PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID Sobic.003G001300.1.p
Organism
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 C2H2
Protein Properties Length: 482aa    MW: 50433.3 Da    PI: 9.239
Description C2H2 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Sobic.003G001300.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-C2H218.84.5e-067294123
                          EEETTTTEEESSHHHHHHHHHHT CS
               zf-C2H2  1 ykCpdCgksFsrksnLkrHirtH 23
                          ++C++Cgk F r  nL+ H r H
  Sobic.003G001300.1.p 72 FVCEICGKGFQRDQNLQLHRRGH 94
                          89*******************88 PP

2zf-C2H214.79e-05148170123
                           EEETTTTEEESSHHHHHHHHHHT CS
               zf-C2H2   1 ykCpdCgksFsrksnLkrHirtH 23 
                           +kC +C+k++  +s+ k H +t+
  Sobic.003G001300.1.p 148 WKCDKCNKRYAVQSDWKAHAKTC 170
                           58******************998 PP

Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF576679.41E-87194No hitNo description
Gene3DG3DSA:3.30.160.601.3E-57294IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
PROSITE profilePS5015711.6147294IPR007087Zinc finger, C2H2
SMARTSM003550.0127294IPR015880Zinc finger, C2H2-like
PROSITE patternPS0002807494IPR007087Zinc finger, C2H2
SMARTSM00355250113143IPR015880Zinc finger, C2H2-like
Gene3DG3DSA:3.30.160.607.2E-5136169IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamilySSF576679.41E-8143168No hitNo description
SMARTSM00355110148168IPR015880Zinc finger, C2H2-like
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0010150Biological Processleaf senescence
GO:0045893Biological Processpositive regulation of transcription, DNA-templated
GO:0048510Biological Processregulation of timing of transition from vegetative to reproductive phase
GO:0048573Biological Processphotoperiodism, flowering
GO:0003676Molecular Functionnucleic acid binding
GO:0046872Molecular Functionmetal ion binding
Sequence ? help Back to Top
Protein Sequence    Length: 482 aa     Download sequence    Send to blast
MASEAAPAAA ASIISNNNPC LFAAPLTNHQ QQQQQLALPP PAKKKRSLPG TPDPDAEVIA  60
LSPRTLLATN RFVCEICGKG FQRDQNLQLH RRGHNLPWKL RQRSGKEPRK RVYVCPEKTC  120
VHHNPSRALG DLTGIKKHFC RKHGEKKWKC DKCNKRYAVQ SDWKAHAKTC GTREYRCDCG  180
TLFSRRDSFI THRAFCDALA EETARLNAAS SAGAATSYLF AGSPPGLHPN MMLPPAPAPA  240
PAPGPHLKPL GPHVVGGLSL WGGGDALPSM VGHIGATGGI LLPGGEPAVP PQLYADLFSP  300
APPQLGWLCG NGSKLASSNA SELTSAAAAS GKQDTDSVFS GQHHAKPTAP AADMSATALL  360
QKAAQMGAVT SGSGNAMSMP PGALEPADIG HHQSSDGAGG LLFSASSQQN ATNLRLRGTD  420
TTLIMSHLTA AAAGNMPYDV LSAVRHAGLK DAAVAVGREE TRDFLGVGVQ ALCSSSLNGW  480
I*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5b3h_C3e-36144211370Zinc finger protein JACKDAW
5b3h_F3e-36144211370Zinc finger protein JACKDAW
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Sbi.156641e-159callus| embryo
Expression -- Description ? help Back to Top
Source Description
UniprotDEVELOPMENTAL STAGE: Expressed throughout development. {ECO:0000269|PubMed:21265895}.
UniprotTISSUE SPECIFICITY: Highly expressed in vegetative organs and at lower levels in flowers and siliques. Expressed predominantly in roots. In roots, present in cortex, endodermis, and pericycle layer (PubMed:25829440). {ECO:0000269|PubMed:21265895, ECO:0000269|PubMed:25829440, ECO:0000305|PubMed:21265895}.
Functional Description ? help Back to Top
Source Description
UniProtTranscription activator that binds to the DNA sequence 5'-CTTTTGTCC-3' (PubMed:21265895, PubMed:25929516). Regulates photoperiodic flowering by modulating sugar transport and metabolism (PubMed:21265895, PubMed:25929516). Regulates SUS1 and SUS4 (PubMed:21265895). Transcription factor that regulates tissue boundaries and asymmetric cell division (PubMed:25829440). Contributes to the sequestration of 'SHORT-ROOT' to the nucleus (PubMed:25829440). {ECO:0000269|PubMed:21265895, ECO:0000269|PubMed:25829440, ECO:0000269|PubMed:25929516}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapSobic.003G001300.1.p
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Up-regulated by 'SHORT-ROOT' (SHR)(PubMed:16640459). Strongly down-regulated by sugar deprivation, but not regulated by day-length. {ECO:0000269|PubMed:16640459}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankHG6703060.0HG670306.1 Triticum aestivum chromosome 3B, genomic scaffold, cultivar Chinese Spring.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_021311579.10.0zinc finger protein NUTCRACKER
SwissprotQ9FFH31e-129IDD8_ARATH; Zinc finger protein NUTCRACKER
TrEMBLC5XJH30.0C5XJH3_SORBI; Uncharacterized protein
STRINGSb03g000300.10.0(Sorghum bicolor)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP20238320
Representative plantOGRP9516242
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G44160.11e-116C2H2-like zinc finger protein
Publications ? help Back to Top
  1. Moreno-Risueno MA, et al.
    Transcriptional control of tissue formation throughout root development.
    Science, 2015. 350(6259): p. 426-30
    [PMID:26494755]
  2. Long Y, et al.
    In vivo FRET-FLIM reveals cell-type-specific protein interactions in Arabidopsis roots.
    Nature, 2017. 548(7665): p. 97-102
    [PMID:28746306]