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.004G283000.1.p
Common NameSb04g031930, SORBIDRAFT_04g031930
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: 430aa    MW: 46101.4 Da    PI: 7.7739
Description C3H family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Sobic.004G283000.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-CCCH21.63.8e-07107129426
                           ---SGGGGTS--TTTTT-SS-SS CS
               zf-CCCH   4 elCrffartGtCkyGdrCkFaHg 26 
                           ++C+ff+++ +C+yG+rC++ H+
  Sobic.004G283000.1.p 107 RPCKFFLAGTECSYGERCRYPHS 129
                           79******55**********887 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5010310.2582854IPR000571Zinc finger, CCCH-type
SMARTSM003560.12953IPR000571Zinc finger, CCCH-type
SMARTSM003560.0018103130IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010314.981103131IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.103.7E-4107129IPR000571Zinc finger, CCCH-type
PfamPF006421.1E-4107129IPR000571Zinc finger, CCCH-type
SuperFamilySSF902291.83E-5108139IPR000571Zinc finger, CCCH-type
SMARTSM003201.9E-6135174IPR001680WD40 repeat
SuperFamilySSF509783.94E-48137426IPR017986WD40-repeat-containing domain
Gene3DG3DSA:2.130.10.105.7E-37138327IPR015943WD40/YVTN repeat-like-containing domain
PfamPF004001.0E-6139174IPR001680WD40 repeat
PROSITE profilePS5008214.084142183IPR001680WD40 repeat
PROSITE profilePS5029421.595142391IPR017986WD40-repeat-containing domain
PROSITE patternPS006780161175IPR019775WD40 repeat, conserved site
PRINTSPR003202.7E-7161175IPR020472G-protein beta WD-40 repeat
SMARTSM003203.3214251IPR001680WD40 repeat
SMARTSM003200.0093258295IPR001680WD40 repeat
PfamPF004000.029263295IPR001680WD40 repeat
PROSITE profilePS5008211.143265304IPR001680WD40 repeat
PRINTSPR003202.7E-7282296IPR020472G-protein beta WD-40 repeat
PROSITE patternPS006780282296IPR019775WD40 repeat, conserved site
SMARTSM003202.1E-4298335IPR001680WD40 repeat
PfamPF004000.0094300334IPR001680WD40 repeat
PRINTSPR003202.7E-7322336IPR020472G-protein beta WD-40 repeat
Gene3DG3DSA:2.130.10.108.6E-11328426IPR015943WD40/YVTN repeat-like-containing domain
SMARTSM0032025339382IPR001680WD40 repeat
SMARTSM0032019385422IPR001680WD40 repeat
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0005515Molecular Functionprotein binding
GO:0046872Molecular Functionmetal ion binding
Sequence ? help Back to Top
Protein Sequence    Length: 430 aa     Download sequence    Send to blast
MDIETDGRFG NKRVHHRLGP GSGGAPSSTN GKVCNYWRAG RCNRFPCPFL HSELPEAAPP  60
KRPSGPGGNV WRNPHTGGRG GGGGGHSRWG KGPGGGSGIV SHKPPDRPCK FFLAGTECSY  120
GERCRYPHSY CISDSVTMLT PLKGHEKGVT GIALPAGSDK LYSGSKDGTV RMWDCQTGQC  180
AGIIPVGREV GCMIIEGPWL FVGMPDAVKV WNMQTAAEMS LTGPTGQVYA LAVASELLFA  240
ATQDGRILAW RFSAATNCFE PAASLDGHKL AVVSLIVGGM RLYSASMDKT IRVWDLATLQ  300
CIQTLSDHTD VVMSVLCWDQ FLLSCSLDQT IKVWAATESG NLEVTYTHKE DQGALALSGM  360
PDAQSKPVLL CSLNDNTVRL YDLPSFNDRG RLFSKQEIRA IQMGPGGLFF TGDGTGELKV  420
WQWVDGAQT*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
6g6m_A2e-211394218323Tako8
6g6n_A2e-211394218323Tako8
6g6n_B2e-211394218323Tako8
6g6n_C2e-211394218323Tako8
Search in ModeBase
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
17684GGRGGGGGG
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Sbi.99890.0ovary| panicle
Cis-element ? help Back to Top
SourceLink
PlantRegMapSobic.004G283000.1.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
GenBankBT0345660.0BT034566.1 Zea mays full-length cDNA clone ZM_BFb0001E08 mRNA, complete cds.
GenBankEU9720870.0EU972087.1 Zea mays clone 374674 nucleic acid binding protein mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_002454483.10.0zinc finger CCCH domain-containing protein 17
SwissprotQ0DYP50.0C3H17_ORYSJ; Zinc finger CCCH domain-containing protein 17
TrEMBLC5Y0Z70.0C5Y0Z7_SORBI; Uncharacterized protein
STRINGSb04g031930.10.0(Sorghum bicolor)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP20263442
Representative plantOGRP10651624
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G51980.10.0C3H 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]