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 Sevir.4G176700.4.p
Organism
Setaria viridis
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; PACMAD clade; Panicoideae; Panicodae; Paniceae; Cenchrinae; Setaria
Family C3H
Protein Properties Length: 348aa    MW: 39189.4 Da    PI: 8.0467
Description C3H family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Sevir.4G176700.4.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-CCCH18.34.2e-06527326
                        S---SGGGGTS--TTTTT-SS-SS CS
             zf-CCCH  3 telCrffartGtCkyGdrCkFaHg 26
                        ++lC+ff+  G C  G+ C F+H+
  Sevir.4G176700.4.p  5 RVLCKFFMH-GACLKGEYCEFSHD 27
                        78***8888.*************5 PP
2zf-CCCH28.52.6e-093555526
                        --SGGGGTS--TTTTT-SS-SS CS
             zf-CCCH  5 lCrffartGtCkyGdrCkFaHg 26
                         C f+++ G C+yG+rC++ H+
  Sevir.4G176700.4.p 35 VCTFYQK-GACSYGSRCRYDHV 55
                        5******.*************7 PP
3zf-CCCH19.41.8e-06151172426
                         ---SGGGGTS--TTTTT-SS-SS CS
             zf-CCCH   4 elCrffartGtCkyGdrCkFaHg 26 
                         ++C+ fa+ G C+yG+ C+ +Hg
  Sevir.4G176700.4.p 151 PICS-FAAAGNCPYGEGCPQMHG 172
                         6788.*****************9 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5010313.77229IPR000571Zinc finger, CCCH-type
SuperFamilySSF902294.58E-7327IPR000571Zinc finger, CCCH-type
SMARTSM003564.9E-5328IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010314.2773057IPR000571Zinc finger, CCCH-type
SuperFamilySSF902294.97E-53254IPR000571Zinc finger, CCCH-type
SMARTSM003563.4E-43256IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.102.2E-43554IPR000571Zinc finger, CCCH-type
PfamPF006428.9E-73555IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010312.615147174IPR000571Zinc finger, CCCH-type
SMARTSM003560.0064148173IPR000571Zinc finger, CCCH-type
SuperFamilySSF578507.07E-12205280No hitNo description
Gene3DG3DSA:3.30.40.104.2E-10209275IPR013083Zinc finger, RING/FYVE/PHD-type
CDDcd001620.00175215275No hitNo description
SMARTSM001842.8E-7216273IPR001841Zinc finger, RING-type
PfamPF000972.2E-7216273IPR018957Zinc finger, C3HC4 RING-type
PROSITE profilePS5008912.224216274IPR001841Zinc finger, RING-type
PROSITE patternPS005180240249IPR017907Zinc finger, RING-type, conserved site
PROSITE profilePS5010310.624303332IPR000571Zinc finger, CCCH-type
SMARTSM003563.1303331IPR000571Zinc finger, CCCH-type
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0005515Molecular Functionprotein binding
GO:0008270Molecular Functionzinc ion binding
Sequence ? help Back to Top
Protein Sequence    Length: 348 aa     Download sequence    Send to blast
MSTNRVLCKF FMHGACLKGE YCEFSHDWKD QANNVCTFYQ KGACSYGSRC RYDHVKVSRN  60
PTVPPPPPSS STARLASTSR QLLSSSHLPH TGHQTDSSNQ RNQISVDMLA HSTSKPAWSN  120
DFQHVVSEDE IDWSSNQTLQ NQTKLKPSDL PICSFAAAGN CPYGEGCPQM HGDLCTTCGK  180
MCLHPYRSDE REEHIKLCAK NHKRLEALKR SQEIECSVCL DRVLSKPTAA ERKFGLLSEC  240
DHPFCIACIR NWRSNSPASG MDVNSALRAC PICRKLSYYV IPSVLWYFSK EEKEEITESY  300
KSKLKSIDCK YFDFGTGSCP FGTSCFYRRV VELSTSLPER FLATYVQ*
Functional Description ? help Back to Top
Source Description
UniProtE3 ubiquitin ligase catalyzing the covalent attachment of ubiquitin moieties onto substrate proteins. {ECO:0000250}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapSevir.4G176700.4.p
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankBT0656290.0BT065629.1 Zea mays full-length cDNA clone ZM_BFb0371O01 mRNA, complete cds.
GenBankJX4284710.0JX428471.1 Zea mays subsp. mays clone pUT3067 C3H5 C3H type transcription factor mRNA, partial cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_004965338.10.0E3 ubiquitin-protein ligase makorin
SwissprotQ5ZA070.0C3H41_ORYSJ; E3 ubiquitin-protein ligase makorin
TrEMBLK3XXQ20.0K3XXQ2_SETIT; Uncharacterized protein
STRINGSi006712m0.0(Setaria italica)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G08505.21e-130C3H 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. Sahi VP, et al.
    A molecular insight into Darwin's "plant brain hypothesis" through expression pattern study of the MKRN gene in plant embryo compared with mouse embryo.
    Plant Signal Behav, 2012. 7(3): p. 375-81
    [PMID:22499205]
  3. Wadekar HB,Sahi VP,Morita EH,Abe S
    MKRN expression pattern during embryonic and post-embryonic organogenesis in rice (Oryza sativa L. var. Nipponbare).
    Planta, 2013. 237(4): p. 1083-95
    [PMID:23262670]