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Protein

Cleavage and polyadenylation specificity factor subunit 4

Gene

cpsf4

Organism
Xenopus tropicalis (Western clawed frog) (Silurana tropicalis)
Status
Reviewed-Annotation score: Annotation score: 2 out of 5-Experimental evidence at transcript leveli

Functioni

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).By similarity

Regions

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Zinc fingeri35 – 61C3H1-type 1PROSITE-ProRule annotationAdd BLAST27
Zinc fingeri62 – 89C3H1-type 2PROSITE-ProRule annotationAdd BLAST28
Zinc fingeri90 – 117C3H1-type 3PROSITE-ProRule annotationAdd BLAST28
Zinc fingeri118 – 145C3H1-type 4PROSITE-ProRule annotationAdd BLAST28
Zinc fingeri146 – 169C3H1-type 5PROSITE-ProRule annotationAdd BLAST24
Zinc fingeri243 – 260CCHC-typePROSITE-ProRule annotationAdd BLAST18

GO - Molecular functioni

GO - Biological processi

Complete GO annotation...

Keywords - Biological processi

mRNA processing

Keywords - Ligandi

Metal-binding, RNA-binding, Zinc

Names & Taxonomyi

Protein namesi
Recommended name:
Cleavage and polyadenylation specificity factor subunit 4
Gene namesi
Name:cpsf4
OrganismiXenopus tropicalis (Western clawed frog) (Silurana tropicalis)
Taxonomic identifieri8364 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiAmphibiaBatrachiaAnuraPipoideaPipidaeXenopodinaeXenopusSilurana
Proteomesi
  • UP000008143 Componenti: Unassembled WGS sequence

Organism-specific databases

XenbaseiXB-GENE-948302. cpsf4.

Subcellular locationi

GO - Cellular componenti

Complete GO annotation...

Keywords - Cellular componenti

Nucleus

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00003173651 – 269Cleavage and polyadenylation specificity factor subunit 4Add BLAST269

Proteomic databases

PaxDbiQ66KE3.

Expressioni

Gene expression databases

BgeeiENSXETG00000009892.

Interactioni

Subunit structurei

Component of the cleavage and polyadenylation specificity factor (CPSF) complex, composed of cpsf1, cpsf2, cpsf3, cpsf4 and fip1l1.By similarity

Protein-protein interaction databases

STRINGi8364.ENSXETP00000021783.

Structurei

3D structure databases

ProteinModelPortaliQ66KE3.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Compositional bias

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Compositional biasi178 – 232Gln-richAdd BLAST55

Sequence similaritiesi

Belongs to the CPSF4/YTH1 family.Curated
Contains 5 C3H1-type zinc fingers.PROSITE-ProRule annotation
Contains 1 CCHC-type zinc finger.PROSITE-ProRule annotation

Zinc finger

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Zinc fingeri35 – 61C3H1-type 1PROSITE-ProRule annotationAdd BLAST27
Zinc fingeri62 – 89C3H1-type 2PROSITE-ProRule annotationAdd BLAST28
Zinc fingeri90 – 117C3H1-type 3PROSITE-ProRule annotationAdd BLAST28
Zinc fingeri118 – 145C3H1-type 4PROSITE-ProRule annotationAdd BLAST28
Zinc fingeri146 – 169C3H1-type 5PROSITE-ProRule annotationAdd BLAST24
Zinc fingeri243 – 260CCHC-typePROSITE-ProRule annotationAdd BLAST18

Keywords - Domaini

Repeat, Zinc-finger

Phylogenomic databases

eggNOGiKOG1040. Eukaryota.
COG5084. LUCA.
HOVERGENiHBG051108.
InParanoidiQ66KE3.
KOiK14404.
OrthoDBiEOG091G0JUF.

Family and domain databases

Gene3Di4.10.1000.10. 2 hits.
4.10.60.10. 1 hit.
InterProiIPR000571. Znf_CCCH.
IPR001878. Znf_CCHC.
[Graphical view]
PfamiPF00098. zf-CCHC. 1 hit.
[Graphical view]
SMARTiSM00343. ZnF_C2HC. 1 hit.
SM00356. ZnF_C3H1. 5 hits.
[Graphical view]
SUPFAMiSSF57756. SSF57756. 1 hit.
SSF90229. SSF90229. 2 hits.
PROSITEiPS50103. ZF_C3H1. 5 hits.
PS50158. ZF_CCHC. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

Q66KE3-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MQELIACVDH IRFDLELAVE QQLGAQPLPF PGMDKSGAAV CEFFLKSACG
60 70 80 90 100
KGGMCPFRHI SGEKTVVCKH WLRGLCKKGD QCEFLHEYDM TKMPECYFYS
110 120 130 140 150
KFGECSNKEC PFLHIDPESK IKDCPWYDRG FCKHGPLCRH RHTRRVICVN
160 170 180 190 200
YLVGFCIEGP NCKFMHPRFE LPMGTTEQPP LPQQTQTQQK QNNNQVLQRS
210 220 230 240 250
SSLIQLTSQN SPVSQQRSPQ TIGVMQSQSG NQGNRGPRPL DQVTCYKCGE
260
KGHYANRCTK GHLAFLSGQ
Length:269
Mass (Da):30,496
Last modified:October 11, 2004 - v1
Checksum:i1BDD49987CED6618
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
BC080440 mRNA. Translation: AAH80440.1.
RefSeqiNP_001007933.1. NM_001007932.1.
UniGeneiStr.3196.

Genome annotation databases

GeneIDi493312.
KEGGixtr:493312.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
BC080440 mRNA. Translation: AAH80440.1.
RefSeqiNP_001007933.1. NM_001007932.1.
UniGeneiStr.3196.

3D structure databases

ProteinModelPortaliQ66KE3.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi8364.ENSXETP00000021783.

Proteomic databases

PaxDbiQ66KE3.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

GeneIDi493312.
KEGGixtr:493312.

Organism-specific databases

CTDi10898.
XenbaseiXB-GENE-948302. cpsf4.

Phylogenomic databases

eggNOGiKOG1040. Eukaryota.
COG5084. LUCA.
HOVERGENiHBG051108.
InParanoidiQ66KE3.
KOiK14404.
OrthoDBiEOG091G0JUF.

Gene expression databases

BgeeiENSXETG00000009892.

Family and domain databases

Gene3Di4.10.1000.10. 2 hits.
4.10.60.10. 1 hit.
InterProiIPR000571. Znf_CCCH.
IPR001878. Znf_CCHC.
[Graphical view]
PfamiPF00098. zf-CCHC. 1 hit.
[Graphical view]
SMARTiSM00343. ZnF_C2HC. 1 hit.
SM00356. ZnF_C3H1. 5 hits.
[Graphical view]
SUPFAMiSSF57756. SSF57756. 1 hit.
SSF90229. SSF90229. 2 hits.
PROSITEiPS50103. ZF_C3H1. 5 hits.
PS50158. ZF_CCHC. 1 hit.
[Graphical view]
ProtoNetiSearch...

Entry informationi

Entry nameiCPSF4_XENTR
AccessioniPrimary (citable) accession number: Q66KE3
Entry historyi
Integrated into UniProtKB/Swiss-Prot: February 5, 2008
Last sequence update: October 11, 2004
Last modified: November 30, 2016
This is version 76 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programChordata Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. SIMILARITY comments
    Index of protein domains and families

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 one 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.