PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
Previous version: v3.0 v4.0
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID GRMZM5G828179_P01
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; Tripsacinae; Zea
Family C2H2
Protein Properties Length: 354aa    MW: 37983.1 Da    PI: 8.9931
Description C2H2 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
GRMZM5G828179_P01genomeMaizeSequenceView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-C2H219.33.1e-062648123
                       EEETTTTEEESSHHHHHHHHHHT CS
            zf-C2H2  1 ykCpdCgksFsrksnLkrHirtH 23
                       ++C++Cgk F r  nL+ H r H
  GRMZM5G828179_P01 26 FVCEICGKGFQRDQNLQLHRRGH 48
                       89*******************88 PP

2zf-C2H215.26.1e-05103125123
                        EEETTTTEEESSHHHHHHHHHHT CS
            zf-C2H2   1 ykCpdCgksFsrksnLkrHirtH 23 
                        +kC +C+k++  +s+ k H +t+
  GRMZM5G828179_P01 103 WKCDKCNKRYAVQSDWKAHAKTC 125
                        58******************998 PP

Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF576676.72E-82548No hitNo description
SMARTSM003550.0122648IPR015880Zinc finger, C2H2-like
Gene3DG3DSA:3.30.160.609.3E-62648IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
PROSITE profilePS5015711.6142648IPR007087Zinc finger, C2H2
PROSITE patternPS0002802848IPR007087Zinc finger, C2H2
SMARTSM003552506898IPR015880Zinc finger, C2H2-like
Gene3DG3DSA:3.30.160.604.8E-591124IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamilySSF576676.72E-898123No hitNo description
SMARTSM00355110103123IPR015880Zinc finger, C2H2-like
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0005634Cellular Componentnucleus
GO:0044212Molecular Functiontranscription regulatory region DNA binding
GO:0046872Molecular Functionmetal ion binding
Sequence ? help Back to Top
Protein Sequence    Length: 354 aa     Download sequence    Send to blast
MHACNTDPAA EVIALSPRTL LATNRFVCEI CGKGFQRDQN LQLHRRGHNL PWKLRQRSAG  60
KEPRKRVYVC PEKTCVHHNP SRALGDLTGI KKHFCRKHGE KKWKCDKCNK RYAVQSDWKA  120
HAKTCGTREY RCDCGTLFSR RDSFITHRAF CDALAEETAY APLGPHVGDL SLPSMVGHIG  180
ANGSIMLPGA PPQLYADLFA PAPPQLGWLC GNNGKLASSN ASELTSAAAS GKQETDSVLS  240
MFSRQQHANP AVAGAGDMMS ATALLQKAAQ MGADSGRQQS SDDGAGGLLS SASSLRGPGP  300
GTNTLMSLPY DVLSAVRHAG LVKNAAVDVG REETRDFLGV GMQALCSSSL NGWI
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5b3h_C2e-3499159363Zinc finger protein JACKDAW
5b3h_F2e-3499159363Zinc finger protein JACKDAW
Search in ModeBase
Expression -- Microarray ? help Back to Top
Source ID
Expression AtlasGRMZM5G828179
Expression -- Description ? help Back to Top
Source Description
UniprotDEVELOPMENTAL STAGE: Expressed throughout development. {ECO:0000269|PubMed:21265895}.
UniprotTISSUE SPECIFICITY: Expressed in the ground tissue and stele cells of embryos and 2-days post-germination roots but not in the quiescent center (PubMed:17785527). Detected only in cells that perform asymmetric cell divisions (PubMed:17785527). In roots, present in cortex, endodermis, and pericycle layer (PubMed:25829440). {ECO:0000269|PubMed:17785527, ECO:0000269|PubMed:25829440}.
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}.
UniProtTranscription factor that regulates tissue boundaries and asymmetric cell division (PubMed:17785527, PubMed:25829440). Contributes to the sequestration of 'SHORT-ROOT' to the nucleus (PubMed:17785527, PubMed:25829440). Interacts with the SCR and MGP promoters (PubMed:21935722). Does not show transcription activity by itself, but regulates the transcription of downstream genes through interaction with other transcription factors (PubMed:21935722). Binds DNA via its zinc fingers (PubMed:24821766). Recognizes and binds to SCL3 promoter sequence 5'-AGACAA-3' to promotes its expression when in complex with RGA (PubMed:24821766). Positively involved in gibberellic acid (GA) signaling (PubMed:24821766). {ECO:0000269|PubMed:17785527, ECO:0000269|PubMed:21935722, ECO:0000269|PubMed:24821766, ECO:0000269|PubMed:25829440}.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00125DAPTransfer from AT1G03840Download
Motif logo
Cis-element ? help Back to Top
SourceLink
PlantRegMapGRMZM5G828179_P01
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}.
UniProtINDUCTION: Up-regulated by the transcription factor JKD, and down-regulated by SHR, SCR and itself. {ECO:0000269|PubMed:21935722}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieveRetrieve
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_008673471.10.0zinc finger protein NUTCRACKER
SwissprotQ9FFH31e-112IDD8_ARATH; Zinc finger protein NUTCRACKER
SwissprotQ9ZWA61e-112IDD3_ARATH; Zinc finger protein MAGPIE
TrEMBLA0A1D6MER10.0A0A1D6MER1_MAIZE; Zinc finger protein MAGPIE
STRINGGRMZM5G828179_P010.0(Zea mays)
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
AT1G03840.11e-111C2H2 family protein
Publications ? help Back to Top
  1. Muñoz-Strale D,León G
    Identification of two highly specific pollen promoters using transcriptomic data.
    Plant Physiol. Biochem., 2014. 83: p. 292-9
    [PMID:25208507]
  2. Moreno-Risueno MA, et al.
    Transcriptional control of tissue formation throughout root development.
    Science, 2015. 350(6259): p. 426-30
    [PMID:26494755]
  3. 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]