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 SMil_00025905-RA_Salv
Organism
Salvia miltiorrhiza
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; asterids; lamiids; Lamiales; Lamiaceae; Nepetoideae; Mentheae; Salvia
Family RAV
Protein Properties Length: 347aa    MW: 39029.7 Da    PI: 9.7462
Description RAV family protein
Gene Model
Gene Model ID Type Source Coding Sequence
SMil_00025905-RA_SalvgenomeNDCTCMView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1AP241.24.1e-134694155
                    AP2  1 sgykGVrwdkkrgrWvAeIrdpsengkrkrfslgkfgtaeeAakaaiaarkkleg 55
                           s++kGV   + +grW A+I++      ++r++lg+f  ++eAa+a++ a+++++g
  SMil_00025905-RA_Salv 46 SRFKGVVPQP-NGRWGAQIYEK-----HQRVWLGTFNEEDEAARAYDTAAQRFRG 94
                           689***9788.8*********3.....5**********99*************98 PP
2B3104.55.6e-33166267198
                            EEEE-..-HHHHTT-EE--HHH.HTT....---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE CS
                     B3   1 ffkvltpsdvlksgrlvlpkkfaeeh....ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkl 84 
                            f+k+ tpsdv+k++rlv+pk++ae+h    +g++ +++ l +ed +g++W+++++y+++s++yvltkGW++Fvk+++L++gD+v F++
  SMil_00025905-RA_Salv 166 FEKAVTPSDVGKLNRLVIPKQHAEKHfplqSGNSSKGVLLNFEDAKGKVWRFRYSYWNSSQSYVLTKGWSRFVKEKDLRAGDIVSFQR 253
                            89****************************888899***************************************************8 PP

                            -SSSEE..EEEEE- CS
                     B3  85 dgrsefelvvkvfr 98 
                            +   +++l++ + +
  SMil_00025905-RA_Salv 254 STGPDKQLYIDWKE 267
                            86688888887765 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PfamPF008472.6E-84694IPR001471AP2/ERF domain
CDDcd000181.87E-2346101No hitNo description
SuperFamilySSF541719.15E-1746102IPR016177DNA-binding domain
Gene3DG3DSA:3.30.730.104.5E-2047102IPR001471AP2/ERF domain
SMARTSM003801.3E-2947108IPR001471AP2/ERF domain
PROSITE profilePS5103219.87547102IPR001471AP2/ERF domain
Gene3DG3DSA:2.40.330.105.8E-43158276IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019368.24E-30164264IPR015300DNA-binding pseudobarrel domain
CDDcd100173.24E-28165254No hitNo description
SMARTSM010191.2E-24166269IPR003340B3 DNA binding domain
PfamPF023621.7E-29166268IPR003340B3 DNA binding domain
PROSITE profilePS5086314.635166269IPR003340B3 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: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
MDGSSVDDST TTDTLSMTLA SPSPSPPAKS PDLDGVEAES RKLPSSRFKG VVPQPNGRWG  60
AQIYEKHQRV WLGTFNEEDE AARAYDTAAQ RFRGRDAVTN FKPLSDDEAE AAFLSSHSKA  120
EIVDMLRKHT YADELEQSRR SYGAGGSRTA ERDGERAAAK AREQLFEKAV TPSDVGKLNR  180
LVIPKQHAEK HFPLQSGNSS KGVLLNFEDA KGKVWRFRYS YWNSSQSYVL TKGWSRFVKE  240
KDLRAGDIVS FQRSTGPDKQ LYIDWKERNN NGTASNPVQV MRLFGVNIFQ ADYCSGKRMR  300
EMEIMGLDCT KKQRIINVLG GGEGGVRWRC RNLQNLQLYS KIDKKEG
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1wid_A4e-5916326911118DNA-binding protein RAV1
Search in ModeBase
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
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Expressed with a circadian rhythm showing a peak at dawn. {ECO:0000269|PubMed:18718758}.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_012846076.11e-177PREDICTED: LOW QUALITY PROTEIN: AP2/ERF and B3 domain-containing transcription factor RAV1-like
SwissprotQ9C6M51e-143RAVL1_ARATH; AP2/ERF and B3 domain-containing transcription repressor TEM1
TrEMBLA0A4D9A8D60.0A0A4D9A8D6_SALSN; RAV-like factor
STRINGMigut.E00306.1.p1e-172(Erythranthe guttata)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
AsteridsOGEA29582453
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G25560.11e-142RAV 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]