PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
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(e.g., LFY)
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID Traes_5DL_56AA11E4E.2
Organism
Triticum aestivum
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; BOP clade; Pooideae; Triticodae; Triticeae; Triticinae; Triticum
Family C3H
Protein Properties Length: 645aa    MW: 73524.3 Da    PI: 7.4464
Description C3H family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Traes_5DL_56AA11E4E.2genomeIWGSCView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-CCCH201.2e-06112131625
                            -SGGGGTS--TTTTT-SS-S CS
                zf-CCCH   6 CrffartGtCkyGdrCkFaH 25 
                            C+f+++t  C++G rC++ H
  Traes_5DL_56AA11E4E.2 112 CPFYLKTAACRFGVRCSRVH 131
                            ******************99 PP
2zf-CCCH24.45.1e-08241268126
                            --S---SGGGGTS..--TTTTT-SS-SS CS
                zf-CCCH   1 yktelCrffartG..tCkyGdrCkFaHg 26 
                            +k ++C  ++r+   tC++G  C+F+H+
  Traes_5DL_56AA11E4E.2 241 WKSAICGEYMRSRfkTCSHGVACNFIHC 268
                            7999***********************8 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5010311.131106134IPR000571Zinc finger, CCCH-type
SMARTSM003567.8107133IPR000571Zinc finger, CCCH-type
PfamPF006421.6E-4111131IPR000571Zinc finger, CCCH-type
PRINTSPR018482.7E-37112131IPR009145U2 auxiliary factor small subunit
PRINTSPR018482.7E-37131151IPR009145U2 auxiliary factor small subunit
Gene3DG3DSA:3.30.70.3301.4E-25137236IPR012677Nucleotide-binding alpha-beta plait domain
PROSITE profilePS501029.917138238IPR000504RNA recognition motif domain
CDDcd125408.19E-50139236No hitNo description
SMARTSM003617.7E-6160234IPR003954RNA recognition motif domain, eukaryote
PRINTSPR018482.7E-37167182IPR009145U2 auxiliary factor small subunit
SuperFamilySSF549281.03E-16169236IPR012677Nucleotide-binding alpha-beta plait domain
PRINTSPR018482.7E-37195217IPR009145U2 auxiliary factor small subunit
PRINTSPR018482.7E-37222246IPR009145U2 auxiliary factor small subunit
PROSITE profilePS5010310.314240270IPR000571Zinc finger, CCCH-type
SMARTSM003560.02240269IPR000571Zinc finger, CCCH-type
PfamPF006421.3E-5241268IPR000571Zinc finger, CCCH-type
PRINTSPR018482.7E-37260272IPR009145U2 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: 645 aa     Download sequence    Send to blast
LLLFLGLFQY NDDHRDETED DGEWEYVEDG PAEIIWQGNE IIVKKKKIKI PKKTEDKPLS  60
QEEERPTSNP LPPQSVAVAS QRREPSLSAR ELLEKVAQET PNFGTEQDKA HCPFYLKTAA  120
CRFGVRCSRV HFYPDKSCTL LMKNMYNGPG LVLEQDEGLE FTDEEIEQSY EEFYEDVHTE  180
FLKFGELVNF KVCRNGSFHL RGNVYVHYKA LDSALLAYNS MNGRYFAGKQ ITCEFVALTK  240
WKSAICGEYM RSRFKTCSHG VACNFIHCFR NPGGDYEWAD WDNPPPKYWT RKMAALFGPS  300
DDAIFDKASD TPDFERLHSS DRKRLRSSDD RYISSRHGDG GAHKRHSSRV FSHSKQEQSN  360
HIMKHGHTRH RREASAANEQ RGQEIEDDTG RYCSPMENER VSQAHKHEEK HRDGHGDGAR  420
GYNGKTKSRK HRSERRESLE SGCSDWPSEF ADAGTSRSPS GSKSTNRQSS DDPNLERGYS  480
TADKSSGKAH IAKSSSRHYV EDDSYGEKVS GRGKSGKHSD RCDDPDDRWL ATNSDVDSDA  540
EAQFLRSSSG VGKGGRNDNA PPDEDDHYQR SSSRSARSRA KDDKSSRKRK KHHSEIRKNS  600
DSDDGPSDSS NIRDLSSHAW RSRSRSSEED LSLHRRRKGR RGHDS
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4yh8_A5e-331032679167Splicing factor U2AF 23 kDa subunit
Search in ModeBase
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1586590RKRKK
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAK3618180.0AK361818.1 Hordeum vulgare subsp. vulgare mRNA for predicted protein, partial cds, clone: NIASHv1150D09.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_020147330.10.0zinc finger CCCH domain-containing protein 16
SwissprotQ6YVX90.0C3H16_ORYSJ; Zinc finger CCCH domain-containing protein 16
TrEMBLA0A3B6MZG10.0A0A3B6MZG1_WHEAT; Uncharacterized protein
STRINGTraes_5DL_56AA11E4E.20.0(Triticum aestivum)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP92961317
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G10320.11e-137C3H family protein
Publications ? help Back to Top
  1. Kikuchi S, et al.
    Collection, mapping, and annotation of over 28,000 cDNA clones from japonica rice.
    Science, 2003. 301(5631): p. 376-9
    [PMID:12869764]
  2. Brenchley R, et al.
    Analysis of the bread wheat genome using whole-genome shotgun sequencing.
    Nature, 2012. 491(7426): p. 705-10
    [PMID:23192148]