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Protein

General transcription and DNA repair factor IIH subunit SSL1

Gene

SSL1

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

Functioni

Component of the general transcription and DNA repair factor IIH (TFIIH) core complex, which is involved in general and transcription-coupled nucleotide excision repair (NER) of damaged DNA and, when complexed to TFIIK, in RNA transcription by RNA polymerase II. In NER, TFIIH acts by opening DNA around the lesion to allow the excision of the damaged oligonucleotide and its replacement by a new DNA fragment. In transcription, TFIIH has an essential role in transcription initiation. When the pre-initiation complex (PIC) has been established, TFIIH is required for promoter opening and promoter escape. Phosphorylation of the C-terminal tail (CTD) of the largest subunit of RNA polymerase II by the kinase module TFIIK controls the initiation of transcription.4 Publications

Miscellaneous

Present with 2340 molecules/cell in log phase SD medium.1 Publication

Regions

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Zinc fingeri349 – 366C4-typeAdd BLAST18

GO - Molecular functioni

  • nucleic acid binding Source: InterPro
  • ubiquitin protein ligase activity Source: SGD
  • zinc ion binding Source: InterPro

GO - Biological processi

  • nucleotide-excision repair Source: SGD
  • phosphorylation of RNA polymerase II C-terminal domain Source: SGD
  • regulation of transcription by RNA polymerase II Source: GO_Central
  • transcription by RNA polymerase II Source: SGD

Keywordsi

Biological processDNA damage, DNA repair, Transcription, Transcription regulation
LigandMetal-binding, Zinc

Enzyme and pathway databases

BioCyciYEAST:G3O-32166-MONOMER
ReactomeiR-SCE-113418 Formation of the Early Elongation Complex
R-SCE-5696395 Formation of Incision Complex in GG-NER
R-SCE-5696400 Dual Incision in GG-NER
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-72086 mRNA Capping
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

Names & Taxonomyi

Protein namesi
Recommended name:
General transcription and DNA repair factor IIH subunit SSL1
Short name:
TFIIH subunit SSL1
Alternative name(s):
RNA polymerase II transcription factor B subunit SSL1
Short name:
TFB subunit SSL1
Suppressor of stem-loop protein 1
Gene namesi
Name:SSL1
Ordered Locus Names:YLR005W
OrganismiSaccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
Taxonomic identifieri559292 [NCBI]
Taxonomic lineageiEukaryotaFungiDikaryaAscomycotaSaccharomycotinaSaccharomycetesSaccharomycetalesSaccharomycetaceaeSaccharomyces
Proteomesi
  • UP000002311 Componenti: Chromosome XII

Organism-specific databases

SGDiS000003995 SSL1

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

Nucleus

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00000468521 – 461General transcription and DNA repair factor IIH subunit SSL1Add BLAST461

Proteomic databases

MaxQBiQ04673
PaxDbiQ04673
PRIDEiQ04673

PTM databases

iPTMnetiQ04673

Interactioni

Subunit structurei

Component of the 7-subunit TFIIH core complex composed of XPB/SSL2, XPD/RAD3, SSL1, TFB1, TFB2, TFB4 and TFB5, which is active in NER. The core complex associates with the 3-subunit CTD-kinase module TFIIK composed of CCL1, KIN28 and TFB3 to form the 10-subunit holoenzyme (holo-TFIIH) active in transcription.3 Publications

Protein-protein interaction databases

BioGridi31278, 471 interactors
ComplexPortaliCPX-1659 General transcription factor complex TFIIH
DIPiDIP-2435N
IntActiQ04673, 14 interactors
MINTiQ04673
STRINGi4932.YLR005W

Structurei

Secondary structure

1461
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details

3D structure databases

ProteinModelPortaliQ04673
SMRiQ04673
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Domaini125 – 304VWFAPROSITE-ProRule annotationAdd BLAST180

Sequence similaritiesi

Belongs to the GTF2H2 family.Curated

Zinc finger

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Zinc fingeri349 – 366C4-typeAdd BLAST18

Keywords - Domaini

Zinc-finger

Phylogenomic databases

GeneTreeiENSGT00490000043395
HOGENOMiHOG000159415
InParanoidiQ04673
KOiK03142
OMAiDCDIFIH
OrthoDBiEOG092C34KH

Family and domain databases

CDDicd01453 vWA_transcription_factor_IIH_t, 1 hit
Gene3Di3.30.40.10, 1 hit
3.40.50.410, 1 hit
InterProiView protein in InterPro
IPR007198 Ssl1-like
IPR004595 TFIIH_C1-like_dom
IPR012170 TFIIH_SSL1/p44
IPR002035 VWF_A
IPR036465 vWFA_dom_sf
IPR013087 Znf_C2H2_type
IPR013083 Znf_RING/FYVE/PHD
PANTHERiPTHR12695 PTHR12695, 1 hit
PfamiView protein in Pfam
PF07975 C1_4, 1 hit
PF04056 Ssl1, 1 hit
PIRSFiPIRSF015919 TFIIH_SSL1, 1 hit
SMARTiView protein in SMART
SM01047 C1_4, 1 hit
SM00327 VWA, 1 hit
SUPFAMiSSF53300 SSF53300, 1 hit
TIGRFAMsiTIGR00622 ssl1, 1 hit
PROSITEiView protein in PROSITE
PS50234 VWFA, 1 hit

Sequencei

Sequence statusi: Complete.

Q04673-1 [UniParc]FASTAAdd to basket
« Hide
        10         20         30         40         50
MAPVVISESE EDEDRVAITR RTKRQVHFDG EGDDRVDQQQ QQHSSSHRDR
60 70 80 90 100
DKHVQRKKKK RLSNRNLQGS NGGYAWEDEI KRSWDLVKVD DEGDMASLVA
110 120 130 140 150
SIVEARKKRT AKKNITPYQR GIIRSLILTL DCSEAMLEKD LRPNRHAMII
160 170 180 190 200
QYAIDFVHEF FDQNPISQMG IIIMRNGLAQ LVSQVSGNPQ DHIDALKSIR
210 220 230 240 250
KQEPKGNPSL QNALEMARGL LLPVPAHCTR EVLIVFGSLS TTDPGDIHQT
260 270 280 290 300
IDSLVSEKIR VKVLGLSAQV AICKELCKAT NYGDESFYKI LLDETHLKEL
310 320 330 340 350
FNEAVTPLPV NKINKGFTLV KMGFPTRIFE DTPTFCSCHS KLVYGGYFCP
360 370 380 390 400
NCHSKVCSLP TVCPCCDLML ILSTHLARSY HHLMPLKTFA EVPTTEKFRS
410 420 430 440 450
EDCFSCQSRF PILKNHKNGK LLTSSRYRCE DCKQEFCVDC DVFIHEILHN
460
CPGCESKPVI T
Length:461
Mass (Da):52,290
Last modified:October 1, 1993 - v1
Checksum:i57ADCB630B790B4F
GO

Experimental Info

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Sequence conflicti131D → G in AAT92912 (PubMed:17322287).Curated1

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
Z17385 Genomic DNA Translation: CAA78992.1
Z73177 Genomic DNA Translation: CAA97527.1
AY692893 Genomic DNA Translation: AAT92912.1
L26523 Genomic DNA Translation: AAA35101.1
BK006945 Genomic DNA Translation: DAA09323.1
PIRiA46394
RefSeqiNP_013105.1, NM_001181892.1

Genome annotation databases

EnsemblFungiiYLR005W; YLR005W; YLR005W
GeneIDi850691
KEGGisce:YLR005W

Similar proteinsi

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
Z17385 Genomic DNA Translation: CAA78992.1
Z73177 Genomic DNA Translation: CAA97527.1
AY692893 Genomic DNA Translation: AAT92912.1
L26523 Genomic DNA Translation: AAA35101.1
BK006945 Genomic DNA Translation: DAA09323.1
PIRiA46394
RefSeqiNP_013105.1, NM_001181892.1

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
4WFQX-ray2.40A119-310[»]
5OQJelectron microscopy4.7061-461[»]
5OQMelectron microscopy5.8061-461[»]
ProteinModelPortaliQ04673
SMRiQ04673
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi31278, 471 interactors
ComplexPortaliCPX-1659 General transcription factor complex TFIIH
DIPiDIP-2435N
IntActiQ04673, 14 interactors
MINTiQ04673
STRINGi4932.YLR005W

PTM databases

iPTMnetiQ04673

Proteomic databases

MaxQBiQ04673
PaxDbiQ04673
PRIDEiQ04673

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblFungiiYLR005W; YLR005W; YLR005W
GeneIDi850691
KEGGisce:YLR005W

Organism-specific databases

SGDiS000003995 SSL1

Phylogenomic databases

GeneTreeiENSGT00490000043395
HOGENOMiHOG000159415
InParanoidiQ04673
KOiK03142
OMAiDCDIFIH
OrthoDBiEOG092C34KH

Enzyme and pathway databases

BioCyciYEAST:G3O-32166-MONOMER
ReactomeiR-SCE-113418 Formation of the Early Elongation Complex
R-SCE-5696395 Formation of Incision Complex in GG-NER
R-SCE-5696400 Dual Incision in GG-NER
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-72086 mRNA Capping
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

Miscellaneous databases

PROiPR:Q04673

Family and domain databases

CDDicd01453 vWA_transcription_factor_IIH_t, 1 hit
Gene3Di3.30.40.10, 1 hit
3.40.50.410, 1 hit
InterProiView protein in InterPro
IPR007198 Ssl1-like
IPR004595 TFIIH_C1-like_dom
IPR012170 TFIIH_SSL1/p44
IPR002035 VWF_A
IPR036465 vWFA_dom_sf
IPR013087 Znf_C2H2_type
IPR013083 Znf_RING/FYVE/PHD
PANTHERiPTHR12695 PTHR12695, 1 hit
PfamiView protein in Pfam
PF07975 C1_4, 1 hit
PF04056 Ssl1, 1 hit
PIRSFiPIRSF015919 TFIIH_SSL1, 1 hit
SMARTiView protein in SMART
SM01047 C1_4, 1 hit
SM00327 VWA, 1 hit
SUPFAMiSSF53300 SSF53300, 1 hit
TIGRFAMsiTIGR00622 ssl1, 1 hit
PROSITEiView protein in PROSITE
PS50234 VWFA, 1 hit
ProtoNetiSearch...

Entry informationi

Entry nameiSSL1_YEAST
AccessioniPrimary (citable) accession number: Q04673
Secondary accession number(s): D6VY07, E9P8Y6
Entry historyiIntegrated into UniProtKB/Swiss-Prot: October 1, 1993
Last sequence update: October 1, 1993
Last modified: November 7, 2018
This is version 174 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. SIMILARITY comments
    Index of protein domains and families
  2. Yeast chromosome XII
    Yeast (Saccharomyces cerevisiae) chromosome XII: entries and gene names
  3. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
  4. Yeast
    Yeast (Saccharomyces cerevisiae): entries, gene names and cross-references to SGD
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