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 evm_27.model.AmTr_v1.0_scaffold00032.84
Common NameAMTR_s00032p00120910, LOC18443109
Organism
Amborella trichopoda
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; basal Magnoliophyta; Amborellales; Amborellaceae; Amborella
Family C2H2
Protein Properties Length: 584aa    MW: 63052.3 Da    PI: 8.9039
Description C2H2 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
evm_27.model.AmTr_v1.0_scaffold00032.84genomeTAGPView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-C2H216.23e-0582104123
                                              EEETTTTEEESSHHHHHHHHHHT CS
                                  zf-C2H2   1 ykCpdCgksFsrksnLkrHirtH 23 
                                              + C+ C+k F r  nL+ H r H
  evm_27.model.AmTr_v1.0_scaffold00032.84  82 FICEVCNKGFQREQNLQLHRRGH 104
                                              89*******************88 PP
2zf-C2H212.50.00045158180123
                                              EEETTTTEEESSHHHHHHHHHHT CS
                                  zf-C2H2   1 ykCpdCgksFsrksnLkrHirtH 23 
                                              +kC++C+k +  +s+ k H +t+
  evm_27.model.AmTr_v1.0_scaffold00032.84 158 WKCEKCSKKYAVQSDWKAHSKTC 180
                                              58*****************9998 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF576672.18E-781104No hitNo description
Gene3DG3DSA:3.30.160.606.5E-681104IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
PROSITE profilePS5015710.9982104IPR007087Zinc finger, C2H2
PfamPF121712.9E-582104IPR022755Zinc finger, double-stranded RNA binding
SMARTSM003550.005282104IPR015880Zinc finger, C2H2-like
PROSITE patternPS00028084104IPR007087Zinc finger, C2H2
SMARTSM00355160123153IPR015880Zinc finger, C2H2-like
Gene3DG3DSA:3.30.160.601.5E-4146179IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamilySSF576672.18E-7153178No hitNo description
SMARTSM00355140158178IPR015880Zinc finger, C2H2-like
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0003676Molecular Functionnucleic acid binding
GO:0046872Molecular Functionmetal ion binding
Sequence ? help Back to Top
Protein Sequence    Length: 584 aa     Download sequence    Send to blast
MAGSAKPPYF NTIREEDRIS MPPQRLPEAI QPPPPPPGGS APVNSSSQST VQKKKRNLPG  60
TPDPDAEVIA LSPKTLMATN RFICEVCNKG FQREQNLQLH RRGHNLPWKL RQKSTKEVRR  120
KVYLCPEPTC VHHDPSRALG DLTGIKKHFS RKHGEKKWKC EKCSKKYAVQ SDWKAHSKTC  180
GTREYRCDCG TLFSRRDSFI THRAFCDALA EESARLPSGF LSSASGHLYT GSNSTLNQPS  240
SQMASLLDQI HNPAMRPPPN PNLLRLSGNS QMDHLMPPPQ NPNFQTPPNP SFFGLHLQDS  300
GNLAGILAGS SPDFQQQARH GFLQNPGNKN SSMGASTSRE DNNNSGDNNP NCSSILMSEQ  360
LGIMANDQMN SGVSSLYSGH GLPQMSATAL LQKAAQMGAT TSSNTASLLR GLSSPSNTNA  420
HQKPDLSSTM GLSWQDQQKP ELVSGLDHQM RTNFSGEEAQ IQDIMNSLAG GGTGIFGGGA  480
ATFGGDCSNS ENEQQNHYGG FSGMMQGVHG LHQGGFLHGV VGSGSRIEEG GGGGGGDRLT  540
RDFLGVENMA RNMGRGLSQR DHHQAAMASL DSGLKSYRRE NLQ*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5b3h_C1e-36154218367Zinc finger protein JACKDAW
5b3h_F1e-36154218367Zinc finger protein JACKDAW
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtTranscription factor that may act a transcriptional activator of nuclear-encoded photosynthetic gene expression (Probable). 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). {ECO:0000269|PubMed:24821766, ECO:0000305|PubMed:19726569}.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00256DAPTransfer from AT2G02080Download
Motif logo
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Down-regulated by gibberellin. {ECO:0000305|PubMed:17933900}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieveRetrieve
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_006853370.10.0protein indeterminate-domain 2
RefseqXP_020528408.10.0protein indeterminate-domain 2
SwissprotQ8GYC11e-121IDD4_ARATH; Protein indeterminate-domain 4, chloroplastic
TrEMBLU5D0B80.0U5D0B8_AMBTC; Uncharacterized protein
STRINGERN148370.0(Amborella trichopoda)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
Representative plantOGRP9516242
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT2G02070.11e-103indeterminate(ID)-domain 5
Publications ? help Back to Top
  1. Amborella Genome Project
    The Amborella genome and the evolution of flowering plants.
    Science, 2013. 342(6165): p. 1241089
    [PMID:24357323]
  2. Moreno-Risueno MA, et al.
    Transcriptional control of tissue formation throughout root development.
    Science, 2015. 350(6259): p. 426-30
    [PMID:26494755]