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Protein

Serine/threonine-protein kinase KIN28

Gene

KIN28

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

Functioni

Catalytic component of the TFIIK complex (KIN28-CCL1 dimer) which is the protein kinase component of transcription factor IIH (TFIIH) and phosphorylates the C-terminal domain of RNA polymerase II during transition from transcription to elongation after preinitiation complex (PIC) formation, thereby positively regulating transcription. TFIIH (or factor B) is essential for both basal and activated transcription, and is involved in nucleotide excision repair (NER) of damaged DNA. TFIIH has DNA-dependent ATPase activity and is essential for polymerase II transcription in vitro. Essential for cell proliferation.1 Publication

Miscellaneous

Present with 4400 molecules/cell in log phase SD medium.1 Publication

Catalytic activityi

ATP + [DNA-directed RNA polymerase] = ADP + [DNA-directed RNA polymerase] phosphate.

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Binding sitei36ATPPROSITE-ProRule annotation1
Active sitei129Proton acceptorPROSITE-ProRule annotation1

Regions

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Nucleotide bindingi13 – 21ATPPROSITE-ProRule annotation9

GO - Molecular functioni

GO - Biological processi

Keywordsi

Molecular functionKinase, Serine/threonine-protein kinase, Transferase
Biological processCell cycle, Cell division, Transcription, Transcription regulation
LigandATP-binding, Nucleotide-binding

Enzyme and pathway databases

BioCyciYEAST:G3O-29509-MONOMER
BRENDAi2.7.11.22 984
ReactomeiR-SCE-113418 Formation of the Early Elongation Complex
R-SCE-5696395 Formation of Incision Complex 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-6807505 RNA polymerase II transcribes snRNA genes
R-SCE-69202 Cyclin E associated events during G1/S transition
R-SCE-69231 Cyclin D associated events in G1
R-SCE-69273 Cyclin A/B1/B2 associated events during G2/M transition
R-SCE-69656 Cyclin A:Cdk2-associated events at S phase entry
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:
Serine/threonine-protein kinase KIN28 (EC:2.7.11.23)
Gene namesi
Name:KIN28
Ordered Locus Names:YDL108W
ORF Names:D2330
OrganismiSaccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
Taxonomic identifieri559292 [NCBI]
Taxonomic lineageiEukaryotaFungiDikaryaAscomycotaSaccharomycotinaSaccharomycetesSaccharomycetalesSaccharomycetaceaeSaccharomyces
Proteomesi
  • UP000002311 Componenti: Chromosome IV

Organism-specific databases

EuPathDBiFungiDB:YDL108W
SGDiS000002266 KIN28

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

Pathology & Biotechi

Mutagenesis

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Mutagenesisi17 – 18TY → AF: No effect on phosphorylation; no effect on kinase activity. 1 Publication2
Mutagenesisi17T → D: Slow growth. 1 Publication1
Mutagenesisi17T → E, Q or V: Normal growth. 1 Publication1
Mutagenesisi36K → A: Slow growth. 1 Publication1
Mutagenesisi54E → Q: Non-viable. 1 Publication1
Mutagenesisi147D → N: Abolishes kinase activity. 2 Publications1
Mutagenesisi162T → A: Diminishes phosphorylation; 75-80% loss in kinase activity; no effect on survival. 3 Publications1
Mutagenesisi162T → S, D or E: No effect on kinase activity. 3 Publications1
Mutagenesisi163S → A: Normal growth. 1 Publication1

Chemistry databases

ChEMBLiCHEMBL5370

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00000861321 – 306Serine/threonine-protein kinase KIN28Add BLAST306

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Modified residuei162Phosphothreonine; by CAK3 Publications1

Post-translational modificationi

Phosphorylation of Thr-162 regulates the affinity of interaction between CCL1, KIN28 and TFB3. Thr-162 phosphorylation does not vary through the cell cycle and is necessary for full kinase activity.3 Publications

Keywords - PTMi

Phosphoprotein

Proteomic databases

MaxQBiP06242
PaxDbiP06242
PRIDEiP06242

PTM databases

iPTMnetiP06242

Interactioni

Subunit structurei

CCL1 and KIN28 form the TFIIK complex, a component of the TFIIH holo complex. Component of a complex consisting of KIN28, CCL1 and TFB3. Interacts with TFB3. Also interacts with HNT1 and HOG1.5 Publications

Binary interactionsi

WithEntry#Exp.IntActNotes
CCL1P373667EBI-9691,EBI-4385

Protein-protein interaction databases

BioGridi31954, 550 interactors
ComplexPortaliCPX-1659 General transcription factor complex TFIIH
CPX-1660 General transcription factor complex TFIIK
DIPiDIP-2259N
IntActiP06242, 13 interactors
MINTiP06242
STRINGi4932.YDL108W

Chemistry databases

BindingDBiP06242

Structurei

3D structure databases

ProteinModelPortaliP06242
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Domaini7 – 290Protein kinasePROSITE-ProRule annotationAdd BLAST284

Sequence similaritiesi

Phylogenomic databases

GeneTreeiENSGT00830000128262
HOGENOMiHOG000233024
InParanoidiP06242
KOiK02202
OMAiADIKAWM
OrthoDBiEOG092C2FL8

Family and domain databases

InterProiView protein in InterPro
IPR037770 CDK7
IPR011009 Kinase-like_dom_sf
IPR000719 Prot_kinase_dom
IPR017441 Protein_kinase_ATP_BS
IPR008271 Ser/Thr_kinase_AS
PANTHERiPTHR24056:SF0 PTHR24056:SF0, 1 hit
PfamiView protein in Pfam
PF00069 Pkinase, 1 hit
SMARTiView protein in SMART
SM00220 S_TKc, 1 hit
SUPFAMiSSF56112 SSF56112, 1 hit
PROSITEiView protein in PROSITE
PS00107 PROTEIN_KINASE_ATP, 1 hit
PS50011 PROTEIN_KINASE_DOM, 1 hit
PS00108 PROTEIN_KINASE_ST, 1 hit

Sequencei

Sequence statusi: Complete.

P06242-1 [UniParc]FASTAAdd to basket
« Hide
        10         20         30         40         50
MKVNMEYTKE KKVGEGTYAV VYLGCQHSTG RKIAIKEIKT SEFKDGLDMS
60 70 80 90 100
AIREVKYLQE MQHPNVIELI DIFMAYDNLN LVLEFLPTDL EVVIKDKSIL
110 120 130 140 150
FTPADIKAWM LMTLRGVYHC HRNFILHRDL KPNNLLFSPD GQIKVADFGL
160 170 180 190 200
ARAIPAPHEI LTSNVVTRWY RAPELLFGAK HYTSAIDIWS VGVIFAELML
210 220 230 240 250
RIPYLPGQND VDQMEVTFRA LGTPTDRDWP EVSSFMTYNK LQIYPPPSRD
260 270 280 290 300
ELRKRFIAAS EYALDFMCGM LTMNPQKRWT AVQCLESDYF KELPPPSDPS

SIKIRN
Length:306
Mass (Da):35,247
Last modified:January 1, 1988 - v1
Checksum:i763A5720A1D9ACF3
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
X04423 Genomic DNA Translation: CAA28019.1
X95644 Genomic DNA Translation: CAA64904.1
Z74156 Genomic DNA Translation: CAA98675.1
BK006938 Genomic DNA Translation: DAA11752.1
PIRiA25698
RefSeqiNP_010175.1, NM_001180167.1

Genome annotation databases

EnsemblFungiiYDL108W; YDL108W; YDL108W
GeneIDi851450
KEGGisce:YDL108W

Similar proteinsi

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
X04423 Genomic DNA Translation: CAA28019.1
X95644 Genomic DNA Translation: CAA64904.1
Z74156 Genomic DNA Translation: CAA98675.1
BK006938 Genomic DNA Translation: DAA11752.1
PIRiA25698
RefSeqiNP_010175.1, NM_001180167.1

3D structure databases

ProteinModelPortaliP06242
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi31954, 550 interactors
ComplexPortaliCPX-1659 General transcription factor complex TFIIH
CPX-1660 General transcription factor complex TFIIK
DIPiDIP-2259N
IntActiP06242, 13 interactors
MINTiP06242
STRINGi4932.YDL108W

Chemistry databases

BindingDBiP06242
ChEMBLiCHEMBL5370

PTM databases

iPTMnetiP06242

Proteomic databases

MaxQBiP06242
PaxDbiP06242
PRIDEiP06242

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblFungiiYDL108W; YDL108W; YDL108W
GeneIDi851450
KEGGisce:YDL108W

Organism-specific databases

EuPathDBiFungiDB:YDL108W
SGDiS000002266 KIN28

Phylogenomic databases

GeneTreeiENSGT00830000128262
HOGENOMiHOG000233024
InParanoidiP06242
KOiK02202
OMAiADIKAWM
OrthoDBiEOG092C2FL8

Enzyme and pathway databases

BioCyciYEAST:G3O-29509-MONOMER
BRENDAi2.7.11.22 984
ReactomeiR-SCE-113418 Formation of the Early Elongation Complex
R-SCE-5696395 Formation of Incision Complex 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-6807505 RNA polymerase II transcribes snRNA genes
R-SCE-69202 Cyclin E associated events during G1/S transition
R-SCE-69231 Cyclin D associated events in G1
R-SCE-69273 Cyclin A/B1/B2 associated events during G2/M transition
R-SCE-69656 Cyclin A:Cdk2-associated events at S phase entry
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:P06242

Family and domain databases

InterProiView protein in InterPro
IPR037770 CDK7
IPR011009 Kinase-like_dom_sf
IPR000719 Prot_kinase_dom
IPR017441 Protein_kinase_ATP_BS
IPR008271 Ser/Thr_kinase_AS
PANTHERiPTHR24056:SF0 PTHR24056:SF0, 1 hit
PfamiView protein in Pfam
PF00069 Pkinase, 1 hit
SMARTiView protein in SMART
SM00220 S_TKc, 1 hit
SUPFAMiSSF56112 SSF56112, 1 hit
PROSITEiView protein in PROSITE
PS00107 PROTEIN_KINASE_ATP, 1 hit
PS50011 PROTEIN_KINASE_DOM, 1 hit
PS00108 PROTEIN_KINASE_ST, 1 hit
ProtoNetiSearch...

Entry informationi

Entry nameiKIN28_YEAST
AccessioniPrimary (citable) accession number: P06242
Secondary accession number(s): D6VRP2
Entry historyiIntegrated into UniProtKB/Swiss-Prot: January 1, 1988
Last sequence update: January 1, 1988
Last modified: October 10, 2018
This is version 196 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

Complete proteome, Reference proteome

Documents

  1. SIMILARITY comments
    Index of protein domains and families
  2. Yeast
    Yeast (Saccharomyces cerevisiae): entries, gene names and cross-references to SGD
  3. Yeast chromosome IV
    Yeast (Saccharomyces cerevisiae) chromosome IV: entries and gene names
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Main funding by: National Institutes of Health

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