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 KFK44549.1
Organism
Arabis alpina
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Arabideae; Arabis
Family RAV
Protein Properties Length: 347aa    MW: 39042.2 Da    PI: 9.8064
Description RAV family protein
Gene Model
Gene Model ID Type Source Coding Sequence
KFK44549.1genomeMPIPBRView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1AP239.91.1e-1254102155
         AP2   1 sgykGVrwdkkrgrWvAeIrdpsengkrkrfslgkfgtaeeAakaaiaarkkleg 55 
                 s+ykGV   + +grW A+I++      ++r++lg+f  ++eAa+ ++ a++k++g
  KFK44549.1  54 SKYKGVVPQP-NGRWGAQIYEK-----HQRVWLGTFNEEQEAAESYDIAARKFRG 102
                 89****9888.8*********3.....5**********99*************98 PP
2B398.34.8e-31173285196
                 EEEE-..-HHHHTT-EE--HHH.HTT.................---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEE CS
          B3   1 ffkvltpsdvlksgrlvlpkkfaeeh.................ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvF 82 
                 f+k  tpsdv+k++rlv+pk++ae+h                   ++++++ + led++g++W+++++y+++s++yvltkGW++Fvk+++L++gD v F
  KFK44549.1 173 FDKSVTPSDVGKLNRLVIPKQHAERHfplpaftttetvtmtmtVASPTKGVLINLEDRTGKVWRFRYSYWNSSQSYVLTKGWSRFVKEKNLRAGDLVCF 271
                 899******************************99999999996667899************************************************* PP

                 EE-SSSEE..EEEE CS
          B3  83 kldgrsefelvvkv 96 
                 +++   +++l++ +
  KFK44549.1 272 ERSTGPDRQLFIDW 285
                 *8766777777765 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
CDDcd000186.70E-2554109No hitNo description
PfamPF008472.9E-754102IPR001471AP2/ERF domain
SuperFamilySSF541715.17E-1654110IPR016177DNA-binding domain
Gene3DG3DSA:3.30.730.102.1E-1955110IPR001471AP2/ERF domain
PROSITE profilePS5103219.88855110IPR001471AP2/ERF domain
SMARTSM003809.1E-2855116IPR001471AP2/ERF domain
Gene3DG3DSA:2.40.330.103.4E-39170289IPR015300DNA-binding pseudobarrel domain
CDDcd100176.98E-27171274No hitNo description
SuperFamilySSF1019362.49E-30171284IPR015300DNA-binding pseudobarrel domain
PfamPF023621.1E-27173285IPR003340B3 DNA binding domain
PROSITE profilePS5086313.493173289IPR003340B3 DNA binding domain
SMARTSM010191.1E-23173289IPR003340B3 DNA binding domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0048573Biological Processphotoperiodism, flowering
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
GO:0003700Molecular Functiontranscription factor activity, sequence-specific DNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 347 aa     Download sequence    Send to blast
MDYSCVEDTS TTSESISPSP AAMRLYRMGS GGSSVVLDTD QNGVETESRK LPSSKYKGVV  60
PQPNGRWGAQ IYEKHQRVWL GTFNEEQEAA ESYDIAARKF RGRDAVINFK SLVRNDAESV  120
FLDTHSKSEI VDMLRKHTYK DELQQSKRKF LDNGKLKGNE NDVVLRGVRE FLFDKSVTPS  180
DVGKLNRLVI PKQHAERHFP LPAFTTTETV TMTMTVASPT KGVLINLEDR TGKVWRFRYS  240
YWNSSQSYVL TKGWSRFVKE KNLRAGDLVC FERSTGPDRQ LFIDWKVRSG TVQNVVRLFG  300
VNIYSDTKPN DVVEECGGGG GGKKRYRGGA DLLALGCSKK QAIINVL
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1wid_A1e-5417029111120DNA-binding protein RAV1
Search in ModeBase
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1321327GKKRYRG
Functional Description ? help Back to Top
Source Description
UniProtTranscriptional repressor of flowering time on long day plants. Acts directly on FT expression by binding 5'-CAACA-3' and 5'-CACCTG-3 sequences. Functionally redundant with TEM2. {ECO:0000269|PubMed:18718758}.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00024PBMTransfer from AT1G25560Download
Motif logo
Cis-element ? help Back to Top
SourceLink
PlantRegMapKFK44549.1
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Expressed with a circadian rhythm showing a peak at dawn. {ECO:0000269|PubMed:18718758}.
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_002890683.10.0AP2/ERF and B3 domain-containing transcription repressor TEM1
SwissprotQ9C6M50.0RAVL1_ARATH; AP2/ERF and B3 domain-containing transcription repressor TEM1
TrEMBLA0A087HQZ70.0A0A087HQZ7_ARAAL; Ap2 erf and b3 domain-containing transcription factor rav2
STRINGA0A087HQZ70.0(Arabis alpina)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM84827121
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G25560.11e-178RAV family protein
Publications ? help Back to Top
  1. Ding Y, et al.
    Four distinct types of dehydration stress memory genes in Arabidopsis thaliana.
    BMC Plant Biol., 2013. 13: p. 229
    [PMID:24377444]
  2. Choi D, et al.
    iNID: an analytical framework for identifying network models for interplays among developmental signaling in Arabidopsis.
    Mol Plant, 2014. 7(5): p. 792-813
    [PMID:24380880]
  3. Sgamma T,Jackson A,Muleo R,Thomas B,Massiah A
    TEMPRANILLO is a regulator of juvenility in plants.
    Sci Rep, 2014. 4: p. 3704
    [PMID:24424565]
  4. 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]
  5. 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]
  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]