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Protein

Suppressor of stem-loop protein 1

Gene

SSL1

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

Acts as component of the general transcription and DNA repair factor IIH (TFIIH) core, which is essential for both basal and activated transcription, and is involved in nucleotide excision repair (NER) of damaged DNA. TFIIH has CTD kinase and DNA-dependent ATPase activity, and is essential for polymerase II transcription in vitro. SSL1 is essential for translation initiation.2 Publications

Regions

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Zinc fingeri349 – 36618C4-typeAdd
BLAST

GO - Molecular functioni

  • 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
  • transcription from RNA polymerase II promoter Source: SGD
Complete GO annotation...

Keywords - Biological processi

DNA damage, DNA repair, Transcription, Transcription regulation

Keywords - Ligandi

Metal-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:
Suppressor of stem-loop protein 1
Alternative name(s):
General transcription and DNA repair factor IIH subunit SSL1
Short name:
TFIIH subunit SSL1
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

EuPathDBiFungiDB:YLR005W.
SGDiS000003995. SSL1.

Subcellular locationi

GO - Cellular componenti

  • core TFIIH complex Source: SGD
  • holo TFIIH complex Source: SGD
  • nucleotide-excision repair factor 3 complex Source: SGD
Complete GO annotation...

Keywords - Cellular componenti

Nucleus

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 461461Suppressor of stem-loop protein 1PRO_0000046852Add
BLAST

Proteomic databases

MaxQBiQ04673.

PTM databases

iPTMnetiQ04673.

Interactioni

Subunit structurei

Component of the TFIIH core complex, which is composed of RAD3, SSL1, SSL2, TFB1, TFB2, TFB4 and TFB5.2 Publications

Protein-protein interaction databases

BioGridi31278. 94 interactions.
DIPiDIP-2435N.
IntActiQ04673. 12 interactions.
MINTiMINT-629517.

Structurei

Secondary structure

1
461
Legend: HelixTurnBeta strand
Show more details
Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Beta strandi125 – 1317Combined sources
Helixi134 – 1374Combined sources
Beta strandi139 – 1435Combined sources
Helixi145 – 16319Combined sources
Beta strandi168 – 1758Combined sources
Beta strandi178 – 18710Combined sources
Helixi189 – 19911Combined sources
Helixi210 – 22112Combined sources
Beta strandi231 – 2366Combined sources
Helixi247 – 25610Combined sources
Beta strandi260 – 2689Combined sources
Helixi271 – 2799Combined sources
Turni280 – 2834Combined sources
Beta strandi288 – 2914Combined sources
Helixi294 – 30512Combined sources

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
4WFQX-ray2.40A119-310[»]
ProteinModelPortaliQ04673.
SMRiQ04673. Positions 119-310, 386-454.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini125 – 304180VWFAPROSITE-ProRule annotationAdd
BLAST

Sequence similaritiesi

Belongs to the GTF2H2 family.Curated
Contains 1 VWFA domain.PROSITE-ProRule annotation

Zinc finger

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Zinc fingeri349 – 36618C4-typeAdd
BLAST

Keywords - Domaini

Zinc-finger

Phylogenomic databases

GeneTreeiENSGT00490000043395.
HOGENOMiHOG000159415.
InParanoidiQ04673.
KOiK03142.
OMAiFHAPSHG.
OrthoDBiEOG092C34KH.

Family and domain databases

InterProiIPR007198. Ssl1-like.
IPR004595. TFIIH_C1-like_dom.
IPR012170. TFIIH_SSL1/p44.
IPR002035. VWF_A.
IPR007087. Znf_C2H2.
[Graphical view]
PANTHERiPTHR12695:SF2. PTHR12695:SF2. 1 hit.
PfamiPF07975. C1_4. 1 hit.
PF04056. Ssl1. 1 hit.
[Graphical view]
PIRSFiPIRSF015919. TFIIH_SSL1. 1 hit.
SMARTiSM01047. C1_4. 1 hit.
SM00327. VWA. 1 hit.
[Graphical view]
SUPFAMiSSF53300. SSF53300. 1 hit.
TIGRFAMsiTIGR00622. ssl1. 1 hit.
PROSITEiPS50234. VWFA. 1 hit.
[Graphical view]

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)LengthDescriptionGraphical viewFeature identifierActions
Sequence conflicti131 – 1311D → G in AAT92912 (PubMed:17322287).Curated

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.

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
EntryMethodResolution (Å)ChainPositionsPDBsum
4WFQX-ray2.40A119-310[»]
ProteinModelPortaliQ04673.
SMRiQ04673. Positions 119-310, 386-454.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi31278. 94 interactions.
DIPiDIP-2435N.
IntActiQ04673. 12 interactions.
MINTiMINT-629517.

PTM databases

iPTMnetiQ04673.

Proteomic databases

MaxQBiQ04673.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblFungiiYLR005W; YLR005W; YLR005W.
GeneIDi850691.
KEGGisce:YLR005W.

Organism-specific databases

EuPathDBiFungiDB:YLR005W.
SGDiS000003995. SSL1.

Phylogenomic databases

GeneTreeiENSGT00490000043395.
HOGENOMiHOG000159415.
InParanoidiQ04673.
KOiK03142.
OMAiFHAPSHG.
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

PROiQ04673.

Family and domain databases

InterProiIPR007198. Ssl1-like.
IPR004595. TFIIH_C1-like_dom.
IPR012170. TFIIH_SSL1/p44.
IPR002035. VWF_A.
IPR007087. Znf_C2H2.
[Graphical view]
PANTHERiPTHR12695:SF2. PTHR12695:SF2. 1 hit.
PfamiPF07975. C1_4. 1 hit.
PF04056. Ssl1. 1 hit.
[Graphical view]
PIRSFiPIRSF015919. TFIIH_SSL1. 1 hit.
SMARTiSM01047. C1_4. 1 hit.
SM00327. VWA. 1 hit.
[Graphical view]
SUPFAMiSSF53300. SSF53300. 1 hit.
TIGRFAMsiTIGR00622. ssl1. 1 hit.
PROSITEiPS50234. VWFA. 1 hit.
[Graphical view]
ProtoNetiSearch...

Entry informationi

Entry nameiSSL1_YEAST
AccessioniPrimary (citable) accession number: Q04673
Secondary accession number(s): D6VY07, E9P8Y6
Entry historyi
Integrated into UniProtKB/Swiss-Prot: October 1, 1993
Last sequence update: October 1, 1993
Last modified: September 7, 2016
This is version 154 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 2340 molecules/cell in log phase SD medium.1 Publication

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 XII
    Yeast (Saccharomyces cerevisiae) chromosome XII: 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.