Q8BQZ5 (CPSF4_MOUSE) Reviewed, UniProtKB/Swiss-Prot

Names and origin

Protein names

Recommended name:
Cleavage and polyadenylation specificity factor subunit 4

Alternative name(s):
Cleavage and polyadenylation specificity factor 30 kDa subunit
Short name=CPSF 30 kDa subunit
Clipper homolog
Clipper/CPSF 30K

Gene names

Name:	Cpsf4
Synonyms:	Cpsf30

Organism

Mus musculus (Mouse) [Reference proteome]

Taxonomic identifier

10090 [NCBI]

Taxonomic lineage

cellular organisms › Eukaryota › Opisthokonta › Metazoa › Eumetazoa › Bilateria › Deuterostomia › Chordata › Craniata › Vertebrata › Gnathostomata › Teleostomi › Euteleostomi › Sarcopterygii › Tetrapoda › Amniota › Mammalia › Theria › Eutheria › Euarchontoglires › Glires › Rodentia › Sciurognathi › Muroidea › Muridae › Murinae › Mus › Mus

Protein attributes

Sequence length	211 AA.
Sequence status	Complete.
Protein existence	Evidence at transcript level

General annotation (Comments)

Function	Component of the cleavage and polyadenylation specificity factor (CPSF) complex that play a key role in pre-mRNA 3'-end formation, recognizing the AAUAAA signal sequence and interacting with poly(A) polymerase and other factors to bring about cleavage and poly(A) addition. CPSF4 binds RNA polymers with a preference for poly(U) By similarity. Ref.2
Subunit structure	Component of the cleavage and polyadenylation specificity factor (CPSF) complex, composed of CPSF1, CPSF2, CPSF3, CPSF4 and FIP1L1. Interacts with FIP1L1 By similarity.
Subcellular location	Nucleus By similarity.
Sequence similarities	Belongs to the CPSF4/YTH1 family. Contains 3 C3H1-type zinc fingers. Contains 1 CCHC-type zinc finger.
Sequence caution	The sequence AAC53567.1 differs from that shown. Reason: Erroneous initiation. The sequence AAH57067.1 differs from that shown. Reason: Erroneous initiation.

Ontologies

Keywords
Biological process	mRNA processing
Cellular component	Nucleus
Coding sequence diversity	Alternative splicing
Domain	Repeat Zinc-finger
Ligand	Metal-binding RNA-binding Zinc
Technical term	Complete proteome Reference proteome
Gene Ontology (GO)
Biological_process	mRNA processing Inferred from electronic annotation. Source: UniProtKB-KW
Cellular_component	mRNA cleavage and polyadenylation specificity factor complex Inferred from sequence or structural similarity. Source: UniProtKB mitochondrion Inferred from electronic annotation. Source: Compara
Molecular_function	RNA binding Inferred from electronic annotation. Source: UniProtKB-KW zinc ion binding Inferred from electronic annotation. Source: InterPro
Complete GO annotation...

Alternative products

This entry describes 3 isoforms produced by alternative splicing. [Align] [Select]

Isoform 1 (identifier: Q8BQZ5-1)

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: No experimental confirmation available.

Isoform 2 (identifier: Q8BQZ5-2)

The sequence of this isoform differs from the canonical sequence as follows:
     103-103: G → GECSNKECPFLHIDPESKIKDCPWYDRGFCKHG
     158-158: K → KQ
     174-188: AGNRGPRPLEQVTCY → DSSSSSSSWNHCGAA
     189-211: Missing.

Isoform 3 (identifier: Q8BQZ5-3)

The sequence of this isoform differs from the canonical sequence as follows:
     103-103: G → GECSNKECPFLHIDPESKIKDCPWYDRGFCKHG
     159-180: RAPQVIGVMQSQNSSAGNRGPR → VLYPAASLATLACRDGLITHSV
     181-211: Missing.

Note: No experimental confirmation available.

Sequence annotation (Features)

	Feature key	Position(s)	Length	Description	Graphical view	Feature identifier
Molecule processing
	Chain	1 – 211	211	Cleavage and polyadenylation specificity factor subunit 4		PRO_0000074403
Regions
	Zinc finger	35 – 61	27	C3H1-type 1
	Zinc finger	62 – 89	28	C3H1-type 2
	Zinc finger	111 – 137	27	C3H1-type 3
	Zinc finger	185 – 202	18	CCHC-type
Natural variations
	Alternative sequence	103	1	G → GECSNKECPFLHIDPESKIK DCPWYDRGFCKHG in isoform 2 and isoform 3.		VSP_008603
	Alternative sequence	158	1	K → KQ in isoform 2.		VSP_008604
	Alternative sequence	159 – 180	22	RAPQV…NRGPR → VLYPAASLATLACRDGLITH SV in isoform 3.		VSP_008605
	Alternative sequence	174 – 188	15	AGNRG…QVTCY → DSSSSSSSWNHCGAA in isoform 2.		VSP_008606
	Alternative sequence	181 – 211	31	Missing in isoform 3.		VSP_008607
	Alternative sequence	189 – 211	23	Missing in isoform 2.		VSP_008608

Sequences

	Sequence		Length	Mass (Da)
	Isoform 1 [UniParc]. Last modified March 1, 2003. Version 1. Checksum: F5656741519E0E26	FASTA	211	23,653
	10 20 30 40 50 60 MQEIIASVDH IKFDLEIAVE QQLGAQPLPF PGMDKSGAAV CEFFLKAACG KGGMCPFRHI 70 80 90 100 110 120 SGEKTVVCKH WLRGLCKKGD QCEFLHEYDM TKMPECYFYS KFGPLCRHRH TRRVICVNYL 130 140 150 160 170 180 VGFCPEGPSC KFMHPRFELP MGTTEQPPLP QQTQPPTKRA PQVIGVMQSQ NSSAGNRGPR 190 200 210 PLEQVTCYKC GEKGHYANRC TKGHLAFLSG Q
	Isoform 2 [UniParc]. Checksum: 5DE80D92089DDC85	FASTA	221	24,881
	10 20 30 40 50 60 MQEIIASVDH IKFDLEIAVE QQLGAQPLPF PGMDKSGAAV CEFFLKAACG KGGMCPFRHI 70 80 90 100 110 120 SGEKTVVCKH WLRGLCKKGD QCEFLHEYDM TKMPECYFYS KFGECSNKEC PFLHIDPESK 130 140 150 160 170 180 IKDCPWYDRG FCKHGPLCRH RHTRRVICVN YLVGFCPEGP SCKFMHPRFE LPMGTTEQPP 190 200 210 220 LPQQTQPPTK QRAPQVIGVM QSQNSSDSSS SSSSWNHCGA A
	Isoform 3 [UniParc]. Checksum: 75487F4FF13C64FB	FASTA	212	23,958
	10 20 30 40 50 60 MQEIIASVDH IKFDLEIAVE QQLGAQPLPF PGMDKSGAAV CEFFLKAACG KGGMCPFRHI 70 80 90 100 110 120 SGEKTVVCKH WLRGLCKKGD QCEFLHEYDM TKMPECYFYS KFGECSNKEC PFLHIDPESK 130 140 150 160 170 180 IKDCPWYDRG FCKHGPLCRH RHTRRVICVN YLVGFCPEGP SCKFMHPRFE LPMGTTEQPP 190 200 210 LPQQTQPPTK VLYPAASLAT LACRDGLITH SV

References

	« Hide 'large scale' referencesShow 'large scale' references »
[1]	"The transcriptional landscape of the mammalian genome." Carninci P., Kasukawa T., Katayama S., Gough J., Frith M.C., Maeda N., Oyama R., Ravasi T., Lenhard B., Wells C., Kodzius R., Shimokawa K., Bajic V.B., Brenner S.E., Batalov S., Forrest A.R., Zavolan M., Davis M.J. , Wilming L.G., Aidinis V., Allen J.E., Ambesi-Impiombato A., Apweiler R., Aturaliya R.N., Bailey T.L., Bansal M., Baxter L., Beisel K.W., Bersano T., Bono H., Chalk A.M., Chiu K.P., Choudhary V., Christoffels A., Clutterbuck D.R., Crowe M.L., Dalla E., Dalrymple B.P., de Bono B., Della Gatta G., di Bernardo D., Down T., Engstrom P., Fagiolini M., Faulkner G., Fletcher C.F., Fukushima T., Furuno M., Futaki S., Gariboldi M., Georgii-Hemming P., Gingeras T.R., Gojobori T., Green R.E., Gustincich S., Harbers M., Hayashi Y., Hensch T.K., Hirokawa N., Hill D., Huminiecki L., Iacono M., Ikeo K., Iwama A., Ishikawa T., Jakt M., Kanapin A., Katoh M., Kawasawa Y., Kelso J., Kitamura H., Kitano H., Kollias G., Krishnan S.P., Kruger A., Kummerfeld S.K., Kurochkin I.V., Lareau L.F., Lazarevic D., Lipovich L., Liu J., Liuni S., McWilliam S., Madan Babu M., Madera M., Marchionni L., Matsuda H., Matsuzawa S., Miki H., Mignone F., Miyake S., Morris K., Mottagui-Tabar S., Mulder N., Nakano N., Nakauchi H., Ng P., Nilsson R., Nishiguchi S., Nishikawa S., Nori F., Ohara O., Okazaki Y., Orlando V., Pang K.C., Pavan W.J., Pavesi G., Pesole G., Petrovsky N., Piazza S., Reed J., Reid J.F., Ring B.Z., Ringwald M., Rost B., Ruan Y., Salzberg S.L., Sandelin A., Schneider C., Schoenbach C., Sekiguchi K., Semple C.A., Seno S., Sessa L., Sheng Y., Shibata Y., Shimada H., Shimada K., Silva D., Sinclair B., Sperling S., Stupka E., Sugiura K., Sultana R., Takenaka Y., Taki K., Tammoja K., Tan S.L., Tang S., Taylor M.S., Tegner J., Teichmann S.A., Ueda H.R., van Nimwegen E., Verardo R., Wei C.L., Yagi K., Yamanishi H., Zabarovsky E., Zhu S., Zimmer A., Hide W., Bult C., Grimmond S.M., Teasdale R.D., Liu E.T., Brusic V., Quackenbush J., Wahlestedt C., Mattick J.S., Hume D.A., Kai C., Sasaki D., Tomaru Y., Fukuda S., Kanamori-Katayama M., Suzuki M., Aoki J., Arakawa T., Iida J., Imamura K., Itoh M., Kato T., Kawaji H., Kawagashira N., Kawashima T., Kojima M., Kondo S., Konno H., Nakano K., Ninomiya N., Nishio T., Okada M., Plessy C., Shibata K., Shiraki T., Suzuki S., Tagami M., Waki K., Watahiki A., Okamura-Oho Y., Suzuki H., Kawai J., Hayashizaki Y. Science 309:1559-1563(2005) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORM 1). Strain: C57BL/6J. Tissue: Corpora quadrigemina.
[2]	"Drosophila clipper/CPSF 30K is a post-transcriptionally regulated nuclear protein that binds RNA containing GC clusters." Bai C., Tolias P.P. Nucleic Acids Res. 26:1597-1604(1998) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [MRNA] OF 17-211 (ISOFORM 2), FUNCTION. Strain: C57BL/6J. Tissue: Embryo.
[3]	"The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC)." The MGC Project Team Genome Res. 14:2121-2127(2004) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] OF 45-211 (ISOFORM 3). Strain: C57BL/6. Tissue: Brain.
+	Additional computationally mapped references.

Cross-references

Sequence databases
EMBL GenBank DDBJ	AK046064 mRNA. Translation: BAC32587.1. AF033201 mRNA. Translation: AAC53567.1. Different initiation. BC057067 mRNA. Translation: AAH57067.1. Different initiation.
IPI	IPI00309761. IPI00380450. IPI01027761.
RefSeq	NP_848671.1. NM_178576.2.
UniGene	Mm.196884.
3D structure databases
ProteinModelPortal	Q8BQZ5.
SMR	Q8BQZ5. Positions 61-103.
ModBase	Search...
Protein-protein interaction databases
MINT	MINT-89829.
PTM databases
PhosphoSite	Q8BQZ5.
Proteomic databases
PaxDb	Q8BQZ5.
PRIDE	Q8BQZ5.
Protocols and materials databases
StructuralBiologyKnowledgebase	Search...
Genome annotation databases
Ensembl	ENSMUST00000070487; ENSMUSP00000069243; ENSMUSG00000029625.
GeneID	54188.
KEGG	mmu:54188.
UCSC	uc009amj.1. mouse.
Organism-specific databases
CTD	10898.
MGI	MGI:1861602. Cpsf4.
Phylogenomic databases
eggNOG	COG5084.
GeneTree	ENSGT00390000009627.
HOGENOM	HOG000212457.
HOVERGEN	HBG051108.
KO	K14404.
OrthoDB	EOG4KH2VQ.
Gene expression databases
ArrayExpress	Q8BQZ5.
Bgee	Q8BQZ5.
CleanEx	MM_CPSF4.
Genevestigator	Q8BQZ5.
GermOnline	ENSMUSG00000029625. Mus musculus.
Family and domain databases
Gene3D	4.10.1000.10. 2 hits. 4.10.60.10. 1 hit.
InterPro	IPR000571. Znf_CCCH. IPR001878. Znf_CCHC. [Graphical view]
Pfam	PF00642. zf-CCCH. 2 hits. PF00098. zf-CCHC. 1 hit. [Graphical view]
SMART	SM00343. ZnF_C2HC. 1 hit. SM00356. ZnF_C3H1. 4 hits. [Graphical view]
SUPFAM	SSF57756. SSF57756. 1 hit.
PROSITE	PS50103. ZF_C3H1. 3 hits. PS50158. ZF_CCHC. 1 hit. [Graphical view]
ProtoNet	Search...
Other
ChiTaRS	CPSF4. mouse.
NextBio	311022.
SOURCE	Search...

Entry information

Entry name

CPSF4_MOUSE

Accession

Primary (citable) accession number: Q8BQZ5
Secondary accession number(s): O54930

Entry history

Integrated into UniProtKB/Swiss-Prot:	October 24, 2003
Last sequence update:	March 1, 2003
Last modified:	May 29, 2013
This is version 78 of the entry and version 1 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation program

Chordata Protein Annotation Program