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 Araha.60507s0001.1.p
Organism
Arabidopsis halleri
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Camelineae; Arabidopsis
Family C2H2
Protein Properties Length: 511aa    MW: 56518.9 Da    PI: 8.334
Description C2H2 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Araha.60507s0001.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-C2H215.64.6e-057191323
                          ETTTTEEESSHHHHHHHHHHT CS
               zf-C2H2  3 CpdCgksFsrksnLkrHirtH 23
                          C++Cgk F r  nL+ H r H
  Araha.60507s0001.1.p 71 CEICGKGFQRDQNLQLHRRGH 91
                          *******************88 PP
2zf-C2H210.90.0015145167123
                           EEETTTTEEESSHHHHHHHHHHT CS
               zf-C2H2   1 ykCpdCgksFsrksnLkrHirtH 23 
                           +kC++C k++  +s+ k H +t+
  Araha.60507s0001.1.p 145 WKCEKCAKRYAVQSDWKAHSKTC 167
                           58*****************9998 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:3.30.160.604.5E-56891IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamilySSF576674.81E-66891No hitNo description
PROSITE profilePS5015711.4896991IPR007087Zinc finger, C2H2
PROSITE patternPS0002807191IPR007087Zinc finger, C2H2
Gene3DG3DSA:3.30.160.602.6E-4133166IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamilySSF576674.81E-6140165No hitNo description
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: 511 aa     Download sequence    Send to blast
MTTEDQTISS SVGYVQSAST TDHVDHHHHE HDSLNPPLVK KKRNLPGNPD PEAEVIALSP  60
KTLMATNRFL CEICGKGFQR DQNLQLHRRG HNLPWKLKQR TSKEVRKRVY VCPEKSCVHH  120
HPTRALGDLT GIKKHFCRKH GEKKWKCEKC AKRYAVQSDW KAHSKTCGTR EYRCDCGTIF  180
SRRDSFITHR AFCDALAEET ARLNAASHLK SLAATAGSNL NYHYLMGTLI PSPSSQPPPS  240
FPFGPPQPQH HHQHFPIPTT TFDHHHHHQD VMKPASSLSL WMGGNINHHQ QVTIEDRIAP  300
QPHSPNEDYN WVFGNANNRG ELITTSDSLI THDNNINIVQ SKENTNAATS LSVPSLFSSV  360
DQITQDANAA SANMSATALL QKAAQMGSTS STSPTTTITT DQSAYLQSFA SKISDQSNQI  420
VEDGGSDKFF ALFGSNSVEL MSNNNNGLHE IENPRNGVRV VSGIDELQNY PWKRRRVEIG  480
NAGGGGGQTR DFLGVGVQTV CHSSSINGWI *
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5b3h_C4e-35141208370Zinc finger protein JACKDAW
5b3h_F4e-35141208370Zinc finger protein JACKDAW
Search in ModeBase
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1472476KRRRV
Functional Description ? help Back to Top
Source Description
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
PlantRegMapAraha.60507s0001.1.p
Regulation -- Description ? help Back to Top
Source Description
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
GenBankAK2278370.0AK227837.1 Arabidopsis thaliana mRNA for putative DNA-binding protein, complete cds, clone: RAFL14-40-M12.
GenBankBT0062090.0BT006209.1 Arabidopsis thaliana At1g03840 mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_010475014.10.0PREDICTED: zinc finger protein MAGPIE-like isoform X1
SwissprotQ9ZWA60.0IDD3_ARATH; Zinc finger protein MAGPIE
TrEMBLD7KD840.0D7KD84_ARALL; Uncharacterized protein
STRINGXP_010475014.10.0(Camelina sativa)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM37102660
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G03840.10.0C2H2 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]