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 Neem_14419_f_1
Organism
Azadirachta indica
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Sapindales; Meliaceae; Azadirachta
Family TCP
Protein Properties Length: 449aa    MW: 50337 Da    PI: 7.9229
Description TCP family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Neem_14419_f_1genomeNGDView Nucleic Acid
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1TCP116.14.6e-36129227289
             TCP   2 agkkdrhskihTkvggRdRRvRlsaecaarfFdLqdeLGfdkdsktieWLlqqakpaikeltgt.......ssssasec..eaesssssasnsss 87 
                     +g+kdrhsk++T++g+RdRRvRlsa++a++f+d+qd+LG+d++sk+++WL+++ak ai++l+++       ++++a+e+  + +ss+ + +++s+
  Neem_14419_f_1 129 TGRKDRHSKVYTSKGPRDRRVRLSAHTAIQFYDVQDRLGYDRPSKAVDWLIKKAKSAIDKLAELppwqpttNNNAAMESdpNVGSSEMAIQEQSE 223
                     79**************************************************************9888765333333334333333333333333 PP

             TCP  88 g..k 89 
                     +   
  Neem_14419_f_1 224 SsgY 227
                     3221 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PfamPF036347.1E-33129231IPR005333Transcription factor, TCP
PROSITE profilePS5136932.979131189IPR017887Transcription factor TCP subgroup
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0009793Biological Processembryo development ending in seed dormancy
GO:0009965Biological Processleaf morphogenesis
GO:0030154Biological Processcell differentiation
GO:0045962Biological Processpositive regulation of development, heterochronic
GO:0003677Molecular FunctionDNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 449 aa     Download sequence    Send to blast
MSEFYRISCS NRSNSFRGRD YSCRNLDFRS NLQQTQAPTH RIIHLIPEET QQQNPGTNTT  60
YYQQQQHLQV QQSQQPYGQA INSHQTQVTN YKLSLQQTTD YRKYRERMGM KSTEGEIVQV  120
QGGHIVRSTG RKDRHSKVYT SKGPRDRRVR LSAHTAIQFY DVQDRLGYDR PSKAVDWLIK  180
KAKSAIDKLA ELPPWQPTTN NNAAMESDPN VGSSEMAIQE QSESSGYSFQ IHRQLGDNTN  240
NDSSFISPPL DSDAIADTIK SLFPTSTTTS SINFQNYPAD IITRTANPTE DLGLSLHSFQ  300
DSGLIHGQSR GDTSHTASTD QNLFAGSAPV GFEANFQRMV AWNNEPSTEN RSGGFLFNSS  360
SLSPQQALAF SQRGPLQSSF TQSVRAWNDI PIGSSEHHHH KAQEIQQSSI FGSRFASDGL  420
TGFSIPARIH GEDDHSDRRP SPSSPHSHR
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5zkt_A9e-21136189154Putative transcription factor PCF6
5zkt_B9e-21136189154Putative transcription factor PCF6
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtTranscription factor playing a pivotal role in the control of morphogenesis of shoot organs by negatively regulating the expression of boundary-specific genes such as CUC genes, probably through the induction of miRNA (e.g. miR164) (PubMed:12931144, PubMed:17307931). Required during early steps of embryogenesis (PubMed:15634699). Participates in ovule develpment (PubMed:25378179). Activates LOX2 expression by binding to the 5'-GGACCA-3' motif found in its promoter (PubMed:18816164). {ECO:0000269|PubMed:12931144, ECO:0000269|PubMed:15634699, ECO:0000269|PubMed:17307931, ECO:0000269|PubMed:18816164, ECO:0000269|PubMed:25378179}.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00062PBMTransfer from AT3G15030Download
Motif logo
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Repressed by the miRNA miR-JAW/miR319 (PubMed:12931144, PubMed:18816164). {ECO:0000269|PubMed:12931144, ECO:0000269|PubMed:18816164}.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_021665254.10.0transcription factor TCP4-like
RefseqXP_021665255.10.0transcription factor TCP4-like
RefseqXP_021665256.10.0transcription factor TCP4-like
RefseqXP_021665257.10.0transcription factor TCP4-like
RefseqXP_021665258.10.0transcription factor TCP4-like
RefseqXP_021665259.10.0transcription factor TCP4-like
RefseqXP_021665260.10.0transcription factor TCP4-like
SwissprotQ8LPR53e-78TCP4_ARATH; Transcription factor TCP4
TrEMBLA0A2H5QQ980.0A0A2H5QQ98_CITUN; Uncharacterized protein
STRINGXP_006446753.10.0(Citrus clementina)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM24082771
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G15030.32e-78TCP family protein
Publications ? help Back to Top
  1. Schommer C, et al.
    Control of jasmonate biosynthesis and senescence by miR319 targets.
    PLoS Biol., 2008. 6(9): p. e230
    [PMID:18816164]
  2. Ju Y, et al.
    Arabidopsis JINGUBANG Is a Negative Regulator of Pollen Germination That Prevents Pollination in Moist Environments.
    Plant Cell, 2016. 28(9): p. 2131-2146
    [PMID:27468890]
  3. Challa KR,Aggarwal P,Nath U
    Activation of YUCCA5 by the Transcription Factor TCP4 Integrates Developmental and Environmental Signals to Promote Hypocotyl Elongation in Arabidopsis.
    Plant Cell, 2016. 28(9): p. 2117-2130
    [PMID:27597774]
  4. Alvarez JP,Furumizu C,Efroni I,Eshed Y,Bowman JL
    Active suppression of a leaf meristem orchestrates determinate leaf growth.
    Elife, 2017.
    [PMID:27710768]
  5. Li J, et al.
    RABBIT EARS regulates the transcription of TCP4 during petal development in Arabidopsis.
    J. Exp. Bot., 2016. 67(22): p. 6473-6480
    [PMID:27838638]
  6. Sun X, et al.
    Activation of secondary cell wall biosynthesis by miR319-targeted TCP4 transcription factor.
    Plant Biotechnol. J., 2017. 15(10): p. 1284-1294
    [PMID:28233945]
  7. Kubota A, et al.
    TCP4-dependent induction of CONSTANS transcription requires GIGANTEA in photoperiodic flowering in Arabidopsis.
    PLoS Genet., 2017. 13(6): p. e1006856
    [PMID:28628608]
  8. Koyama T,Sato F,Ohme-Takagi M
    Roles of miR319 and TCP Transcription Factors in Leaf Development.
    Plant Physiol., 2017. 175(2): p. 874-885
    [PMID:28842549]
  9. Bresso EG,Chorostecki U,Rodriguez RE,Palatnik JF,Schommer C
    Spatial Control of Gene Expression by miR319-Regulated TCP Transcription Factors in Leaf Development.
    Plant Physiol., 2018. 176(2): p. 1694-1708
    [PMID:29133375]
  10. Vadde BVL,Challa KR,Nath U
    The TCP4 transcription factor regulates trichome cell differentiation by directly activating GLABROUS INFLORESCENCE STEMS in Arabidopsis thaliana.
    Plant J., 2018. 93(2): p. 259-269
    [PMID:29165850]
  11. Challa KR,Rath M,Nath U
    The CIN-TCP transcription factors promote commitment to differentiation in Arabidopsis leaf pavement cells via both auxin-dependent and independent pathways.
    PLoS Genet., 2019. 15(2): p. e1007988
    [PMID:30742619]