Skip Header

You are using a version of browser that may not display all the features of this website. Please consider upgrading your browser.
Protein

Polyadenylation and cleavage factor homolog 4

Gene

PCFS4

Organism
Arabidopsis thaliana (Mouse-ear cress)
Status
Reviewed-Annotation score: Annotation score: 5 out of 5-Experimental evidence at protein leveli

Functioni

Promotes flowering by suppressing FLC-mediated inhibition of flowering through the regulation of FCA pre-mRNA alternative processing (PubMed:18298670). Regulates mRNA maturation including alternative polyadenylation, splicing or transcription initiation of stress-associated genes (PubMed:21364912).2 Publications

Regions

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Zinc fingeri651 – 67323C2H2-typePROSITE-ProRule annotationAdd
BLAST

GO - Molecular functioni

GO - Biological processi

  • flower development Source: UniProtKB-KW
  • mRNA cleavage Source: GO_Central
  • mRNA polyadenylation Source: TAIR
  • mRNA processing Source: UniProtKB
  • positive regulation of flower development Source: TAIR
  • termination of RNA polymerase II transcription Source: GO_Central
Complete GO annotation...

Keywords - Biological processi

Flowering, mRNA processing

Keywords - Ligandi

Metal-binding, Zinc

Enzyme and pathway databases

ReactomeiR-ATH-72163. mRNA Splicing - Major Pathway.

Names & Taxonomyi

Protein namesi
Recommended name:
Polyadenylation and cleavage factor homolog 4Curated
Gene namesi
Name:PCFS41 Publication
Ordered Locus Names:At4g04885Imported
ORF Names:T4B21.1Imported
OrganismiArabidopsis thaliana (Mouse-ear cress)Imported
Taxonomic identifieri3702 [NCBI]
Taxonomic lineageiEukaryotaViridiplantaeStreptophytaEmbryophytaTracheophytaSpermatophytaMagnoliophytaeudicotyledonsGunneridaePentapetalaerosidsmalvidsBrassicalesBrassicaceaeCamelineaeArabidopsis
Proteomesi
  • UP000006548 Componenti: Chromosome 4

Organism-specific databases

TAIRiAT4G04885.

Subcellular locationi

  • Nucleus 1 Publication
  • Cytoplasm 1 Publication

GO - Cellular componenti

  • cytoplasm Source: TAIR
  • mRNA cleavage factor complex Source: GO_Central
  • nucleus Source: TAIR
Complete GO annotation...

Keywords - Cellular componenti

Cytoplasm, Nucleus

Pathology & Biotechi

Disruption phenotypei

Delayed flowering mediated by FLC under both long-day and short-day conditions, but normal response to vernalization treatment. Abnormal alternative polyadenylation-dependent FCA expression profile of the known transcripts (PubMed:18298670). Global differentially processed (DPG) and differentially expressed (DEG) stress-associated genes due to alternative polyadenylation, splicing or transcription initiation (PubMed:21364912).2 Publications

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 808808Polyadenylation and cleavage factor homolog 4PRO_0000431350Add
BLAST

Proteomic databases

PaxDbiQ0WPF2.
PRIDEiQ0WPF2.

Expressioni

Tissue specificityi

Expressed in embryos, seedlings, roots, leaves and flowers.1 Publication

Developmental stagei

During embryogenesis, first observed at the heart stage. Expressed through the whole developing embryo from the torpedo stage. Disappears in the root tip of the mature embryo and in adult plants. In seedlings, mostly present in the shoot apical meristem and young leaves. In flowers, detected in sepals, stamens and pistils, but not in petals.1 Publication

Interactioni

Subunit structurei

Homodimer. Forms a complex with cleavage and polyadenylation specificity factor (CPSF) subunits CPSF30, CLPS3 and PCFS1.2 Publications

Binary interactionsi

WithEntry#Exp.IntActNotes
CLPS3Q9SR063EBI-1775648,EBI-1775627

GO - Molecular functioni

Protein-protein interaction databases

BioGridi11138. 7 interactions.
IntActiQ0WPF2. 5 interactions.
STRINGi3702.AT4G04885.1.

Structurei

3D structure databases

ProteinModelPortaliQ0WPF2.
SMRiQ0WPF2. Positions 65-169.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini61 – 189129CIDPROSITE-ProRule annotationAdd
BLAST

Sequence similaritiesi

Contains 1 C2H2-type zinc finger.PROSITE-ProRule annotation
Contains 1 CID domain.PROSITE-ProRule annotation

Zinc finger

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Zinc fingeri651 – 67323C2H2-typePROSITE-ProRule annotationAdd
BLAST

Keywords - Domaini

Zinc-finger

Phylogenomic databases

eggNOGiKOG2071. Eukaryota.
ENOG4112CDU. LUCA.
HOGENOMiHOG000242622.
InParanoidiQ0WPF2.
KOiK14400.
OMAiRNESAIS.
OrthoDBiEOG0936018X.
PhylomeDBiQ0WPF2.

Family and domain databases

Gene3Di1.25.40.90. 1 hit.
InterProiIPR006569. CID_dom.
IPR008942. ENTH_VHS.
IPR006903. RNA_pol_II-bd.
IPR007087. Znf_C2H2.
[Graphical view]
PfamiPF04818. CTD_bind. 1 hit.
[Graphical view]
SMARTiSM00582. RPR. 1 hit.
[Graphical view]
SUPFAMiSSF48464. SSF48464. 1 hit.
PROSITEiPS51391. CID. 1 hit.
PS00028. ZINC_FINGER_C2H2_1. 1 hit.
[Graphical view]

Sequences (2)i

Sequence statusi: Complete.

This entry describes 2 isoformsi produced by alternative splicing. AlignAdd to basket

Isoform 1 (identifier: Q0WPF2-1) [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
MDSEKILNPR LVSINSTSRK GMSVELPQKP PPPPSLLDRF KALLNQREDE
60 70 80 90 100
FGGGEEVLPP SMDEIVQLYE VVLGELTFNS KPIITDLTII AGEQREHGEG
110 120 130 140 150
IANAICTRIL EAPVEQKLPS LYLLDSIVKN IGRDYGRYFS SRLPEVFCLA
160 170 180 190 200
YRQAHPSLHP SMRHLFGTWS SVFPPPVLRK IDMQLQLSSA ANQSSVGASE
210 220 230 240 250
PSQPTRGIHV NPKYLRRLEP SAAENNLRGI NSSARVYGQN SLGGYNDFED
260 270 280 290 300
QLESPSSLSS TPDGFTRRSN DGANPSNQAF NYGMGRATSR DDEHMEWRRK
310 320 330 340 350
ENLGQGNDHE RPRALIDAYG VDTSKHVTIN KPIRDMNGMH SKMVTPWQNT
360 370 380 390 400
EEEEFDWEDM SPTLDRSRAG EFLRSSVPAL GSVRARPRVG NTSDFHLDSD
410 420 430 440 450
IKNGVSHQLR ENWSLSQNYP HTSNRVDTRA GKDLKVLASS VGLVSSNSEF
460 470 480 490 500
GAPPFDSIQD VNSRFGRALP DGTWPHLSAR GPNSLPVPSA HLHHLANPGN
510 520 530 540 550
AMSNRLQGKP LYRPENQVSQ SHLNDMTQQN QMLVNYLPSS SAMAPRPMQS
560 570 580 590 600
LLTHVSHGYP PHGSTIRPSL SIQGGEAMHP LSSGVLSQIG ASNQPPGGAF
610 620 630 640 650
SGLIGSLMAQ GLISLNNQPA GQGPLGLEFD ADMLKIRNES AISALYGDLP
660 670 680 690 700
RQCTTCGLRF KCQEEHSKHM DWHVTKNRMS KNHKQNPSRK WFVSASMWLS
710 720 730 740 750
GAEALGAEAV PGFLPTEPTT EKKDDEDMAV PADEDQTSCA LCGEPFEDFY
760 770 780 790 800
SDETEEWMYK GAVYMNAPEE STTDMDKSQL GPIVHAKCRP ESNGGDMEEG

SQRKKMRS
Length:808
Mass (Da):89,228
Last modified:September 5, 2006 - v1
Checksum:i03BABA1EE2B43515
GO
Isoform 2 (identifier: Q0WPF2-2) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     615-808: Missing.

Show »
Length:614
Mass (Da):67,516
Checksum:iBBD081039FCBB2DE
GO

Sequence cautioni

The sequence AAD03447 differs from that shown. Reason: Erroneous gene model prediction. Curated

Alternative sequence

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Alternative sequencei615 – 808194Missing in isoform 2. VSP_057255Add
BLAST

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AF118223 Genomic DNA. Translation: AAD03447.1. Sequence problems.
CP002687 Genomic DNA. Translation: AEE82437.1.
AK119152 mRNA. Translation: BAC43722.1.
AK229122 mRNA. Translation: BAF00997.1.
RefSeqiNP_680598.2. NM_148232.2. [Q0WPF2-1]
UniGeneiAt.24314.

Genome annotation databases

EnsemblPlantsiAT4G04885.1; AT4G04885.1; AT4G04885. [Q0WPF2-1]
GeneIDi825827.
KEGGiath:AT4G04885.

Keywords - Coding sequence diversityi

Alternative splicing

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AF118223 Genomic DNA. Translation: AAD03447.1. Sequence problems.
CP002687 Genomic DNA. Translation: AEE82437.1.
AK119152 mRNA. Translation: BAC43722.1.
AK229122 mRNA. Translation: BAF00997.1.
RefSeqiNP_680598.2. NM_148232.2. [Q0WPF2-1]
UniGeneiAt.24314.

3D structure databases

ProteinModelPortaliQ0WPF2.
SMRiQ0WPF2. Positions 65-169.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi11138. 7 interactions.
IntActiQ0WPF2. 5 interactions.
STRINGi3702.AT4G04885.1.

Proteomic databases

PaxDbiQ0WPF2.
PRIDEiQ0WPF2.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblPlantsiAT4G04885.1; AT4G04885.1; AT4G04885. [Q0WPF2-1]
GeneIDi825827.
KEGGiath:AT4G04885.

Organism-specific databases

TAIRiAT4G04885.

Phylogenomic databases

eggNOGiKOG2071. Eukaryota.
ENOG4112CDU. LUCA.
HOGENOMiHOG000242622.
InParanoidiQ0WPF2.
KOiK14400.
OMAiRNESAIS.
OrthoDBiEOG0936018X.
PhylomeDBiQ0WPF2.

Enzyme and pathway databases

ReactomeiR-ATH-72163. mRNA Splicing - Major Pathway.

Miscellaneous databases

PROiQ0WPF2.

Family and domain databases

Gene3Di1.25.40.90. 1 hit.
InterProiIPR006569. CID_dom.
IPR008942. ENTH_VHS.
IPR006903. RNA_pol_II-bd.
IPR007087. Znf_C2H2.
[Graphical view]
PfamiPF04818. CTD_bind. 1 hit.
[Graphical view]
SMARTiSM00582. RPR. 1 hit.
[Graphical view]
SUPFAMiSSF48464. SSF48464. 1 hit.
PROSITEiPS51391. CID. 1 hit.
PS00028. ZINC_FINGER_C2H2_1. 1 hit.
[Graphical view]
ProtoNetiSearch...

Entry informationi

Entry nameiPCFS4_ARATH
AccessioniPrimary (citable) accession number: Q0WPF2
Secondary accession number(s): Q8GW12, Q9ZS85
Entry historyi
Integrated into UniProtKB/Swiss-Prot: November 26, 2014
Last sequence update: September 5, 2006
Last modified: September 7, 2016
This is version 81 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programPlant Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. Arabidopsis thaliana
    Arabidopsis thaliana: entries and gene names
  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.