Q9TVL3 (CDK9_CAEEL) Reviewed, UniProtKB/Swiss-Prot

Names and origin

Protein names

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 names

Name:	cdk-9
ORF Names:	H25P06.2

Organism

Caenorhabditis elegans [Reference proteome]

Taxonomic identifier

6239 [NCBI]

Taxonomic lineage

cellular organisms › Eukaryota › Opisthokonta › Metazoa › Eumetazoa › Bilateria › Protostomia › Ecdysozoa › Nematoda › Chromadorea › Rhabditida › Rhabditoidea › Rhabditidae › Peloderinae › Caenorhabditis

Protein attributes

Sequence length	478 AA.
Sequence status	Complete.
Protein existence	Inferred from homology

General annotation (Comments)

Function	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. Ref.2
Catalytic activity	ATP + a protein = ADP + a phosphoprotein. ATP + [DNA-directed RNA polymerase] = ADP + [DNA-directed RNA polymerase] phosphate.
Subunit structure	Associates with cyclin-T (cit-1.1 or cit-1.2) to form P-TEFb By similarity.
Subcellular location	Nucleus Ref.2.
Sequence similarities	Belongs to the protein kinase superfamily. CMGC Ser/Thr protein kinase family. CDC2/CDKX subfamily. Contains 1 protein kinase domain.

Ontologies

Keywords
Biological process	Transcription Transcription regulation
Cellular component	Nucleus
Coding sequence diversity	Alternative splicing
Ligand	ATP-binding Nucleotide-binding
Molecular function	Kinase Serine/threonine-protein kinase Transferase
Technical term	Complete proteome Reference proteome
Gene Ontology (GO)
Biological_process	cell cycle Inferred from electronic annotation. Source: GOC regulation of transcription, DNA-dependent Inferred from electronic annotation. Source: UniProtKB-KW transcription, DNA-dependent Inferred from electronic annotation. Source: UniProtKB-KW
Cellular_component	nucleus Inferred from electronic annotation. Source: UniProtKB-SubCell
Molecular_function	ATP binding Inferred from electronic annotation. Source: UniProtKB-KW RNA polymerase II carboxy-terminal domain kinase activity Inferred from electronic annotation. Source: EC cyclin-dependent protein serine/threonine kinase activity Inferred from electronic annotation. Source: EC
Complete GO annotation...

Alternative products

This entry describes 2 isoforms produced by alternative splicing. [Align] [Select]

Isoform b (identifier: Q9TVL3-1)

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.

Note: Gene prediction based on EST data.

Isoform a (identifier: Q9TVL3-2)

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.

Sequence annotation (Features)

	Feature key	Position(s)	Length	Description	Graphical view	Feature identifier
Molecule processing
	Chain	1 – 478	478	Probable cyclin-dependent kinase 9		PRO_0000085807
Regions
	Domain	85 – 413	329	Protein kinase
	Nucleotide binding	91 – 99	9	ATP By similarity
Sites
	Active site	217	1	Proton acceptor By similarity
	Binding site	114	1	ATP By similarity
Natural variations
	Alternative sequence	432 – 445	14	NSQFE…KGAHA → VRKFEAKWLKKREK in isoform a.		VSP_016291
	Alternative sequence	446 – 478	33	Missing in isoform a.		VSP_016292

Sequences

	Sequence		Length	Mass (Da)
	Isoform b [UniParc]. Last modified March 1, 2005. Version 2. Checksum: C8E307EA3465E36B	FASTA	478	53,593
	10 20 30 40 50 60 MSAQNYHAGL HQSSTQRPPK RPNTEHAQEP PKRALIGGQT TPSSSGGGQT PNGTNYELEV 70 80 90 100 110 120 KQQLSNYQKL FDQATYPFIR DVSTYEKLNK IGQGTFGEVF KARCKNTGRM VALKKILMEN 130 140 150 160 170 180 EKEGFPITAL REVKMLEQLK HPNITDLIEV CSAKSTGTTG SKDRATFYLV MALCAHDLAG 190 200 210 220 230 240 LLSNPKIRMS LVHIKTMMKH LMSGLNKLHR SKILHRDMKA ANVLISKDGI LKLADFGLAR 250 260 270 280 290 300 PFVQRENGAG PRPLYTNRVV TLWYRPPELL LGDRQYGTKI DVWGAGCIMA EMWTRQPIMQ 310 320 330 340 350 360 GDTEQKQLQL ISGLCGSINK DVWPNCVNMP LWSAMSSEPN SALPQGKYRI LPNKMKNLMK 370 380 390 400 410 420 FDAPDSKTDP FGKNVKQHDS ATDDDALHLL EILLAIDPDK RPTSDEAEDD IWFFKDPVPM 430 440 450 460 470 ANVQDLMDTI PNSQFEYTVG KGAHANRGRH QNAQQRPNQQ QARPSNAIPA GQYRDTIF
	Isoform a [UniParc]. Checksum: 2EB98637B821C984	FASTA	445	50,130
	10 20 30 40 50 60 MSAQNYHAGL HQSSTQRPPK RPNTEHAQEP PKRALIGGQT TPSSSGGGQT PNGTNYELEV 70 80 90 100 110 120 KQQLSNYQKL FDQATYPFIR DVSTYEKLNK IGQGTFGEVF KARCKNTGRM VALKKILMEN 130 140 150 160 170 180 EKEGFPITAL REVKMLEQLK HPNITDLIEV CSAKSTGTTG SKDRATFYLV MALCAHDLAG 190 200 210 220 230 240 LLSNPKIRMS LVHIKTMMKH LMSGLNKLHR SKILHRDMKA ANVLISKDGI LKLADFGLAR 250 260 270 280 290 300 PFVQRENGAG PRPLYTNRVV TLWYRPPELL LGDRQYGTKI DVWGAGCIMA EMWTRQPIMQ 310 320 330 340 350 360 GDTEQKQLQL ISGLCGSINK DVWPNCVNMP LWSAMSSEPN SALPQGKYRI LPNKMKNLMK 370 380 390 400 410 420 FDAPDSKTDP FGKNVKQHDS ATDDDALHLL EILLAIDPDK RPTSDEAEDD IWFFKDPVPM 430 440 ANVQDLMDTI PVRKFEAKWL KKREK

References

	« Hide 'large scale' referencesShow 'large scale' references »
[1]	"Genome sequence of the nematode C. elegans: a platform for investigating biology." The C. elegans sequencing consortium Science 282:2012-2018(1998) [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(2002) [PubMed] [Europe PMC] [Abstract] Cited for: FUNCTION, SUBCELLULAR LOCATION.
+	Additional computationally mapped references.

Cross-references

Sequence databases
EMBL GenBank DDBJ	Z92797, Z83118 Genomic DNA. Translation: CAB07237.2. Z92797, Z83118 Genomic DNA. Translation: CAB07238.3.
PIR	F87920. T23123. T23124.
RefSeq	NP_492906.2. NM_060505.3. NP_492907.2. NM_060506.3.
3D structure databases
ProteinModelPortal	Q9TVL3.
SMR	Q9TVL3. Positions 64-419.
ModBase	Search...
Protein-protein interaction databases
IntAct	Q9TVL3. 2 interactions.
STRING	6239.H25P06.2b.
Proteomic databases
PaxDb	Q9TVL3.
PRIDE	Q9TVL3.
Protocols and materials databases
StructuralBiologyKnowledgebase	Search...
Genome annotation databases
EnsemblMetazoa	H25P06.2b; H25P06.2b; H25P06.2.
GeneID	173023.
KEGG	cel:CELE_H25P06.2.
UCSC	H25P06.2b. c. elegans.
Organism-specific databases
CTD	173023.
WormBase	H25P06.2a; CE37838; WBGene00000410; cdk-9. H25P06.2b; CE37839; WBGene00000410; cdk-9.
Phylogenomic databases
eggNOG	COG0515.
GeneTree	ENSGT00690000102025.
HOGENOM	HOG000233024.
InParanoid	Q9TVL3.
KO	K02211.
OMA	HINILTI.
Family and domain databases
InterPro	IPR011009. Kinase-like_dom. IPR000719. Prot_kinase_cat_dom. IPR017441. Protein_kinase_ATP_BS. IPR002290. Ser/Thr_dual-sp_kinase_dom. IPR008271. Ser/Thr_kinase_AS. [Graphical view]
Pfam	PF00069. Pkinase. 1 hit. [Graphical view]
SMART	SM00220. S_TKc. 1 hit. [Graphical view]
SUPFAM	SSF56112. Kinase_like. 1 hit.
PROSITE	PS00107. PROTEIN_KINASE_ATP. 1 hit. PS50011. PROTEIN_KINASE_DOM. 1 hit. PS00108. PROTEIN_KINASE_ST. 1 hit. [Graphical view]
ProtoNet	Search...
Other
NextBio	877955.

Entry information

Entry name

CDK9_CAEEL

Accession

Primary (citable) accession number: Q9TVL3
Secondary accession number(s): Q9XTH5

Entry history

Integrated into UniProtKB/Swiss-Prot:	November 22, 2005
Last sequence update:	March 1, 2005
Last modified:	May 1, 2013
This is version 99 of the entry and version 2 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation program

Caenorhabditis annotation project