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_scaffold00007.249
Common NameAMTR_s00007p00238950
Organism
Amborella trichopoda
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; basal Magnoliophyta; Amborellales; Amborellaceae; Amborella
Family RAV
Protein Properties Length: 388aa    MW: 42364.1 Da    PI: 8.9993
Description RAV family protein
Gene Model
Gene Model ID Type Source Coding Sequence
evm_27.model.AmTr_v1.0_scaffold00007.249genomeTAGPView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1AP241.92.5e-1366114155
                                       AP2   1 sgykGVrwdkkrgrWvAeIrdpsengkrkrfslgkfgtaeeAakaaiaarkkleg 55 
                                               s+ykGV   + +grW A+I++      ++r++lg+f  + eAa+a++ a++k++g
  evm_27.model.AmTr_v1.0_scaffold00007.249  66 SRYKGVVPQP-NGRWGAQIYEK-----HQRVWLGTFNEEAEAARAYDTAALKFRG 114
                                               78****9888.8*********3.....5**********99*************98 PP
2B399.32.4e-31200308199
                                               EEEE-..-HHHHTT-EE--HHH.HTT..........---..--SEEEEEETTS-EEEEEE..EEETTEE CS
                                        B3   1 ffkvltpsdvlksgrlvlpkkfaeeh..........ggkkeesktltledesgrsWevkliyrkksgry 59 
                                               f+k+ tpsdv+k++rlv+pk++ae+h          gg   +++ l++ed++g++W+++++y+++s++y
  evm_27.model.AmTr_v1.0_scaffold00007.249 200 FEKAVTPSDVGKLNRLVIPKQHAERHfpldiassaaGGAGCKGVLLSFEDSTGKVWRFRYSYWNSSQSY 268
                                               89***************************998888855555899************************* PP

                                               EE-TTHHHHHHHHT--TT-EEEEEE-SSSEE..EEEEE-S CS
                                        B3  60 vltkGWkeFvkangLkegDfvvFkldgrsefelvvkvfrk 99 
                                               vltkGW++Fvk++gLk+gD+v F++    e++l++ ++ +
  evm_27.model.AmTr_v1.0_scaffold00007.249 269 VLTKGWSRFVKEKGLKAGDMVRFERGVGGEQQLYIDWRPR 308
                                               ************************7544777788888765 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF541712.48E-1766122IPR016177DNA-binding domain
PfamPF008471.1E-866114IPR001471AP2/ERF domain
CDDcd000189.63E-2566121No hitNo description
SMARTSM003801.0E-2867128IPR001471AP2/ERF domain
PROSITE profilePS5103220.5667122IPR001471AP2/ERF domain
Gene3DG3DSA:3.30.730.104.3E-2167122IPR001471AP2/ERF domain
Gene3DG3DSA:2.40.330.107.0E-39196309IPR015300DNA-binding pseudobarrel domain
CDDcd100171.99E-28199293No hitNo description
SuperFamilySSF1019363.79E-29199305IPR015300DNA-binding pseudobarrel domain
SMARTSM010191.2E-24200309IPR003340B3 DNA binding domain
PROSITE profilePS5086314.001200309IPR003340B3 DNA binding domain
PfamPF023628.0E-29200308IPR003340B3 DNA binding domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0045892Biological Processnegative regulation of transcription, DNA-templated
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
GO:0003700Molecular Functiontranscription factor activity, sequence-specific DNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 388 aa     Download sequence    Send to blast
MAESSANSTE QLAGIVIDSD DASKSPPPDD GASGLQRMGS GMSTVVDCEA GLGCIVEAES  60
RKLPSSRYKG VVPQPNGRWG AQIYEKHQRV WLGTFNEEAE AARAYDTAAL KFRGRDAVTN  120
FKSPRTSNHS HGNIGDDEEA EALFLATHSK GEIVDMLRKH TYHDELRQSK RYCRAMPVSR  180
ASATMPAEGR AVAAAREQLF EKAVTPSDVG KLNRLVIPKQ HAERHFPLDI ASSAAGGAGC  240
KGVLLSFEDS TGKVWRFRYS YWNSSQSYVL TKGWSRFVKE KGLKAGDMVR FERGVGGEQQ  300
LYIDWRPRPA AAPLLPPQFI VWQPAAAAPS PLAAVVHQPN VVRLFGVNLM TPPVAAPPQQ  360
VGFCLMKRGR EMEFFTCDAK KQCIGTL*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1wid_A4e-5219731111120DNA-binding protein RAV1
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtProbably acts as a transcriptional activator. Binds to the GCC-box pathogenesis-related promoter element. May be involved in the regulation of gene expression by stress factors and by components of stress signal transduction pathways (By similarity). Transcriptional repressor of flowering time on long day plants. Acts directly on FT expression by binding 5'-CAACA-3' and 5'-CACCTG-3 sequences (Probable). Functionally redundant with TEM1. {ECO:0000250, ECO:0000269|PubMed:18718758, ECO:0000305}.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00025PBMTransfer from AT1G68840Download
Motif logo
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_006843763.20.0AP2/ERF and B3 domain-containing transcription repressor RAV2
SwissprotP822801e-123RAV2_ARATH; AP2/ERF and B3 domain-containing transcription repressor RAV2
TrEMBLW1PBW20.0W1PBW2_AMBTC; Uncharacterized protein
STRINGERN054380.0(Amborella trichopoda)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
Representative plantOGRP36516108
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G25560.11e-112RAV 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. Matías-Hernández L,Aguilar-Jaramillo AE,Marín-González E,Suárez-López P,Pelaz S
    RAV genes: regulation of floral induction and beyond.
    Ann. Bot., 2014. 114(7): p. 1459-70
    [PMID:24812253]
  3. Marín-González E, et al.
    SHORT VEGETATIVE PHASE Up-Regulates TEMPRANILLO2 Floral Repressor at Low Ambient Temperatures.
    Plant Physiol., 2015. 169(2): p. 1214-24
    [PMID:26243615]
  4. Sun YW, et al.
    Attenuation of Histone Methyltransferase KRYPTONITE-mediated transcriptional gene silencing by Geminivirus.
    Sci Rep, 2015. 5: p. 16476
    [PMID:26602265]
  5. Mittal A,Jiang Y,Ritchie GL,Burke JJ,Rock CD
    AtRAV1 and AtRAV2 overexpression in cotton increases fiber length differentially under drought stress and delays flowering.
    Plant Sci., 2015. 241: p. 78-95
    [PMID:26706061]
  6. Matías-Hernández L, et al.
    TEMPRANILLO Reveals the Mesophyll as Crucial for Epidermal Trichome Formation.
    Plant Physiol., 2016. 170(3): p. 1624-39
    [PMID:26802039]
  7. Li P, et al.
    The Arabidopsis UGT87A2, a stress-inducible family 1 glycosyltransferase, is involved in the plant adaptation to abiotic stresses.
    Physiol Plant, 2017. 159(4): p. 416-432
    [PMID:27747895]