PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
Home  TFext  BLAST  Prediction  Download  Help  About  Links  PlantRegMap
(e.g., LFY)
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID Araha.15447s0008.1.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 TCP
Protein Properties Length: 359aa    MW: 39681.8 Da    PI: 7.2896
Description TCP family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Araha.15447s0008.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1TCP105.67.9e-33732012115
                   TCP   2 agkkdrhskihTkvggRdRRvRlsaecaarfFdLqdeLGfdkdsktieWLlqqakpaikeltgtssssasec..eaesssssasnsssg 88 
                            g+kdrhsk++T +g+RdRRvRls+++a++++dLq++LG+d++sk+++WLl +ak++i+el+ ++ s+++++  ++++s  + ++   +
  Araha.15447s0008.1.p  73 FGGKDRHSKVCTLRGLRDRRVRLSVPTAIQLYDLQERLGVDQPSKAVDWLLDAAKEEIDELPPLPISPENFSifNHHHSFLNLGQRPGQ 161
                           689*************************************************************9999988887666666665544433 PP

                   TCP  89 .............kaaksaakskksqksaasalnlakesr 115
                                        ++++++  + +++++ ++   +a++++
  Araha.15447s0008.1.p 162 dptqlgfkingcvEESTTTSREANNKEKGENDVVFANNHH 201
                           5777778887877333333333333333333344444443 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5136931.31475133IPR017887Transcription factor TCP subgroup
PfamPF036347.0E-2975180IPR005333Transcription factor, TCP
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0009965Biological Processleaf morphogenesis
GO:0030154Biological Processcell differentiation
GO:0031347Biological Processregulation of defense response
GO:0045962Biological Processpositive regulation of development, heterochronic
GO:0009507Cellular Componentchloroplast
Sequence ? help Back to Top
Protein Sequence    Length: 359 aa     Download sequence    Send to blast
MNIVSWKDAN DEVSGGATTR REGEVEEDQE EAEVRATSGK TVIKKPPTSI SSSSSSSWMK  60
SKDPRIVRVS RAFGGKDRHS KVCTLRGLRD RRVRLSVPTA IQLYDLQERL GVDQPSKAVD  120
WLLDAAKEEI DELPPLPISP ENFSIFNHHH SFLNLGQRPG QDPTQLGFKI NGCVEESTTT  180
SREANNKEKG ENDVVFANNH HVGSYGTYHN MEHHHHHHQH LSLQADYHNH QHQLHSLVPF  240
PSQILVCPMT TSTTATTIQS LFPSSSSAGS GTMETLDPRQ MVSHFQMPIM GNSSSSSSQN  300
ISTLYSLLHG SNSNNGGRDI NNRMSSVQFN RANSTTTANM SRHLGSESSR SRGSDHHM*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5zkt_A2e-1980134155Putative transcription factor PCF6
5zkt_B2e-1980134155Putative transcription factor PCF6
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtPlays 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). Binds to the 3'-ACC-5' repeats in the light-responsive promoter (LRP) of psbD, and activates its transcription. Participates in ovule develpment (PubMed:25378179). {ECO:0000269|PubMed:11161017, ECO:0000269|PubMed:17307931, ECO:0000269|PubMed:25378179}.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00326DAPTransfer from AT3G02150Download
Motif logo
Cis-element ? help Back to Top
SourceLink
PlantRegMapAraha.15447s0008.1.p
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieveRetrieve
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAB0144650.0AB014465.1 Arabidopsis thaliana mRNA for TFPD, complete cds.
GenBankATAC0097550.0AC009755.7 Arabidopsis thaliana chromosome III BAC F14P3 genomic sequence, complete sequence.
GenBankATAC0116640.0AC011664.10 Arabidopsis thaliana chromosome III BAC F1C9 genomic sequence, complete sequence.
GenBankBT0019820.0BT001982.1 Arabidopsis thaliana expressed protein (At3g02150) mRNA, complete cds.
GenBankBT0088390.0BT008839.1 Arabidopsis thaliana At3g02156 mRNA, complete cds.
GenBankCP0026860.0CP002686.1 Arabidopsis thaliana chromosome 3, complete sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_020886906.10.0transcription factor TCP13
RefseqXP_020886907.10.0transcription factor TCP13
SwissprotQ9S7W50.0TCP13_ARATH; Transcription factor TCP13
TrEMBLD7LAL30.0D7LAL3_ARALL; Uncharacterized protein
STRINGfgenesh2_kg.3__146__AT3G02150.20.0(Arabidopsis lyrata)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM91342637
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G02150.20.0plastid transcription factor 1
Publications ? help Back to Top
  1. Skinner MK,Rawls A,Wilson-Rawls J,Roalson EH
    Basic helix-loop-helix transcription factor gene family phylogenetics and nomenclature.
    Differentiation, 2010. 80(1): p. 1-8
    [PMID:20219281]
  2. Yamburenko MV,Zubo YO,Börner T
    Abscisic acid affects transcription of chloroplast genes via protein phosphatase 2C-dependent activation of nuclear genes: repression by guanosine-3'-5'-bisdiphosphate and activation by sigma factor 5.
    Plant J., 2015. 82(6): p. 1030-41
    [PMID:25976841]
  3. 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]