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Protein

Pre-mRNA 3'-end-processing factor FIP1

Gene

Fip1l1

Organism
Mus musculus (Mouse)
Status
Reviewed-Annotation score: Annotation score: 4 out of 5-Experimental evidence at protein leveli

Functioni

Component of the cleavage and polyadenylation specificity factor (CPSF) complex that plays 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. FIP1L1 contributes to poly(A) site recognition and stimulates poly(A) addition. Binds to U-rich RNA sequence elements surrounding the poly(A) site. May act to tether poly(A) polymerase to the CPSF complex (By similarity).By similarity

GO - Molecular functioni

GO - Biological processi

  • mRNA polyadenylation Source: MGI
Complete GO annotation...

Keywords - Biological processi

mRNA processing

Keywords - Ligandi

RNA-binding

Enzyme and pathway databases

ReactomeiR-MMU-109688. Cleavage of Growing Transcript in the Termination Region.
R-MMU-72163. mRNA Splicing - Major Pathway.
R-MMU-72187. mRNA 3'-end processing.
R-MMU-77595. Processing of Intronless Pre-mRNAs.

Names & Taxonomyi

Protein namesi
Recommended name:
Pre-mRNA 3'-end-processing factor FIP1
Alternative name(s):
FIP1-like 1 protein
Gene namesi
Name:Fip1l1
OrganismiMus musculus (Mouse)
Taxonomic identifieri10090 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresGliresRodentiaSciurognathiMuroideaMuridaeMurinaeMusMus
Proteomesi
  • UP000000589 Componenti: Chromosome 5

Organism-specific databases

MGIiMGI:1914149. Fip1l1.

Subcellular locationi

GO - Cellular componenti

  • mRNA cleavage and polyadenylation specificity factor complex Source: MGI
  • nucleus Source: MGI
Complete GO annotation...

Keywords - Cellular componenti

Nucleus

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 581581Pre-mRNA 3'-end-processing factor FIP1PRO_0000215038Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Modified residuei84 – 841PhosphoserineCombined sources
Modified residuei86 – 861PhosphoserineCombined sources
Modified residuei88 – 881PhosphoserineCombined sources
Modified residuei280 – 2801PhosphoserineCombined sources
Modified residuei411 – 4111PhosphotyrosineBy similarity
Modified residuei479 – 4791PhosphoserineCombined sources
Modified residuei481 – 4811PhosphothreonineCombined sources
Modified residuei483 – 4831PhosphoserineCombined sources
Modified residuei487 – 4871PhosphoserineCombined sources
Modified residuei541 – 5411PhosphoserineBy similarity

Keywords - PTMi

Phosphoprotein

Proteomic databases

MaxQBiQ9D824.
PaxDbiQ9D824.
PeptideAtlasiQ9D824.
PRIDEiQ9D824.

PTM databases

iPTMnetiQ9D824.
PhosphoSiteiQ9D824.

Expressioni

Gene expression databases

BgeeiENSMUSG00000029227.
CleanExiMM_FIP1L1.
ExpressionAtlasiQ9D824. baseline and differential.
GenevisibleiQ9D824. MM.

Interactioni

Subunit structurei

Component of the cleavage and polyadenylation specificity factor (CPSF) complex, composed of CPSF1, CPSF2, CPSF3, CPSF4 and FIP1L1. Found in a complex with CPSF1, FIP1L1 and PAPOLA. Interacts with CPSF1, CPSF4, CSTF2 and CSTF3 (By similarity). Interacts with AHCYL1 (when phosphorylated); the interaction is direct and associates AHCYL1 with the CPSF complex and RNA (PubMed:19224921). Interacts with PAPOLA; the interaction seems to be increased by the interaction with AHCYL1 (PubMed:19224921).By similarity1 Publication

Protein-protein interaction databases

BioGridi211797. 1 interaction.
IntActiQ9D824. 3 interactions.
MINTiMINT-4124204.
STRINGi10090.ENSMUSP00000109164.

Structurei

3D structure databases

ProteinModelPortaliQ9D824.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Region

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Regioni1 – 332332Necessary for stimulating PAPOLA activityBy similarityAdd
BLAST
Regioni1 – 110110Sufficient for interaction with PAPOLABy similarityAdd
BLAST
Regioni136 – 21984Sufficient for interaction with CPSF4By similarityAdd
BLAST
Regioni428 – 581154Sufficient for interaction with CPSF1 and CSTF3By similarityAdd
BLAST
Regioni478 – 53558Sufficient for interaction with AHCYL11 PublicationAdd
BLAST

Compositional bias

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Compositional biasi332 – 39160Pro-richAdd
BLAST
Compositional biasi441 – 549109Arg-richAdd
BLAST
Compositional biasi457 – 581125Glu-richAdd
BLAST

Sequence similaritiesi

Belongs to the FIP1 family.Curated

Phylogenomic databases

eggNOGiKOG1049. Eukaryota.
COG5213. LUCA.
GeneTreeiENSGT00730000111028.
HOGENOMiHOG000004854.
HOVERGENiHBG059889.
InParanoidiQ9D824.
KOiK14405.
OMAiGNNIQVI.
PhylomeDBiQ9D824.
TreeFamiTF318610.

Family and domain databases

InterProiIPR007854. Fip1.
[Graphical view]
PfamiPF05182. Fip1. 1 hit.
[Graphical view]

Sequences (4)i

Sequence statusi: Complete.

This entry describes 4 isoformsi produced by alternative splicing. AlignAdd to basket

Isoform 1 (identifier: Q9D824-1) [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
MSAGEVERLV ELSGGTGGDE EEEWLYGGPW DVHVHSDLAK DLDENEVERP
60 70 80 90 100
EEENASANPP SGIEEEAAEN GVAKPKVTET EDDSDSDSDD DEDDVHVTIG
110 120 130 140 150
DIKTGAPQYG SYGTAPVNLN IKAGGRVYGN TGTKVKGVDL DAPGSINGVP
160 170 180 190 200
LLEVDLDSFE DKPWRKPGAD LSDYFNYGFN EDTWKAYCEK QKRIRMGLEV
210 220 230 240 250
IPVTSTTNKI TVQQGRTGNS EKEAALPSTK AEFTSPPSLF KTGLPPSRNS
260 270 280 290 300
TSSQSQTSTA SRKASSSVGK WQDRYGRAES PDLRRLPGAI DVIGQTITIS
310 320 330 340 350
RVEGRRRANE NSNIQVLSDR SATEVDNNFS KPPPFFPPGA PPTHLPPPPF
360 370 380 390 400
LPPPPTVSTA PPLIPPPGIP ITVPPPGFPP PPGAPPPSLI PTIESGHSSG
410 420 430 440 450
YDSRSARAFP YGNVAFPHLT SSAPSWPSLV DTTKQWDYYA RREKDRDRDR
460 470 480 490 500
ERDRDRERER DRDRERERTR ERERERDHSP TPSVFNSDEE RYRYREYAER
510 520 530 540 550
GYERHRASRE KEERHRERRH REKEETRHKS SRSNSRRRHE SEEGDSHRRH
560 570 580
KHKKSKRSKE GKEAGSEPVP EQESTEAAPA E
Length:581
Mass (Da):64,959
Last modified:June 1, 2001 - v1
Checksum:i2E8D6DF558168035
GO
Isoform 2 (identifier: Q9D824-2) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     248-283: Missing.

Show »
Length:545
Mass (Da):61,060
Checksum:iD8C65A7E20CA0985
GO
Isoform 3 (identifier: Q9D824-3) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     248-283: Missing.
     365-373: Missing.

Show »
Length:536
Mass (Da):60,188
Checksum:iB608BE48974164C0
GO
Isoform 4 (identifier: Q9D824-4) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     211-211: T → TAEDCTMEVTPGAEIQDGRFNLFK
     365-373: Missing.
     487-581: SDEERYRYRE...QESTEAAPAE → RFVGCAGP

Show »
Length:508
Mass (Da):55,796
Checksum:i01BF436596282ED4
GO

Alternative sequence

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Alternative sequencei211 – 2111T → TAEDCTMEVTPGAEIQDGRF NLFK in isoform 4. 1 PublicationVSP_016733
Alternative sequencei248 – 28336Missing in isoform 2 and isoform 3. 1 PublicationVSP_016734Add
BLAST
Alternative sequencei365 – 3739Missing in isoform 3 and isoform 4. 2 PublicationsVSP_016735
Alternative sequencei487 – 58195SDEER…AAPAE → RFVGCAGP in isoform 4. 1 PublicationVSP_016736Add
BLAST

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AK005061 mRNA. Translation: BAB23785.1.
AK008561 mRNA. Translation: BAB25745.1.
AK049672 mRNA. Translation: BAC33867.1.
AK164105 mRNA. Translation: BAE37629.1.
BC003263 mRNA. Translation: AAH03263.1.
CCDSiCCDS19346.1. [Q9D824-2]
CCDS51520.1. [Q9D824-1]
CCDS51521.1. [Q9D824-3]
RefSeqiNP_001153045.1. NM_001159573.1. [Q9D824-1]
NP_001153046.1. NM_001159574.1. [Q9D824-3]
NP_077145.2. NM_024183.5. [Q9D824-2]
UniGeneiMm.272468.

Genome annotation databases

EnsembliENSMUST00000080164; ENSMUSP00000079059; ENSMUSG00000029227. [Q9D824-2]
ENSMUST00000113534; ENSMUSP00000109162; ENSMUSG00000029227. [Q9D824-4]
ENSMUST00000113535; ENSMUSP00000109163; ENSMUSG00000029227. [Q9D824-3]
ENSMUST00000113536; ENSMUSP00000109164; ENSMUSG00000029227. [Q9D824-1]
GeneIDi66899.
KEGGimmu:66899.
UCSCiuc008xtm.2. mouse. [Q9D824-4]
uc008xtn.2. mouse. [Q9D824-2]
uc008xto.2. mouse. [Q9D824-1]
uc008xtp.2. mouse. [Q9D824-3]

Keywords - Coding sequence diversityi

Alternative splicing

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AK005061 mRNA. Translation: BAB23785.1.
AK008561 mRNA. Translation: BAB25745.1.
AK049672 mRNA. Translation: BAC33867.1.
AK164105 mRNA. Translation: BAE37629.1.
BC003263 mRNA. Translation: AAH03263.1.
CCDSiCCDS19346.1. [Q9D824-2]
CCDS51520.1. [Q9D824-1]
CCDS51521.1. [Q9D824-3]
RefSeqiNP_001153045.1. NM_001159573.1. [Q9D824-1]
NP_001153046.1. NM_001159574.1. [Q9D824-3]
NP_077145.2. NM_024183.5. [Q9D824-2]
UniGeneiMm.272468.

3D structure databases

ProteinModelPortaliQ9D824.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi211797. 1 interaction.
IntActiQ9D824. 3 interactions.
MINTiMINT-4124204.
STRINGi10090.ENSMUSP00000109164.

PTM databases

iPTMnetiQ9D824.
PhosphoSiteiQ9D824.

Proteomic databases

MaxQBiQ9D824.
PaxDbiQ9D824.
PeptideAtlasiQ9D824.
PRIDEiQ9D824.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENSMUST00000080164; ENSMUSP00000079059; ENSMUSG00000029227. [Q9D824-2]
ENSMUST00000113534; ENSMUSP00000109162; ENSMUSG00000029227. [Q9D824-4]
ENSMUST00000113535; ENSMUSP00000109163; ENSMUSG00000029227. [Q9D824-3]
ENSMUST00000113536; ENSMUSP00000109164; ENSMUSG00000029227. [Q9D824-1]
GeneIDi66899.
KEGGimmu:66899.
UCSCiuc008xtm.2. mouse. [Q9D824-4]
uc008xtn.2. mouse. [Q9D824-2]
uc008xto.2. mouse. [Q9D824-1]
uc008xtp.2. mouse. [Q9D824-3]

Organism-specific databases

CTDi81608.
MGIiMGI:1914149. Fip1l1.

Phylogenomic databases

eggNOGiKOG1049. Eukaryota.
COG5213. LUCA.
GeneTreeiENSGT00730000111028.
HOGENOMiHOG000004854.
HOVERGENiHBG059889.
InParanoidiQ9D824.
KOiK14405.
OMAiGNNIQVI.
PhylomeDBiQ9D824.
TreeFamiTF318610.

Enzyme and pathway databases

ReactomeiR-MMU-109688. Cleavage of Growing Transcript in the Termination Region.
R-MMU-72163. mRNA Splicing - Major Pathway.
R-MMU-72187. mRNA 3'-end processing.
R-MMU-77595. Processing of Intronless Pre-mRNAs.

Miscellaneous databases

ChiTaRSiFip1l1. mouse.
PROiQ9D824.
SOURCEiSearch...

Gene expression databases

BgeeiENSMUSG00000029227.
CleanExiMM_FIP1L1.
ExpressionAtlasiQ9D824. baseline and differential.
GenevisibleiQ9D824. MM.

Family and domain databases

InterProiIPR007854. Fip1.
[Graphical view]
PfamiPF05182. Fip1. 1 hit.
[Graphical view]
ProtoNetiSearch...

Entry informationi

Entry nameiFIP1_MOUSE
AccessioniPrimary (citable) accession number: Q9D824
Secondary accession number(s): Q8BWX7, Q99LH0, Q9DBB2
Entry historyi
Integrated into UniProtKB/Swiss-Prot: December 20, 2005
Last sequence update: June 1, 2001
Last modified: September 7, 2016
This is version 104 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. MGD cross-references
    Mouse Genome Database (MGD) cross-references in UniProtKB/Swiss-Prot
  2. 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.