3
Beta strandi117 – 122Combined sources6
Beta strandi125 – 127Combined sources3
Beta strandi129 – 131Combined sources3
Beta strandi136 – 138Combined sources3
Beta strandi142 – 153Combined sources12
Beta strandi156 – 162Combined sources7

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
1NT9X-ray4.20G1-171[»]
1PQVX-ray3.80G1-171[»]
1WCMX-ray3.80G1-171[»]
1Y14X-ray2.30B/D1-171[»]
1Y1VX-ray3.80G1-171[»]
1Y1WX-ray4.00G1-171[»]
1Y1YX-ray4.00G1-171[»]
1Y77X-ray4.50G1-171[»]
2B63X-ray3.80G1-171[»]
2B8KX-ray4.15G1-171[»]
2JA5X-ray3.80G1-171[»]
2JA6X-ray4.00G1-171[»]
2JA7X-ray3.80G/S1-171[»]
2JA8X-ray3.80G1-171[»]
2R7ZX-ray3.80G1-171[»]
2R92X-ray3.80G1-171[»]
2R93X-ray4.00G1-171[»]
2VUMX-ray3.40G1-171[»]
3FKIX-ray3.88G1-171[»]
3H3VX-ray4.00H1-171[»]
3HOUX-ray3.20G/S1-171[»]
3HOVX-ray3.50G1-171[»]
3HOWX-ray3.60G1-171[»]
3HOXX-ray3.65G1-171[»]
3HOYX-ray3.40G1-171[»]
3HOZX-ray3.65G1-171[»]
3I4MX-ray3.70G1-171[»]
3I4NX-ray3.90G1-171[»]
3J0Kelectron microscopy36.00G1-171[»]
3J1Nelectron microscopy16.00G1-171[»]
3K1FX-ray4.30G1-171[»]
3PO2X-ray3.30G1-171[»]
3PO3X-ray3.30G1-171[»]
3QT1X-ray4.30G1-171[»]
4A3BX-ray3.50G1-171[»]
4A3CX-ray3.50G1-171[»]
4A3DX-ray3.40G1-171[»]
4A3EX-ray3.40G1-171[»]
4A3FX-ray3.50G1-171[»]
4A3GX-ray3.50G1-171[»]
4A3IX-ray3.80G1-171[»]
4A3JX-ray3.70G1-171[»]
4A3KX-ray3.50G1-171[»]
4A3LX-ray3.50G1-171[»]
4A3MX-ray3.90G1-171[»]
4A93X-ray3.40G1-171[»]
4BBRX-ray3.40G1-171[»]
4BBSX-ray3.60G1-171[»]
4BXXX-ray3.28G1-171[»]
4BXZX-ray4.80G1-171[»]
4BY1X-ray3.60G1-171[»]
4BY7X-ray3.15G1-171[»]
4V1Nelectron microscopy7.80G1-171[»]
4V1Oelectron microscopy9.70G1-171[»]
5C3EX-ray3.70G1-171[»]
5C44X-ray3.95G1-171[»]
5C4AX-ray4.20G1-171[»]
5C4XX-ray4.00G1-171[»]
5FMFelectron microscopy6.00G1-171[»]
5FYWelectron microscopy4.35G1-171[»]
5FZ5electron microscopy8.80G1-171[»]
5IP7X-ray3.52G1-171[»]
5IP9X-ray3.90G1-171[»]
5OQJelectron microscopy4.70G1-171[»]
5OQMelectron microscopy5.80G1-171[»]
5OT2X-ray3.20G1-171[»]
5SVAelectron microscopy15.30G1-171[»]
5U5QX-ray3.80G1-171[»]
5VVRelectron microscopy5.80G1-171[»]
5VVSelectron microscopy6.40G1-171[»]
ProteinModelPortaliP34087
SMRiP34087
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiP34087

Family & Domainsi

Sequence similaritiesi

Phylogenomic databases

GeneTreeiENSGT00390000008975
HOGENOMiHOG000158201
InParanoidiP34087
KOiK03015
OMAiMRQPGLG
OrthoDBiEOG092C4KGR

Family and domain databases

Gene3Di3.30.1490.120, 1 hit
InterProiView protein in InterPro
IPR012340 NA-bd_OB-fold
IPR036898 RNA_pol_Rpb7-like_N_sf
IPR005576 RNA_pol_Rpb7_N
IPR022967 S1_dom
IPR003029 S1_domain
PfamiView protein in Pfam
PF00575 S1, 1 hit
PF03876 SHS2_Rpb7-N, 1 hit
SMARTiView protein in SMART
SM00316 S1, 1 hit
SUPFAMiSSF50249 SSF50249, 1 hit
SSF88798 SSF88798, 1 hit

Sequencei

Sequence statusi: Complete.

P34087-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MFFIKDLSLN ITLHPSFFGP RMKQYLKTKL LEEVEGSCTG KFGYILCVLD
60 70 80 90 100
YDNIDIQRGR ILPTDGSAEF NVKYRAVVFK PFKGEVVDGT VVSCSQHGFE
110 120 130 140 150
VQVGPMKVFV TKHLMPQDLT FNAGSNPPSY QSSEDVITIK SRIRVKIEGC
160 170
ISQVSSIHAI GSIKEDYLGA I
Length:171
Mass (Da):19,058
Last modified:February 1, 1994 - v1
Checksum:i44C85603A93CDE67
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
S59775 Genomic DNA Translation: AAC60558.1
U32274 Genomic DNA Translation: AAB64844.1
BK006938 Genomic DNA Translation: DAA12246.1
PIRiS30140
RefSeqiNP_010692.3, NM_001180712.3

Genome annotation databases

EnsemblFungiiYDR404C; YDR404C; YDR404C
GeneIDi852013
KEGGisce:YDR404C

Similar proteinsi

Entry informationi

Entry nameiRPB7_YEAST
AccessioniPrimary (citable) accession number: P34087
Secondary accession number(s): D6VT36
Entry historyiIntegrated into UniProtKB/Swiss-Prot: February 1, 1994
Last sequence update: February 1, 1994
Last modified: June 20, 2018
This is version 172 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, 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 IV
    Yeast (Saccharomyces cerevisiae) chromosome IV: entries and gene names

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