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Protein

Thymidylate kinase

Gene

CDC8

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

Catalyzes the conversion of dTMP to dTDP.

Catalytic activityi

ATP + dTMP = ADP + dTDP.

Pathwayi

Regions

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Nucleotide bindingi12 – 198ATPCurated

GO - Molecular functioni

  • ATP binding Source: UniProtKB-KW
  • identical protein binding Source: IntAct
  • thymidylate kinase activity Source: SGD
  • uridylate kinase activity Source: SGD

GO - Biological processi

  • dTDP biosynthetic process Source: SGD
  • dTTP biosynthetic process Source: SGD
  • dUDP biosynthetic process Source: SGD
  • nucleotide phosphorylation Source: GOC
Complete GO annotation...

Keywords - Molecular functioni

Kinase, Transferase

Keywords - Biological processi

Nucleotide biosynthesis

Keywords - Ligandi

ATP-binding, Nucleotide-binding

Enzyme and pathway databases

BioCyciMetaCyc:YJR057W-MONOMER.
YEAST:YJR057W-MONOMER.
ReactomeiREACT_275578. Synthesis and interconversion of nucleotide di- and triphosphates.
UniPathwayiUPA00575.

Names & Taxonomyi

Protein namesi
Recommended name:
Thymidylate kinase (EC:2.7.4.9)
Alternative name(s):
dTMP kinase
Gene namesi
Name:CDC8
Ordered Locus Names:YJR057W
ORF Names:J1715
OrganismiSaccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
Taxonomic identifieri559292 [NCBI]
Taxonomic lineageiEukaryotaFungiDikaryaAscomycotaSaccharomycotinaSaccharomycetesSaccharomycetalesSaccharomycetaceaeSaccharomyces
ProteomesiUP000002311 Componenti: Chromosome X

Organism-specific databases

CYGDiYJR057w.
EuPathDBiFungiDB:YJR057W.
SGDiS000003818. CDC8.

Subcellular locationi

GO - Cellular componenti

  • cytoplasm Source: SGD
  • nucleus Source: SGD
Complete GO annotation...

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 216216Thymidylate kinasePRO_0000155214Add
BLAST

Proteomic databases

MaxQBiP00572.
PaxDbiP00572.

Expressioni

Gene expression databases

GenevestigatoriP00572.

Interactioni

Subunit structurei

Homodimer.

Binary interactionsi

WithEntry#Exp.IntActNotes
itself2EBI-9957,EBI-9957
NET1P470352EBI-9957,EBI-25953

Protein-protein interaction databases

BioGridi33814. 87 interactions.
IntActiP00572. 5 interactions.
MINTiMINT-662334.
STRINGi4932.YJR057W.

Structurei

Secondary structure

1
216
Legend: HelixTurnBeta strand
Show more details
Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Beta strandi7 – 126Combined sources
Beta strandi14 – 174Combined sources
Helixi18 – 2912Combined sources
Beta strandi31 – 399Combined sources
Helixi44 – 5411Combined sources
Helixi62 – 7413Combined sources
Helixi77 – 859Combined sources
Beta strandi89 – 946Combined sources
Helixi96 – 1049Combined sources
Helixi113 – 1175Combined sources
Helixi118 – 1203Combined sources
Beta strandi123 – 1253Combined sources
Beta strandi127 – 1337Combined sources
Helixi140 – 1423Combined sources
Beta strandi145 – 1473Combined sources
Helixi154 – 17320Combined sources
Beta strandi178 – 1836Combined sources
Helixi189 – 20517Combined sources

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
1TMKX-ray2.10A/B1-216[»]
2TMKX-ray2.40A/B1-216[»]
3TMKX-ray2.00A/B/C/D/E/F/G/H1-216[»]
ProteinModelPortaliP00572.
SMRiP00572. Positions 1-216.
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiP00572.

Family & Domainsi

Sequence similaritiesi

Belongs to the thymidylate kinase family.Curated

Phylogenomic databases

eggNOGiCOG0125.
GeneTreeiENSGT00390000017546.
HOGENOMiHOG000229079.
InParanoidiP00572.
KOiK00943.
OMAiMIDSYLR.
OrthoDBiEOG735483.

Family and domain databases

Gene3Di3.40.50.300. 1 hit.
HAMAPiMF_00165. Thymidylate_kinase.
InterProiIPR027417. P-loop_NTPase.
IPR018095. Thymidylate_kin_CS.
IPR018094. Thymidylate_kinase.
[Graphical view]
SUPFAMiSSF52540. SSF52540. 1 hit.
TIGRFAMsiTIGR00041. DTMP_kinase. 1 hit.
PROSITEiPS01331. THYMIDYLATE_KINASE. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

P00572-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MMGRGKLILI EGLDRTGKTT QCNILYKKLQ PNCKLLKFPE RSTRIGGLIN
60 70 80 90 100
EYLTDDSFQL SDQAIHLLFS ANRWEIVDKI KKDLLEGKNI VMDRYVYSGV
110 120 130 140 150
AYSAAKGTNG MDLDWCLQPD VGLLKPDLTL FLSTQDVDNN AEKSGFGDER
160 170 180 190 200
YETVKFQEKV KQTFMKLLDK EIRKGDESIT IVDVTNKGIQ EVEALIWQIV
210
EPVLSTHIDH DKFSFF
Length:216
Mass (Da):24,687
Last modified:November 1, 1995 - v2
Checksum:iF9A1CA0D56DCD1F6
GO

Experimental Info

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Sequence conflicti57 – 571S → T in AAA34486 (PubMed:6371491).Curated
Sequence conflicti188 – 1881G → D in AAA35158 (PubMed:6088527).Curated

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
K02116 Genomic DNA. Translation: AAA35158.1.
K01783 Genomic DNA. Translation: AAA34486.1.
Z49557 Genomic DNA. Translation: CAA89585.1.
M15468 Genomic DNA. Translation: AAB05644.1.
L47993 Genomic DNA. Translation: AAB39283.1.
BK006943 Genomic DNA. Translation: DAA08844.1.
PIRiS57076. KIBYT8.
RefSeqiNP_012591.1. NM_001181715.1.

Genome annotation databases

EnsemblFungiiYJR057W; YJR057W; YJR057W.
GeneIDi853520.
KEGGisce:YJR057W.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
K02116 Genomic DNA. Translation: AAA35158.1.
K01783 Genomic DNA. Translation: AAA34486.1.
Z49557 Genomic DNA. Translation: CAA89585.1.
M15468 Genomic DNA. Translation: AAB05644.1.
L47993 Genomic DNA. Translation: AAB39283.1.
BK006943 Genomic DNA. Translation: DAA08844.1.
PIRiS57076. KIBYT8.
RefSeqiNP_012591.1. NM_001181715.1.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
1TMKX-ray2.10A/B1-216[»]
2TMKX-ray2.40A/B1-216[»]
3TMKX-ray2.00A/B/C/D/E/F/G/H1-216[»]
ProteinModelPortaliP00572.
SMRiP00572. Positions 1-216.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi33814. 87 interactions.
IntActiP00572. 5 interactions.
MINTiMINT-662334.
STRINGi4932.YJR057W.

Proteomic databases

MaxQBiP00572.
PaxDbiP00572.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblFungiiYJR057W; YJR057W; YJR057W.
GeneIDi853520.
KEGGisce:YJR057W.

Organism-specific databases

CYGDiYJR057w.
EuPathDBiFungiDB:YJR057W.
SGDiS000003818. CDC8.

Phylogenomic databases

eggNOGiCOG0125.
GeneTreeiENSGT00390000017546.
HOGENOMiHOG000229079.
InParanoidiP00572.
KOiK00943.
OMAiMIDSYLR.
OrthoDBiEOG735483.

Enzyme and pathway databases

UniPathwayiUPA00575.
BioCyciMetaCyc:YJR057W-MONOMER.
YEAST:YJR057W-MONOMER.
ReactomeiREACT_275578. Synthesis and interconversion of nucleotide di- and triphosphates.

Miscellaneous databases

EvolutionaryTraceiP00572.
NextBioi974197.
PROiP00572.

Gene expression databases

GenevestigatoriP00572.

Family and domain databases

Gene3Di3.40.50.300. 1 hit.
HAMAPiMF_00165. Thymidylate_kinase.
InterProiIPR027417. P-loop_NTPase.
IPR018095. Thymidylate_kin_CS.
IPR018094. Thymidylate_kinase.
[Graphical view]
SUPFAMiSSF52540. SSF52540. 1 hit.
TIGRFAMsiTIGR00041. DTMP_kinase. 1 hit.
PROSITEiPS01331. THYMIDYLATE_KINASE. 1 hit.
[Graphical view]
ProtoNetiSearch...

Publicationsi

« Hide 'large scale' publications
  1. "The CDC8 gene of yeast encodes thymidylate kinase."
    Jong A.Y.S., Kuo C.-L., Campbell J.L.
    J. Biol. Chem. 259:11052-11059(1984) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
  2. "Saccharomyces cerevisiae CDC8 gene and its product."
    Birkenmeyer L.G., Hill J.C., Dumas L.B.
    Mol. Cell. Biol. 4:583-590(1984) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
  3. "Analysis of a 62 kb DNA sequence of chromosome X reveals 36 open reading frames and a gene cluster with a counterpart on chromosome XI."
    Huang M.-E., Manus V., Chuat J.-C., Galibert F.
    Yeast 12:869-875(1996) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
    Strain: ATCC 204508 / S288c.
  4. "Complete nucleotide sequence of Saccharomyces cerevisiae chromosome X."
    Galibert F., Alexandraki D., Baur A., Boles E., Chalwatzis N., Chuat J.-C., Coster F., Cziepluch C., de Haan M., Domdey H., Durand P., Entian K.-D., Gatius M., Goffeau A., Grivell L.A., Hennemann A., Herbert C.J., Heumann K.
    , Hilger F., Hollenberg C.P., Huang M.-E., Jacq C., Jauniaux J.-C., Katsoulou C., Kirchrath L., Kleine K., Kordes E., Koetter P., Liebl S., Louis E.J., Manus V., Mewes H.-W., Miosga T., Obermaier B., Perea J., Pohl T.M., Portetelle D., Pujol A., Purnelle B., Ramezani Rad M., Rasmussen S.W., Rose M., Rossau R., Schaaff-Gerstenschlaeger I., Smits P.H.M., Scarcez T., Soriano N., To Van D., Tzermia M., Van Broekhoven A., Vandenbol M., Wedler H., von Wettstein D., Wambutt R., Zagulski M., Zollner A., Karpfinger-Hartl L.
    EMBO J. 15:2031-2049(1996) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: ATCC 204508 / S288c.
  5. Cited for: GENOME REANNOTATION.
    Strain: ATCC 204508 / S288c.
  6. Cited for: LEVEL OF PROTEIN EXPRESSION [LARGE SCALE ANALYSIS].
  7. "Structure of thymidylate kinase reveals the cause behind the limiting step in AZT activation."
    Lavie A., Vetter I.R., Konrad M., Goody R.S., Reinstein J., Schlichting I.
    Nat. Struct. Biol. 4:601-604(1997) [PubMed] [Europe PMC] [Abstract]
    Cited for: X-RAY CRYSTALLOGRAPHY (2.1 ANGSTROMS).
  8. "Crystal structure of yeast thymidylate kinase complexed with the bisubstrate inhibitor P1-(5'-adenosyl) P5-(5'-thymidyl) pentaphosphate (TP5A) at 2.0-A resolution: implications for catalysis and AZT activation."
    Lavie A., Konrad M., Brundiers R., Goody R.S., Schlichting I., Reinstein J.
    Biochemistry 37:3677-3686(1998) [PubMed] [Europe PMC] [Abstract]
    Cited for: X-RAY CRYSTALLOGRAPHY (2.0 ANGSTROMS).

Entry informationi

Entry nameiKTHY_YEAST
AccessioniPrimary (citable) accession number: P00572
Secondary accession number(s): D6VWM8
Entry historyi
Integrated into UniProtKB/Swiss-Prot: July 21, 1986
Last sequence update: November 1, 1995
Last modified: May 27, 2015
This is version 141 of the entry and version 2 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programFungal Protein Annotation Program

Miscellaneousi

Miscellaneous

Present with 2980 molecules/cell in log phase SD medium.1 Publication

Keywords - Technical termi

3D-structure, Complete proteome, Reference proteome

Documents

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

External Data

Dasty 3

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 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.