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 Cla015637
Organism
Citrullus lanatus
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Cucurbitales; Cucurbitaceae; Benincaseae; Citrullus
Family C2H2
Protein Properties Length: 438aa    MW: 48635.8 Da    PI: 8.9642
Description C2H2 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Cla015637genomeICuGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-C2H215.83.8e-056484323
               ETTTTEEESSHHHHHHHHHHT CS
    zf-C2H2  3 CpdCgksFsrksnLkrHirtH 23
               C++Cgk F r  nL+ H r H
  Cla015637 64 CEICGKGFQRDQNLQLHRRGH 84
               *******************88 PP
2zf-C2H2130.00032140162123
                EEETTTTEEESSHHHHHHHHHHT CS
    zf-C2H2   1 ykCpdCgksFsrksnLkrHirtH 23 
                +kC++C+k +  +s+ k H +t+
  Cla015637 140 WKCEKCSKKYAVQSDWKAHSKTC 162
                58*****************9998 PP
3zf-C2H212.20.00055170188523
                TTTEEESSHHHHHHHHHHT CS
    zf-C2H2   5 dCgksFsrksnLkrHirtH 23 
                dCg++Fsr++++++H   +
  Cla015637 170 DCGTPFSRRDSYVTHRAYC 188
                8**************8765 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF576672.99E-66184No hitNo description
Gene3DG3DSA:3.30.160.603.7E-56184IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SMARTSM003550.0766284IPR015880Zinc finger, C2H2-like
PROSITE profilePS5015711.4896284IPR007087Zinc finger, C2H2
PROSITE patternPS0002806484IPR007087Zinc finger, C2H2
Gene3DG3DSA:3.30.160.602.9E-4128161IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamilySSF576672.99E-6135160No hitNo description
SMARTSM00355140140160IPR015880Zinc 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: 438 aa     Download sequence    Send to blast
MSEEQAISNA FICSIPSLGS INNPSVVKKK RNLPGNPGKK TLYPEAEVVS LSPKTLMATN  60
RFLCEICGKG FQRDQNLQLH RRGHNLPWKL KQRSNGNKEP RKRVYVCPEK SCVHHHPSRA  120
LGDLTGIKKH FCRKHGEKKW KCEKCSKKYA VQSDWKAHSK TCGTKEYKCD CGTPFSRRDS  180
YVTHRAYCVA LAEETARLNA ASTMANNSNN SMADSYNNYH FLKPTNNNNP PQFFPSSNFF  240
KPDETSHMFL NNINNVTPTI GLPFWMATNS HQINFPHSLL PQQTTTTTTT NSDVLSVPSL  300
YSNEEQQSSH QFMASSANMS ATVLLQKAAQ IGVTTSTTDP SLMESFGLKF STITDGKALF  360
SGLYGSIMNS NSNIIPSCCS LENGGDHHQD SEIYSAPAKR MRHTVSEESV TGGEGETRDF  420
LGVGMHSICH PSPVNGWI
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5b3h_C3e-33136207371Zinc finger protein JACKDAW
5b3h_F3e-33136207371Zinc finger protein JACKDAW
Search in ModeBase
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
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}.
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankLN6817920.0LN681792.1 Cucumis melo genomic scaffold, anchoredscaffold00034.
GenBankLN7132550.0LN713255.1 Cucumis melo genomic chromosome, chr_1.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_004144605.20.0PREDICTED: zinc finger protein NUTCRACKER-like
SwissprotQ9ZWA61e-134IDD3_ARATH; Zinc finger protein MAGPIE
TrEMBLA0A0A0K6P70.0A0A0A0K6P7_CUCSA; Uncharacterized protein
STRINGXP_004144605.10.0(Cucumis sativus)
STRINGXP_004169268.10.0(Cucumis sativus)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
FabidsOGEF46262951
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G03840.16e-99C2H2 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]