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 PGSC0003DMP400001547
Common NameLOC102584696
Organism
Solanum tuberosum
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; asterids; lamiids; Solanales; Solanaceae; Solanoideae; Solaneae; Solanum
Family RAV
Protein Properties Length: 399aa    MW: 44805.7 Da    PI: 9.9471
Description RAV family protein
Gene Model
Gene Model ID Type Source Coding Sequence
PGSC0003DMP400001547genomePGSCView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1AP242.31.9e-1371119155
                   AP2   1 sgykGVrwdkkrgrWvAeIrdpsengkrkrfslgkfgtaeeAakaaiaarkkleg 55 
                           s+ykGV   + +grW A+I++      ++r++lg+f  ++eAa+a++ a+++++g
  PGSC0003DMP400001547  71 SRYKGVVPQP-NGRWGAQIYEK-----HQRVWLGTFNEENEAARAYDVAAQRFRG 119
                           78****9888.8*********3.....5*************************98 PP
2B3104.26.8e-33207304194
                           EEEE-..-HHHHTT-EE--HHH.HTT....---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE- CS
                    B3   1 ffkvltpsdvlksgrlvlpkkfaeeh....ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkld 85 
                           f+k+ tpsdv+k++rlv+pk++ae+h    +g++ +++ l +ed++g++W+++++y+++s++yvltkGW++Fvk+++Lk+gD+v F+++
  PGSC0003DMP400001547 207 FEKAVTPSDVGKLNRLVIPKQHAEKHfplqNGNNSKGVLLNFEDLNGKVWRFRYSYWNSSQSYVLTKGWSRFVKEKNLKAGDIVSFQRS 295
                           89****************************778889***************************************************87 PP

                           SSSEE..EE CS
                    B3  86 grsefelvv 94 
                            + +++l++
  PGSC0003DMP400001547 296 TSGDKQLYI 304
                           666666666 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
CDDcd000182.59E-2671126No hitNo description
PfamPF008474.5E-971119IPR001471AP2/ERF domain
SuperFamilySSF541713.33E-1771127IPR016177DNA-binding domain
PROSITE profilePS5103220.27172127IPR001471AP2/ERF domain
SMARTSM003802.7E-3072133IPR001471AP2/ERF domain
Gene3DG3DSA:3.30.730.101.4E-2072127IPR001471AP2/ERF domain
Gene3DG3DSA:2.40.330.104.2E-42199312IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019363.79E-31205304IPR015300DNA-binding pseudobarrel domain
CDDcd100173.63E-29206295No hitNo description
PfamPF023626.1E-30207306IPR003340B3 DNA binding domain
SMARTSM010191.5E-26207310IPR003340B3 DNA binding domain
PROSITE profilePS5086315.439207310IPR003340B3 DNA binding domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0009741Biological Processresponse to brassinosteroid
GO:0009910Biological Processnegative regulation of flower development
GO:0045892Biological Processnegative regulation of transcription, DNA-templated
GO:0048366Biological Processleaf development
GO:0048527Biological Processlateral root development
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
GO:0003700Molecular Functiontranscription factor activity, sequence-specific DNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 399 aa     Download sequence    Send to blast
MEGSISSIDQ ESTTSDSLSI APAASSSTMI KSLTMIKPPP ESGLCRMGSG TSVIIDAENG  60
VEAESRKLPS SRYKGVVPQP NGRWGAQIYE KHQRVWLGTF NEENEAARAY DVAAQRFRGR  120
DAVTNFKPLL ENQESDDMEI AFLNSHSKAE IVDMLRKHTY LDELEQSKRL FGFTKDGMIK  180
RKDGQIISSF FGSTNDKVNC KAREQLFEKA VTPSDVGKLN RLVIPKQHAE KHFPLQNGNN  240
SKGVLLNFED LNGKVWRFRY SYWNSSQSYV LTKGWSRFVK EKNLKAGDIV SFQRSTSGDK  300
QLYIDFKAKN VGNTSVVVTN QVQVQIQVPQ VQMVRLFGVN ICKVPANVSN VVIDNNNNNN  360
NNNNNNMTSW SGGKRRMEME LLTFESCRKK QRVIINAL*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1wid_A1e-5620431011118DNA-binding protein RAV1
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtBinds specifically to bipartite recognition sequences composed of two unrelated motifs, 5'-CAACA-3' and 5'-CACCTG-3'. May function as negative regulator of plant growth and development. {ECO:0000269|PubMed:15040885, ECO:0000269|PubMed:9862967}.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00139DAPTransfer from AT1G13260Download
Motif logo
Cis-element ? help Back to Top
SourceLink
PlantRegMapPGSC0003DMP400001547
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Down-regulated by brassinosteroid and zeatin. {ECO:0000269|PubMed:15040885}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieveRetrieve
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankHG9754440.0HG975444.1 Solanum pennellii chromosome ch05, complete genome.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_006362535.10.0PREDICTED: AP2/ERF and B3 domain-containing transcription factor RAV1
SwissprotQ9ZWM91e-140RAV1_ARATH; AP2/ERF and B3 domain-containing transcription factor RAV1
TrEMBLM0ZJN60.0M0ZJN6_SOLTU; Uncharacterized protein
STRINGPGSC0003DMT4000021250.0(Solanum tuberosum)
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
AT1G13260.11e-141related to ABI3/VP1 1
Publications ? help Back to Top
  1. Xu X, et al.
    Genome sequence and analysis of the tuber crop potato.
    Nature, 2011. 475(7355): p. 189-95
    [PMID:21743474]
  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. 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]
  4. Huang Y,Feng CZ,Ye Q,Wu WH,Chen YF
    Arabidopsis WRKY6 Transcription Factor Acts as a Positive Regulator of Abscisic Acid Signaling during Seed Germination and Early Seedling Development.
    PLoS Genet., 2016. 12(2): p. e1005833
    [PMID:26829043]
  5. Zhao Y, et al.
    ABA receptor PYL9 promotes drought resistance and leaf senescence.
    Proc. Natl. Acad. Sci. U.S.A., 2016. 113(7): p. 1949-54
    [PMID:26831097]