PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
Home  TFext  BLAST  Prediction  Download  Help  About  Links  PlantRegMap
(e.g., LFY)
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID AA65G00086
Organism
Aethionema arabicum
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Aethionemeae; Aethionema
Family C3H
Protein Properties Length: 769aa    MW: 90966.4 Da    PI: 7.4534
Description C3H family protein
Gene Model
Gene Model ID Type Source Coding Sequence
AA65G00086genomeVEGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-CCCH22.91.5e-07227246625
                 -SGGGGTS--TTTTT-SS-S CS
     zf-CCCH   6 CrffartGtCkyGdrCkFaH 25 
                 C+f+++tG C++G+rC++ H
  AA65G00086 227 CPFHLKTGACRFGPRCSRVH 246
                 ******************99 PP
2zf-CCCH28.91.9e-09356383126
                 --S---SGGGGTS..--TTTTT-SS-SS CS
     zf-CCCH   1 yktelCrffartG..tCkyGdrCkFaHg 26 
                 +k ++C  ++++   tC++G+ C+F+H+
  AA65G00086 356 WKVAICGEYMKSRlkTCSRGSACNFIHC 383
                 899************************8 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5010312.399221249IPR000571Zinc finger, CCCH-type
SMARTSM003562.7222248IPR000571Zinc finger, CCCH-type
PRINTSPR018487.3E-37227246IPR009145U2 auxiliary factor small subunit
PfamPF006421.9E-5227246IPR000571Zinc finger, CCCH-type
PRINTSPR018487.3E-37246266IPR009145U2 auxiliary factor small subunit
Gene3DG3DSA:3.30.70.3302.2E-26252351IPR012677Nucleotide-binding alpha-beta plait domain
PROSITE profilePS501029.866253353IPR000504RNA recognition motif domain
SMARTSM003618.1E-5274349IPR003954RNA recognition motif domain, eukaryote
PRINTSPR018487.3E-37282297IPR009145U2 auxiliary factor small subunit
SuperFamilySSF549287.12E-17285353IPR012677Nucleotide-binding alpha-beta plait domain
PRINTSPR018487.3E-37310332IPR009145U2 auxiliary factor small subunit
PRINTSPR018487.3E-37337361IPR009145U2 auxiliary factor small subunit
SMARTSM003560.021355384IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010311.319355385IPR000571Zinc finger, CCCH-type
PfamPF006423.7E-7356383IPR000571Zinc finger, CCCH-type
PRINTSPR018487.3E-37375387IPR009145U2 auxiliary factor small subunit
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0000398Biological ProcessmRNA splicing, via spliceosome
GO:0089701Cellular ComponentU2AF
GO:0000166Molecular Functionnucleotide binding
GO:0003723Molecular FunctionRNA binding
GO:0046872Molecular Functionmetal ion binding
Sequence ? help Back to Top
Protein Sequence    Length: 769 aa     Download sequence    Send to blast
MENEEAAGGK ERSEENQEKA AEMSSKEKRK AMKKMKRKQM RKEIAEKERK ELEAKLNDPA  60
EQERLRAIEE EEARLREEEL KKFEESERAW REAMEMKRKK EEEEEAKREE EEKRWKDLEE  120
SRKLEASRND ECGEDEDGEY EYIEEGPPEI IFQGNEIILR KNKVKVPKKS RVQVEGNEIS  180
DRPTSNPLPP RTEDFTNYQN VRSAQQILEN VAQEVPNFGT EQDKSHCPFH LKTGACRFGP  240
RCSRVHFYPD KSCTLLMKNM YNGPGIAWEQ DEGLEYTEEE AERCYEEFYE DVHTEFLKYG  300
ELVNFKVCRN GSFHLKGNVY VHYRSLESAV LAYQSINGRY FAGKQVKCDF VNISRWKVAI  360
CGEYMKSRLK TCSRGSACNF IHCFRNPGGD YEWADHDKPP PRFWIHKMAA LFGYSDEYLK  420
SMEREYSRTY NDSRADLPTD SYRQHSRRSK SRDHDHENVG SKLSYRNHKN HGEHSHGGKL  480
NTHEKYHNDG RESPSNSTRD CSLERDKDSR YVKDTSRHET KWSKHSPRYQ MTRKRIHDDS  540
SDGDDDDRED ISYKQRNSKR YSRNCSDSEV QEQVDDVNDS RTRVSCSNKN SRRYNTEKSA  600
ANQEKSCERS RNRSSSRNSY VEFSEKDSTE NKHKRSNLQD QENETRHGEY QLDKDRNGDR  660
YRSQDRDFGR SRSQDRDSGR SRSQDRDSGR SRRSSRNGVS VEELRELNGT ETKGNVSGGS  720
SEESSDRETH KERQRRRRSK RRRRSRHSPE EMVKFCEDEE GEIERWRPV
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4yh8_A1e-302183829167Splicing factor U2AF 23 kDa subunit
Search in ModeBase
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1726737RETHKERQRRRR
Cis-element ? help Back to Top
SourceLink
PlantRegMapAA65G00086
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_019098925.10.0PREDICTED: zinc finger CCCH domain-containing protein 5-like
SwissprotQ9SY740.0C3H5_ARATH; Zinc finger CCCH domain-containing protein 5
TrEMBLA0A078G7F00.0A0A078G7F0_BRANA; BnaA08g25830D protein
TrEMBLA0A1P8AVS10.0A0A1P8AVS1_ARATH; Zinc finger C-x8-C-x5-C-x3-H type family protein
STRINGXP_010490955.10.0(Camelina sativa)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM59752025
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G10320.10.0C3H family protein
Publications ? help Back to Top
  1. Lorković ZJ,Wieczorek Kirk DA,Lambermon MH,Filipowicz W
    Pre-mRNA splicing in higher plants.
    Trends Plant Sci., 2000. 5(4): p. 160-7
    [PMID:10740297]
  2. Domon C,Lorković ZJ,Valcárcel J,Filipowicz W
    Multiple forms of the U2 small nuclear ribonucleoprotein auxiliary factor U2AF subunits expressed in higher plants.
    J. Biol. Chem., 1998. 273(51): p. 34603-10
    [PMID:9852132]