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Protein

Cleavage and polyadenylation specificity factor subunit 4

Gene

CPSF4

Organism
Homo sapiens (Human)
Status
Reviewed-Annotation score: -Experimental evidence at protein 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).2 Publications

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 – 142C3H1-type 4PROSITE-ProRule annotationAdd BLAST25
Zinc fingeri143 – 169C3H1-type 5PROSITE-ProRule annotationAdd BLAST27
Zinc fingeri243 – 260CCHC-typePROSITE-ProRule annotationAdd BLAST18

GO - Molecular functioni

GO - Biological processi

Keywordsi

Molecular functionRNA-binding
Biological processHost-virus interaction, mRNA processing
LigandMetal-binding, Zinc

Enzyme and pathway databases

ReactomeiR-HSA-109688 Cleavage of Growing Transcript in the Termination Region
R-HSA-159231 Transport of Mature mRNA Derived from an Intronless Transcript
R-HSA-168315 Inhibition of Host mRNA Processing and RNA Silencing
R-HSA-6784531 tRNA processing in the nucleus
R-HSA-72163 mRNA Splicing - Major Pathway
R-HSA-72187 mRNA 3'-end processing
R-HSA-77595 Processing of Intronless Pre-mRNAs

Names & Taxonomyi

Protein namesi
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
NS1 effector domain-binding protein 1
Short name:
Neb-1
No arches homolog
Gene namesi
Name:CPSF4
Synonyms:CPSF30, NAR, NEB1
OrganismiHomo sapiens (Human)
Taxonomic identifieri9606 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo
Proteomesi
  • UP000005640 Componenti: Chromosome 7

Organism-specific databases

EuPathDBiHostDB:ENSG00000160917.14
HGNCiHGNC:2327 CPSF4
MIMi603052 gene
neXtProtiNX_O95639

Subcellular locationi

Extracellular region or secreted Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi apparatus Nucleus Mitochondrion Manual annotation Automatic computational assertionGraphics by Christian Stolte; Source: COMPARTMENTS

Keywords - Cellular componenti

Nucleus

Pathology & Biotechi

Organism-specific databases

DisGeNETi10898
OpenTargetsiENSG00000160917
PharmGKBiPA26844

Polymorphism and mutation databases

BioMutaiCPSF4

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00000744021 – 269Cleavage and polyadenylation specificity factor subunit 4Add BLAST269

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Modified residuei200PhosphoserineCombined sources1
Modified residuei202PhosphoserineCombined sources1
Modified residuei212PhosphoserineCombined sources1
Modified residuei267PhosphoserineCombined sources1

Keywords - PTMi

Phosphoprotein

Proteomic databases

EPDiO95639
MaxQBiO95639
PaxDbiO95639
PeptideAtlasiO95639
PRIDEiO95639

PTM databases

iPTMnetiO95639
PhosphoSitePlusiO95639

Expressioni

Gene expression databases

BgeeiENSG00000160917
CleanExiHS_CPSF4
ExpressionAtlasiO95639 baseline and differential
GenevisibleiO95639 HS

Organism-specific databases

HPAiHPA049094
HPA066470

Interactioni

Subunit structurei

Component of the cleavage and polyadenylation specificity factor (CPSF) complex, composed of CPSF1, CPSF2, CPSF3, CPSF4 and FIP1L1. Interacts with FIP1L1. Association with influenza A virus NS1 blocks processing of pre-mRNAs, thereby preventing nuclear export of host cell mRNAs.3 Publications

Binary interactionsi

Show more details

Protein-protein interaction databases

BioGridi116104, 32 interactors
CORUMiO95639
DIPiDIP-48675N
IntActiO95639, 25 interactors
MINTiO95639
STRINGi9606.ENSP00000292476

Structurei

Secondary structure

1269
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details
Feature keyPosition(s)DescriptionActionsGraphical viewLength
Turni3 – 5Combined sources3
Helixi14 – 19Combined sources6
Helixi42 – 45Combined sources4
Beta strandi56 – 58Combined sources3
Helixi69 – 72Combined sources4
Helixi79 – 81Combined sources3
Beta strandi82 – 85Combined sources4
Turni90 – 92Combined sources3
Helixi97 – 102Combined sources6
Beta strandi111 – 113Combined sources3
Beta strandi122 – 125Combined sources4

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
2D9NNMR-A61-126[»]
2RHKX-ray1.95C/D61-121[»]
6BLLelectron microscopy3.40C1-269[»]
6FBSelectron microscopy3.07C1-178[»]
ProteinModelPortaliO95639
SMRiO95639
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiO95639

Family & Domainsi

Sequence similaritiesi

Belongs to the CPSF4/YTH1 family.Curated

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 – 142C3H1-type 4PROSITE-ProRule annotationAdd BLAST25
Zinc fingeri143 – 169C3H1-type 5PROSITE-ProRule annotationAdd BLAST27
Zinc fingeri243 – 260CCHC-typePROSITE-ProRule annotationAdd BLAST18

Keywords - Domaini

Repeat, Zinc-finger

Phylogenomic databases

eggNOGiKOG1040 Eukaryota
COG5084 LUCA
GeneTreeiENSGT00390000009627
HOGENOMiHOG000212457
HOVERGENiHBG051108
InParanoidiO95639
KOiK14404
OMAiANKCTKG
OrthoDBiEOG091G0JUF
PhylomeDBiO95639
TreeFamiTF314871

Family and domain databases

InterProiView protein in InterPro
IPR000571 Znf_CCCH
IPR036855 Znf_CCCH_sf
IPR001878 Znf_CCHC
IPR036875 Znf_CCHC_sf
PfamiView protein in Pfam
PF00642 zf-CCCH, 1 hit
PF00098 zf-CCHC, 1 hit
SMARTiView protein in SMART
SM00343 ZnF_C2HC, 1 hit
SM00356 ZnF_C3H1, 5 hits
SUPFAMiSSF57756 SSF57756, 1 hit
SSF90229 SSF90229, 2 hits
PROSITEiView protein in PROSITE
PS50103 ZF_C3H1, 5 hits
PS50158 ZF_CCHC, 1 hit

Sequences (3)i

Sequence statusi: Complete.

This entry describes 3 isoformsi produced by alternative splicing. AlignAdd to basket

Isoform 1 (identifier: O95639-1) [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
MQEIIASVDH IKFDLEIAVE QQLGAQPLPF PGMDKSGAAV CEFFLKAACG
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
YLVGFCPEGP SCKFMHPRFE LPMGTTEQPP LPQQTQPPAK QSNNPPLQRS
210 220 230 240 250
SSLIQLTSQN SSPNQQRTPQ VIGVMQSQNS SAGNRGPRPL EQVTCYKCGE
260
KGHYANRCTK GHLAFLSGQ
Length:269
Mass (Da):30,255
Last modified:May 1, 1999 - v1
Checksum:i49444E3EB840464A
GO
Isoform 2 (identifier: O95639-2) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     191-215: Missing.

Note: No experimental confirmation available.
Show »
Length:244
Mass (Da):27,547
Checksum:i0DF72BE36CF97106
GO
Isoform 3 (identifier: O95639-3) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     191-216: Missing.

Note: May be due to a competing acceptor splice site. No experimental confirmation available.
Show »
Length:243
Mass (Da):27,419
Checksum:i3535FE5A0D525C8F
GO

Alternative sequence

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Alternative sequenceiVSP_008602191 – 216Missing in isoform 3. 1 PublicationAdd BLAST26
Alternative sequenceiVSP_008601191 – 215Missing in isoform 2. 1 PublicationAdd BLAST25

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
U79569 mRNA Translation: AAD00321.1
CR542161 mRNA Translation: CAG46958.1
EF191081 Genomic DNA Translation: ABN05292.1
CH236956 Genomic DNA Translation: EAL23878.1
CH471091 Genomic DNA Translation: EAW76667.1
CH471091 Genomic DNA Translation: EAW76668.1
BC003101 mRNA Translation: AAH03101.1
BC050738 mRNA Translation: AAH50738.1
CCDSiCCDS47652.1 [O95639-2]
CCDS5664.1 [O95639-1]
RefSeqiNP_001075028.1, NM_001081559.2 [O95639-2]
NP_001305089.1, NM_001318160.1 [O95639-3]
NP_001305090.1, NM_001318161.1
NP_001305091.1, NM_001318162.1
NP_006684.1, NM_006693.3 [O95639-1]
UniGeneiHs.489287

Genome annotation databases

EnsembliENST00000292476; ENSP00000292476; ENSG00000160917 [O95639-1]
ENST00000436336; ENSP00000395311; ENSG00000160917 [O95639-2]
GeneIDi10898
KEGGihsa:10898
UCSCiuc003uqi.4 human [O95639-1]

Keywords - Coding sequence diversityi

Alternative splicing

Similar proteinsi

Entry informationi

Entry nameiCPSF4_HUMAN
AccessioniPrimary (citable) accession number: O95639
Secondary accession number(s): D6W5S8
, Q6FGE6, Q86TF8, Q9BTW6
Entry historyiIntegrated into UniProtKB/Swiss-Prot: October 24, 2003
Last sequence update: May 1, 1999
Last modified: April 25, 2018
This is version 158 of the entry and version 1 of the sequence. See complete history.
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programChordata Protein Annotation Program
DisclaimerAny medical or genetic information present in this entry is provided for research, educational and informational purposes only. It is not in any way intended to be used as a substitute for professional medical advice, diagnosis, treatment or care.

Miscellaneousi

Keywords - Technical termi

3D-structure, Complete proteome, Reference proteome
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Main funding by: National Institutes of Health