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Protein

Probable cyclin-dependent kinase 9

Gene

cdk-9

Organism
Caenorhabditis elegans
Status
Reviewed-Annotation score: Annotation score: 4 out of 5-Protein inferred from homologyi

Functioni

Essential member of the cyclin-dependent kinase pair (CDK9/cyclin-T) complex, also called positive transcription elongation factor B (P-TEFb), which is proposed to facilitate the transition from abortive to production elongation by phosphorylating the CTD (C-terminal domain) of the large subunit of RNA polymerase II (RNAP II) and spt-5.1 Publication

Catalytic activityi

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

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Binding sitei114 – 1141ATPPROSITE-ProRule annotation
Active sitei217 – 2171Proton acceptorPROSITE-ProRule annotation

Regions

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Nucleotide bindingi91 – 999ATPPROSITE-ProRule annotation

GO - Molecular functioni

  1. ATP binding Source: UniProtKB-KW
  2. cyclin-dependent protein serine/threonine kinase activity Source: UniProtKB-EC
  3. RNA polymerase II carboxy-terminal domain kinase activity Source: UniProtKB-EC

GO - Biological processi

  1. regulation of transcription, DNA-templated Source: UniProtKB-KW
  2. transcription, DNA-templated Source: UniProtKB-KW
Complete GO annotation...

Keywords - Molecular functioni

Kinase, Serine/threonine-protein kinase, Transferase

Keywords - Biological processi

Transcription, Transcription regulation

Keywords - Ligandi

ATP-binding, Nucleotide-binding

Enzyme and pathway databases

ReactomeiREACT_279855. RNA Polymerase II Transcription Elongation.
REACT_298834. RNA Polymerase II Pre-transcription Events.
REACT_307556. Formation of RNA Pol II elongation complex.
SignaLinkiQ9TVL3.

Names & Taxonomyi

Protein namesi
Recommended name:
Probable cyclin-dependent kinase 9 (EC:2.7.11.22, EC:2.7.11.23)
Alternative name(s):
Cell division protein kinase 9
Gene namesi
Name:cdk-9
ORF Names:H25P06.2
OrganismiCaenorhabditis elegans
Taxonomic identifieri6239 [NCBI]
Taxonomic lineageiEukaryotaMetazoaEcdysozoaNematodaChromadoreaRhabditidaRhabditoideaRhabditidaePeloderinaeCaenorhabditis
ProteomesiUP000001940 Componenti: Chromosome I

Organism-specific databases

WormBaseiH25P06.2a; CE37838; WBGene00000410; cdk-9.
H25P06.2b; CE37839; WBGene00000410; cdk-9.

Subcellular locationi

Nucleus 1 Publication

GO - Cellular componenti

  1. chromosome Source: WormBase
  2. nucleus Source: UniProtKB-SubCell
Complete GO annotation...

Keywords - Cellular componenti

Nucleus

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 478478Probable cyclin-dependent kinase 9PRO_0000085807Add
BLAST

Proteomic databases

PaxDbiQ9TVL3.
PRIDEiQ9TVL3.

Interactioni

Subunit structurei

Associates with cyclin-T (cit-1.1 or cit-1.2) to form P-TEFb.By similarity

Protein-protein interaction databases

BioGridi38431. 1 interaction.
IntActiQ9TVL3. 2 interactions.
STRINGi6239.H25P06.2b.

Structurei

3D structure databases

ProteinModelPortaliQ9TVL3.
SMRiQ9TVL3. Positions 77-419.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini85 – 413329Protein kinasePROSITE-ProRule annotationAdd
BLAST

Sequence similaritiesi

Contains 1 protein kinase domain.PROSITE-ProRule annotation

Phylogenomic databases

eggNOGiCOG0515.
GeneTreeiENSGT00770000120511.
HOGENOMiHOG000233024.
InParanoidiQ9TVL3.
KOiK02211.
OMAiMELPKGQ.
OrthoDBiEOG76DTSM.
PhylomeDBiQ9TVL3.

Family and domain databases

InterProiIPR011009. Kinase-like_dom.
IPR000719. Prot_kinase_dom.
IPR017441. Protein_kinase_ATP_BS.
IPR002290. Ser/Thr_dual-sp_kinase.
IPR008271. Ser/Thr_kinase_AS.
[Graphical view]
PfamiPF00069. Pkinase. 1 hit.
[Graphical view]
SMARTiSM00220. S_TKc. 1 hit.
[Graphical view]
SUPFAMiSSF56112. SSF56112. 2 hits.
PROSITEiPS00107. PROTEIN_KINASE_ATP. 1 hit.
PS50011. PROTEIN_KINASE_DOM. 1 hit.
PS00108. PROTEIN_KINASE_ST. 1 hit.
[Graphical view]

Sequences (2)i

Sequence statusi: Complete.

This entry describes 2 isoformsi produced by alternative splicing. AlignAdd to basket

Isoform b (identifier: Q9TVL3-1) [UniParc]FASTAAdd to basket

This isoform has been chosen as the 'canonical' sequence. All positional information in this entry refers to it. This is also the sequence that appears in the downloadable versions of the entry.

« Hide

        10         20         30         40         50
MSAQNYHAGL HQSSTQRPPK RPNTEHAQEP PKRALIGGQT TPSSSGGGQT
60 70 80 90 100
PNGTNYELEV KQQLSNYQKL FDQATYPFIR DVSTYEKLNK IGQGTFGEVF
110 120 130 140 150
KARCKNTGRM VALKKILMEN EKEGFPITAL REVKMLEQLK HPNITDLIEV
160 170 180 190 200
CSAKSTGTTG SKDRATFYLV MALCAHDLAG LLSNPKIRMS LVHIKTMMKH
210 220 230 240 250
LMSGLNKLHR SKILHRDMKA ANVLISKDGI LKLADFGLAR PFVQRENGAG
260 270 280 290 300
PRPLYTNRVV TLWYRPPELL LGDRQYGTKI DVWGAGCIMA EMWTRQPIMQ
310 320 330 340 350
GDTEQKQLQL ISGLCGSINK DVWPNCVNMP LWSAMSSEPN SALPQGKYRI
360 370 380 390 400
LPNKMKNLMK FDAPDSKTDP FGKNVKQHDS ATDDDALHLL EILLAIDPDK
410 420 430 440 450
RPTSDEAEDD IWFFKDPVPM ANVQDLMDTI PNSQFEYTVG KGAHANRGRH
460 470
QNAQQRPNQQ QARPSNAIPA GQYRDTIF

Note: Gene prediction based on EST data.

Length:478
Mass (Da):53,593
Last modified:February 28, 2005 - v2
Checksum:iC8E307EA3465E36B
GO
Isoform a (identifier: Q9TVL3-2) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     432-445: NSQFEYTVGKGAHA → VRKFEAKWLKKREK
     446-478: Missing.

Note: Gene prediction based on EST data. No experimental confirmation available.

Show »
Length:445
Mass (Da):50,130
Checksum:i2EB98637B821C984
GO

Alternative sequence

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Alternative sequencei432 – 44514NSQFE…KGAHA → VRKFEAKWLKKREK in isoform a. CuratedVSP_016291Add
BLAST
Alternative sequencei446 – 47833Missing in isoform a. CuratedVSP_016292Add
BLAST

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
Z92797, Z83118 Genomic DNA. Translation: CAB07237.2.
Z92797, Z83118 Genomic DNA. Translation: CAB07238.3.
PIRiF87920.
T23123.
T23124.
RefSeqiNP_492906.2. NM_060505.3. [Q9TVL3-1]
NP_492907.2. NM_060506.3. [Q9TVL3-2]
UniGeneiCel.8202.

Genome annotation databases

EnsemblMetazoaiH25P06.2b; H25P06.2b; WBGene00000410. [Q9TVL3-1]
GeneIDi173023.
KEGGicel:CELE_H25P06.2.
UCSCiH25P06.2b. c. elegans. [Q9TVL3-1]

Keywords - Coding sequence diversityi

Alternative splicing

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
Z92797, Z83118 Genomic DNA. Translation: CAB07237.2.
Z92797, Z83118 Genomic DNA. Translation: CAB07238.3.
PIRiF87920.
T23123.
T23124.
RefSeqiNP_492906.2. NM_060505.3. [Q9TVL3-1]
NP_492907.2. NM_060506.3. [Q9TVL3-2]
UniGeneiCel.8202.

3D structure databases

ProteinModelPortaliQ9TVL3.
SMRiQ9TVL3. Positions 77-419.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi38431. 1 interaction.
IntActiQ9TVL3. 2 interactions.
STRINGi6239.H25P06.2b.

Proteomic databases

PaxDbiQ9TVL3.
PRIDEiQ9TVL3.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblMetazoaiH25P06.2b; H25P06.2b; WBGene00000410. [Q9TVL3-1]
GeneIDi173023.
KEGGicel:CELE_H25P06.2.
UCSCiH25P06.2b. c. elegans. [Q9TVL3-1]

Organism-specific databases

CTDi173023.
WormBaseiH25P06.2a; CE37838; WBGene00000410; cdk-9.
H25P06.2b; CE37839; WBGene00000410; cdk-9.

Phylogenomic databases

eggNOGiCOG0515.
GeneTreeiENSGT00770000120511.
HOGENOMiHOG000233024.
InParanoidiQ9TVL3.
KOiK02211.
OMAiMELPKGQ.
OrthoDBiEOG76DTSM.
PhylomeDBiQ9TVL3.

Enzyme and pathway databases

ReactomeiREACT_279855. RNA Polymerase II Transcription Elongation.
REACT_298834. RNA Polymerase II Pre-transcription Events.
REACT_307556. Formation of RNA Pol II elongation complex.
SignaLinkiQ9TVL3.

Miscellaneous databases

NextBioi877955.
PROiQ9TVL3.

Family and domain databases

InterProiIPR011009. Kinase-like_dom.
IPR000719. Prot_kinase_dom.
IPR017441. Protein_kinase_ATP_BS.
IPR002290. Ser/Thr_dual-sp_kinase.
IPR008271. Ser/Thr_kinase_AS.
[Graphical view]
PfamiPF00069. Pkinase. 1 hit.
[Graphical view]
SMARTiSM00220. S_TKc. 1 hit.
[Graphical view]
SUPFAMiSSF56112. SSF56112. 2 hits.
PROSITEiPS00107. PROTEIN_KINASE_ATP. 1 hit.
PS50011. PROTEIN_KINASE_DOM. 1 hit.
PS00108. PROTEIN_KINASE_ST. 1 hit.
[Graphical view]
ProtoNetiSearch...

Publicationsi

« Hide 'large scale' publications
  1. "Genome sequence of the nematode C. elegans: a platform for investigating biology."
    The C. elegans sequencing consortium
    Science 282:2012-2018(1997) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA], ALTERNATIVE SPLICING.
    Strain: Bristol N2.
  2. "CDK-9/cyclin T (P-TEFb) is required in two postinitiation pathways for transcription in the C. elegans embryo."
    Shim E.Y., Walker A.K., Shi Y., Blackwell T.K.
    Genes Dev. 16:2135-2146(2001) [PubMed] [Europe PMC] [Abstract]
    Cited for: FUNCTION, SUBCELLULAR LOCATION.

Entry informationi

Entry nameiCDK9_CAEEL
AccessioniPrimary (citable) accession number: Q9TVL3
Secondary accession number(s): Q9XTH5
Entry historyi
Integrated into UniProtKB/Swiss-Prot: November 21, 2005
Last sequence update: February 28, 2005
Last modified: March 31, 2015
This is version 115 of the entry and version 2 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programCaenorhabditis annotation project

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. Caenorhabditis elegans
    Caenorhabditis elegans: entries, gene names and cross-references to WormBase
  2. SIMILARITY comments
    Index of protein domains and families

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.