PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
Previous version: v3.0 v4.0
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID Tp1g08920
Organism
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Brassicaceae incertae sedis; Schrenkiella
Family C3H
Protein Properties Length: 774aa    MW: 90848.7 Da    PI: 7.6279
Description C3H family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Tp1g08920genomethellungiellaView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-CCCH23.11.3e-07237256625
                -SGGGGTS--TTTTT-SS-S CS
    zf-CCCH   6 CrffartGtCkyGdrCkFaH 25 
                C+f+++tG C++G+rC++ H
  Tp1g08920 237 CPFHLKTGACRFGPRCSRVH 256
                ******************99 PP

2zf-CCCH28.91.9e-09335362126
                --S---SGGGGTS..--TTTTT-SS-SS CS
    zf-CCCH   1 yktelCrffartG..tCkyGdrCkFaHg 26 
                +k ++C  ++++   tC++G+ C+F+H+
  Tp1g08920 335 WKVAICGEYMKSRlkTCSRGSACNFIHC 362
                899************************8 PP

Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5010312.681231259IPR000571Zinc finger, CCCH-type
SMARTSM003561.1232258IPR000571Zinc finger, CCCH-type
PfamPF006421.6E-5236256IPR000571Zinc finger, CCCH-type
PRINTSPR018489.3E-12237256IPR009145U2 auxiliary factor small subunit
PRINTSPR018489.3E-12256276IPR009145U2 auxiliary factor small subunit
Gene3DG3DSA:3.30.70.3301.2E-11284330IPR012677Nucleotide-binding alpha-beta plait domain
SuperFamilySSF549283.42E-9285332IPR012677Nucleotide-binding alpha-beta plait domain
SMARTSM003560.021334363IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010311.319334364IPR000571Zinc finger, CCCH-type
PfamPF006423.8E-7335362IPR000571Zinc finger, CCCH-type
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: 774 aa     Download sequence    Send to blast
MEPQNEKKEG ERPEEAVGGK EWLDENKEKA AEMSRKEKRK AMKKLKRKQV RKEIAAKERE  60
EAEAKLNDPA EQEKLKAIEE EEARKREKEL KEFEESERAW REAMEIKRKK EEEEEAEREE  120
EERRWKDQEE SRKLEASRND ECGEDEDGEY EYIEEGPPEI IFQGNEIILR KNKVKVPKKS  180
VTQVEGNEIA DRPTSNPLPP GTEAFPKCQN VSSAQQILNN VAQEVPNFGT EQDKAHCPFH  240
LKTGACRFGP RCSRVHFYPD KSCTILMKNM YNGPGIAWEQ DEGLEVCRNG SLHLKGNVYV  300
HYRSLELAIL AYQSINGRYF AGKQVKCEFV NISRWKVAIC GEYMKSRLKT CSRGSACNFI  360
HCFRNPGGDY EWADQDKPPP RFWIHKMTAL FGYSDEYLKH MEHEYSGSLN DCRSDQPTDS  420
HRQPSRRSRW RDHDHVNVGS KPCYRSLKNH GDTQDRTCGH KFSSHEEKRH GGDESPSSTR  480
GGSLERDLCK ERRYAKDTLR HESKWSEHSP GHRVMRKRIH GRYSDDDSPD GDDDCRGATG  540
LKRNSSRRYG RRDSDSEIQE WLEDEEDTKT HWSSSDRRSR YENHREGSSA DQEESHAHDR  600
VHAVDDKSHR ERSKHRHERS SSRYSHVGDT TESRRRPHRR SESSDLRDNG ENDMKRSAET  660
SLTVYQSDKD KDKSKQRHRY KIRDPDSDRS RKGKRRRRCS RDGVSVQKSP EVNENGKREN  720
VCGLSSDEES SEREETHKER SYRHEKRRRP QHSHDQTPKE SEEFEGETER WRPM
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4yh8_A2e-192283619167Splicing factor U2AF 23 kDa subunit
Search in ModeBase
Cis-element ? help Back to Top
SourceLink
PlantRegMapTp1g08920
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_013657757.10.0zinc finger CCCH domain-containing protein 5-like
SwissprotQ9SY740.0C3H5_ARATH; Zinc finger CCCH domain-containing protein 5
TrEMBLM4DPK50.0M4DPK5_BRARP; Uncharacterized protein
STRINGBostr.13671s0457.1.p0.0(Boechera stricta)
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]