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_scaffold00002.587
Common NameAMTR_s00002p00270520, LOC18429594
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: 494aa    MW: 54266 Da    PI: 8.2514
Description C2H2 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
evm_27.model.AmTr_v1.0_scaffold00002.587genomeTAGPView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-C2H217.21.4e-057799123
                                              EEETTTTEEESSHHHHHHHHHHT CS
                                   zf-C2H2  1 ykCpdCgksFsrksnLkrHirtH 23
                                              ++C++C+k F r  nL+ H r H
  evm_27.model.AmTr_v1.0_scaffold00002.587 77 FVCEICNKGFQRDQNLQLHRRGH 99
                                              89*******************88 PP
2zf-C2H212.80.00036153175123
                                               EEETTTTEEESSHHHHHHHHHHT CS
                                   zf-C2H2   1 ykCpdCgksFsrksnLkrHirtH 23 
                                               +kC++C+k +  +s+ k H +t+
  evm_27.model.AmTr_v1.0_scaffold00002.587 153 WKCEKCSKKYAVQSDWKAHSKTC 175
                                               58*****************9998 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:3.30.160.601.6E-57699IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamilySSF576671.15E-67699No hitNo description
SMARTSM003550.0177799IPR015880Zinc finger, C2H2-like
PROSITE profilePS5015710.9497799IPR007087Zinc finger, C2H2
PfamPF121717.8E-57799IPR022755Zinc finger, double-stranded RNA binding
PROSITE patternPS0002807999IPR007087Zinc finger, C2H2
SMARTSM00355250118148IPR015880Zinc finger, C2H2-like
Gene3DG3DSA:3.30.160.603.6E-4141174IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamilySSF576671.15E-6148173No hitNo description
SMARTSM00355140153173IPR015880Zinc 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: 494 aa     Download sequence    Send to blast
MSNLTSISED ASVSSGNRPE NFIMSQDFST LSPMFPTISP LPQQQTVKRK RNLPGNPDPD  60
AEVIALSPKT LMATNRFVCE ICNKGFQRDQ NLQLHRRGHN LPWKLRQRSS KEIRKRVYVC  120
PELTCVHHDP SRALGDLTGI KKHFCRKHGE KKWKCEKCSK KYAVQSDWKA HSKTCGTREY  180
RCDCGTLFSR KDSFITHRAF CDALAEESAR LSGPINQMAF SATPLPMQTQ LPSSLTQQAS  240
NLLSLRWDQN LQNQEDNKPD IPIILNPKPS LLNLSNPMCH QSFSSNFESS QNCQKQALSG  300
FLTSVTSSLS SPIFSNNAIS NSSSSSPHMS ATALLQKAAE IGATVSGNCS NSHSTLKSIS  360
SQAPNPGFSL YSVGMNSWQD RTETDDNVSE MSNMVNSISA AKFGSILAEM NGMSNMNGMS  420
AMNGLNGLER ENHGNPLTRD FLGVGEANNM GMRELLSFAG MDLCMSSCDP NQSLKQASAS  480
PSTNFQFSES WDG*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5b3h_C2e-37149212366Zinc finger protein JACKDAW
5b3h_F2e-37149212366Zinc finger protein JACKDAW
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtTranscription factor that acts as a positive regulator of gibberellin (GA) action, homeostasis and signaling. GA converts the GAF1 complex from transcriptional activator to repressor via the degradation of DELLA proteins. {ECO:0000269|PubMed:25035403}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_006838942.10.0protein indeterminate-domain 12
RefseqXP_020520208.10.0protein indeterminate-domain 12
SwissprotQ9SCQ61e-119IDD2_ARATH; Zinc finger protein GAI-ASSOCIATED FACTOR 1
TrEMBLW1P1R30.0W1P1R3_AMBTC; Uncharacterized protein
STRINGERN015110.0(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
AT1G03840.11e-105C2H2 family protein
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. Fukazawa J, et al.
    DELLAs function as coactivators of GAI-ASSOCIATED FACTOR1 in regulation of gibberellin homeostasis and signaling in Arabidopsis.
    Plant Cell, 2014. 26(7): p. 2920-38
    [PMID:25035403]
  3. Moreno-Risueno MA, et al.
    Transcriptional control of tissue formation throughout root development.
    Science, 2015. 350(6259): p. 426-30
    [PMID:26494755]
  4. Khare D, et al.
    Root avoidance of toxic metals requires the GeBP-LIKE 4 transcription factor in Arabidopsis thaliana.
    New Phytol., 2017. 213(3): p. 1257-1273
    [PMID:27768815]