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 Sobic.005G111700.2.p
Organism
Sorghum bicolor
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; PACMAD clade; Panicoideae; Andropogonodae; Andropogoneae; Sorghinae; Sorghum
Family C3H
Protein Properties Length: 338aa    MW: 36276.9 Da    PI: 8.6389
Description C3H family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Sobic.005G111700.2.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-CCCH33.85.7e-116083326
                          S---SGGGGTS--TTTTT-SS-SS CS
               zf-CCCH  3 telCrffartGtCkyGdrCkFaHg 26
                          ++ C++++rtG C++G +CkF+H+
  Sobic.005G111700.2.p 60 EPDCSYYMRTGMCRFGMTCKFNHP 83
                          789********************8 PP
2zf-CCCH39.31.1e-12105129327
                           S---SGGGGTS--TTTTT-SS-SSS CS
               zf-CCCH   3 telCrffartGtCkyGdrCkFaHgp 27 
                           +++C+++++tGtCk+G++CkF+H++
  Sobic.005G111700.2.p 105 QPECQYYLKTGTCKFGATCKFHHPR 129
                           799********************96 PP
3zf-CCCH36.48.6e-12152175427
                           ---SGGGGTS--TTTTT-SS-SSS CS
               zf-CCCH   4 elCrffartGtCkyGdrCkFaHgp 27 
                           ++C +++rtG+Ck+G++CkF+H++
  Sobic.005G111700.2.p 152 KECAYYLRTGQCKFGSTCKFHHPQ 175
                           68********************97 PP
4zf-CCCH361.2e-11249274227
                           -S---SGGGGTS--TTTTT-SS-SSS CS
               zf-CCCH   2 ktelCrffartGtCkyGdrCkFaHgp 27 
                           ++++C+f+ r+G Ck+G++CkF H++
  Sobic.005G111700.2.p 249 GEPICSFYNRYGMCKFGPNCKFDHPM 274
                           579*********************95 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM003561.8E-45784IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010313.2535785IPR000571Zinc finger, CCCH-type
PfamPF006421.3E-76083IPR000571Zinc finger, CCCH-type
SuperFamilySSF902291.1E-56285IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.103.4E-46384IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010315.244102130IPR000571Zinc finger, CCCH-type
SMARTSM003565.0E-6102129IPR000571Zinc finger, CCCH-type
PfamPF006424.5E-10105129IPR000571Zinc finger, CCCH-type
SuperFamilySSF902291.23E-6105131IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.103.0E-5108130IPR000571Zinc finger, CCCH-type
SuperFamilySSF902297.85E-7148177IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010314.99148176IPR000571Zinc finger, CCCH-type
SMARTSM003562.2E-5150175IPR000571Zinc finger, CCCH-type
PfamPF006421.5E-9152175IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.101.1E-4154174IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010314.605247275IPR000571Zinc finger, CCCH-type
SMARTSM003564.3E-5247274IPR000571Zinc finger, CCCH-type
PfamPF006423.1E-8249274IPR000571Zinc finger, CCCH-type
SuperFamilySSF902296.41E-6250275IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.103.0E-4252272IPR000571Zinc finger, CCCH-type
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0017148Biological Processnegative regulation of translation
GO:0005829Cellular Componentcytosol
GO:0010313Molecular Functionphytochrome binding
GO:0046872Molecular Functionmetal ion binding
GO:0048027Molecular FunctionmRNA 5'-UTR binding
Sequence ? help Back to Top
Protein Sequence    Length: 338 aa     Download sequence    Send to blast
MAAPSGGGGG GAGEGSSSAA AAATIGAHGV DQVAEAMWQM NLGETMAPME LGPYPERVGE  60
PDCSYYMRTG MCRFGMTCKF NHPADRKLAV AAARMKGEYP QRIGQPECQY YLKTGTCKFG  120
ATCKFHHPRE KAAMATRVQL NELGYPLRAN EKECAYYLRT GQCKFGSTCK FHHPQPSTMM  180
VAVRGSVYSP GQSATSPGQH AYQGAVTSWP LSRSASFIAS PRWPGHSSYA QVIVPPGLVQ  240
VPGWSPYTGE PICSFYNRYG MCKFGPNCKF DHPMGSAMYG HASSPTSEAP TSLRMLAHVP  300
SHPEVSPDSG SGRSRRIAHS DSQQIPSVER STEREAS*
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Sbi.79970.0embryo| leaf| panicle
Cis-element ? help Back to Top
SourceLink
PlantRegMapSobic.005G111700.2.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
GenBankBT0405710.0BT040571.1 Zea mays full-length cDNA clone ZM_BFc0101B05 mRNA, complete cds.
GenBankBT0674520.0BT067452.1 Zea mays full-length cDNA clone ZM_BFc0051N01 mRNA, complete cds.
GenBankJX4284730.0JX428473.1 Zea mays subsp. mays clone pUT3069 C3H11 C3H type transcription factor mRNA, partial cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_002450713.11e-172zinc finger CCCH domain-containing protein 63
SwissprotQ2R4J41e-146C3H63_ORYSJ; Zinc finger CCCH domain-containing protein 63
TrEMBLA0A1Z5RI560.0A0A1Z5RI56_SORBI; Uncharacterized protein
STRINGSb05g013190.11e-171(Sorghum bicolor)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G02830.19e-94zinc finger protein 1
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]