Reviewed, UniProtKB/Swiss-Prot Q5ZJL4 (CLP1_CHICK)

Names and origin

Protein names

Recommended name:
    Polyribonucleotide 5'-hydroxyl-kinase Clp1
    EC=2.7.1.78
Alternative name(s):
    Polynucleotide kinase Clp1
    Pre-mRNA cleavage complex II protein Clp1

Gene names

Name:	CLP1
ORF Names:	RCJMB04_17f4

Organism

Gallus gallus (Chicken)

Taxonomic identifier

9031 [NCBI]

Taxonomic lineage

Eukaryota › Metazoa › Chordata › Craniata › Vertebrata › Euteleostomi › Archosauria › Dinosauria › Saurischia › Theropoda › Coelurosauria › Aves › Neognathae › Galliformes › Phasianidae › Phasianinae › Gallus

Protein attributes

Sequence length	425 AA.
Sequence status	Complete.
Sequence processing	The displayed sequence is not processed.
Protein existence	Evidence at transcript level.

General annotation (Comments)

Function	Polynucleotide kinase that can phosphorylate the 5'-hydroxyl groups of double-stranded RNA (dsRNA), single-stranded RNA (ssRNA), double stranded DNA (dsDNA) and double-stranded DNA:RNA hybrids. dsRNA is phosphorylated more efficiently than dsDNA, and the RNA component of a DNA:RNA hybrid is phosphorylated more efficiently than the DNA component. Appears to have roles in both tRNA splicing and mRNA 3'-end formation. Component of the tRNA splicing endonuclease complex. Phosphorylates the 5'-terminus of the tRNA 3'-exon during tRNA splicing; this phosphorylation event is a prerequisite for the subsequent ligation of the two exon halves and the production of a mature tRNA. Component of the pre-mRNA cleavage complex II (CF-II), which seems to be required for mRNA 3'-end formation. Also phosphorylates the 5'-terminus of exogenously introduced short interfering RNAs (siRNAs), which is a necessary prerequisite for their incorporation into the RNA-induced silencing complex (RISC). However endogenous siRNAs and microRNAs (miRNAs) that are produced by the cleavage of dsRNA precursors by DICER1 already contain a 5'-phosphate group, so this protein may be dispensible for normal RNA-mediated gene silencing By similarity.
Catalytic activity	ATP + 5'-dephospho-DNA = ADP + 5'-phospho-DNA. ATP + 5'-dephospho-RNA = ADP + 5'-phospho-RNA.
Subcellular location	Nucleus By similarity.
Sequence similarities	Belongs to the Clp1 family.

Ontologies

Keywords
Biological process	mRNA processing tRNA processing
Cellular component	Nucleus
Ligand	ATP-binding Nucleotide-binding
Molecular function	Kinase Transferase
Gene Ontology (GO)
Biological process	mRNA processing Inferred from electronic annotation. Source: UniProtKB-KW siRNA loading onto RISC involved in RNA interference Inferred from sequence or structural similarity. Source: UniProtKB tRNA splicing, via endonucleolytic cleavage and ligation Inferred from sequence or structural similarity. Source: UniProtKB targeting of mRNA for destruction involved in RNA interference Inferred from sequence or structural similarity. Source: UniProtKB
Cellular component	tRNA-intron endonuclease complex Inferred from sequence or structural similarity. Source: UniProtKB
Molecular function	ATP binding Inferred from electronic annotation. Source: UniProtKB-KW ATP-dependent polydeoxyribonucleotide 5'-hydroxyl-kinase activity Inferred from electronic annotation. Source: EC ATP-dependent polyribonucleotide 5'-hydroxyl-kinase activity Inferred from sequence or structural similarity. Source: UniProtKB
Complete GO annotation...

Sequence annotation (Features)

	Feature key	Position(s)	Length	Description	Graphical view	Feature identifier
Molecule processing
	Chain	1 – 425	425	Polyribonucleotide 5'-hydroxyl-kinase Clp1		PRO_0000375169
Regions
	Nucleotide binding	121 – 128	8	ATP Potential

Sequences

	Sequence		Length	Mass (Da)
	Q5ZJL4-1 [UniParc]. Last modified November 23, 2004. Version 1. Checksum: 3464F8A1F7A5D235	FASTA	425	47,575
	10 20 30 40 50 60 MADDGGDEKK QVAKFELERE TELRFEVEAS QTVQMELLTG MAEVFGTELT RNKKFTFDAG 70 80 90 100 110 120 AKVAVFTWHG CTVQLSGRTE VAYVSKDTPM LLYLNTHTAL EQIRRQAERE DERGPRVMVV 130 140 150 160 170 180 GPTDVGKSTV CRLLLNYAVR LGRRPTFVEL DVGQGSVSIP GTMGALYIER PADVEEGFSL 190 200 210 220 230 240 QAPLVYHFGS TTPGTNIKLY NKITSRLADV FNQRCEVNRR ASVSGCVINT CGWVKGSGYQ 250 260 270 280 290 300 ALVHAASAFE VDVVVVLDQE RLYNELKRDL PHFVRTVLLP KSGGVVERSK DFRRECRDDR 310 320 330 340 350 360 IREYFYGFRG CFYPHAFDVK FSDVKIYKVG APTIPDSCLP LGMSQEDNQL KLVPVTPGRD 370 380 390 400 410 420 MVHHLLSVSM ADSPDDNISE TSVAGFIVVT GVDLERQVFT VLSPAPRPLP KNFLLIMDIR FMDLK

References

[1]

"Full-length cDNAs from chicken bursal lymphocytes to facilitate gene function analysis." Caldwell R.B., Kierzek A.M., Arakawa H., Bezzubov Y., Zaim J., Fiedler P., Kutter S., Blagodatski A., Kostovska D., Koter M., Plachy J., Carninci P., Hayashizaki Y., Buerstedde J.-M. Genome Biol. 6:RESEARCH006.1-RESEARCH006.9(2005) [PubMed: 15642098] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA]. Strain: CB. Tissue: Bursa of Fabricius.

Cross-references

Sequence databases
EMBLGenBankDDBJ	AJ720420 mRNA. Translation: CAG32079.1.
IPI	IPI00603182.
RefSeq	NP_001012292.1.
UniGene	Gga.2011
3D structure databases
ModBase	Search...
Protein-protein interaction databases
STRING	Q5ZJL4.
Genome annotation databases
Ensembl	ENSGALT00000011921; ENSGALP00000011907; ENSGALG00000007370; Gallus gallus. [Genome view]
GeneID	423131.
KEGG	gga:423131.
Organism-specific databases
CTD	423131.
Phylogenomic databases
HOGENOM	Q5ZJL4.
HOVERGEN	Q5ZJL4.
Family and domain databases
InterPro	IPR010655. Clp1. [Graphical view]
Pfam	PF06807. Clp1. 1 hit. [Graphical view]
ProtoNet	Search...

Entry information

Entry name

CLP1_CHICK

Accession

Primary (citable) accession number: Q5ZJL4

Entry history

Integrated into UniProtKB/Swiss-Prot:	May 26, 2009
Last sequence update:	November 23, 2004
Last modified:	October 13, 2009
This is version 23 of the entry and version 1 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)