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 Solyc04g007000.1.1
Organism
Solanum lycopersicum
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; Lycopersicon
Family RAV
Protein Properties Length: 373aa    MW: 42221.9 Da    PI: 9.5267
Description RAV family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Solyc04g007000.1.1genomeITAGView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1AP242.91.2e-1365113155
                 AP2   1 sgykGVrwdkkrgrWvAeIrdpsengkrkrfslgkfgtaeeAakaaiaarkkleg 55 
                         s++kGV   + +grW A+I++      ++r++lg+f  +eeAa+a++ a+++++g
  Solyc04g007000.1.1  65 SKFKGVVPQP-NGRWGAQIYEK-----HQRIWLGTFNGEEEAARAYDIAAQRFRG 113
                         79****9888.8*********3.....5*************************98 PP
2B3932.1e-29203296185
                         EEEE-..-HHHHTT-EE--HHH.HTT.........---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEE CS
                  B3   1 ffkvltpsdvlksgrlvlpkkfaeeh.........ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvF 82 
                         f+kv tpsdv+k++rlv+pk++ae++         + ++ +++ l +ed +g+ W+++++y+++s++yvltkGW+++vk+++Lk+gD+v F
  Solyc04g007000.1.1 203 FEKVVTPSDVGKLNRLVIPKQHAERYfplvakvnkNDNTSKGVLLNFEDMNGKMWRFRYSYWNSSQSYVLTKGWSRYVKEKKLKAGDIVSF 293
                         99*****************************9999778889************************************************** PP

                         EE- CS
                  B3  83 kld 85 
                         k+ 
  Solyc04g007000.1.1 294 KRC 296
                         *43 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PfamPF008471.6E-865113IPR001471AP2/ERF domain
CDDcd000186.40E-2765120No hitNo description
SuperFamilySSF541711.57E-1765121IPR016177DNA-binding domain
PROSITE profilePS5103220.04766121IPR001471AP2/ERF domain
Gene3DG3DSA:3.30.730.106.5E-2066121IPR001471AP2/ERF domain
SMARTSM003802.0E-2866127IPR001471AP2/ERF domain
Gene3DG3DSA:2.40.330.106.0E-38196298IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019361.83E-29201296IPR015300DNA-binding pseudobarrel domain
CDDcd100172.19E-26202295No hitNo description
PROSITE profilePS5086313.719203310IPR003340B3 DNA binding domain
PfamPF023627.5E-27203297IPR003340B3 DNA binding domain
SMARTSM010195.5E-20203311IPR003340B3 DNA binding domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation 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: 373 aa     Download sequence    Send to blast
MEVSCIDQEI STTSDSPSTI SPAGSPRQMG SGVSVVTDAD STNGVEAESK NTTITNNNNN  60
KLPSSKFKGV VPQPNGRWGA QIYEKHQRIW LGTFNGEEEA ARAYDIAAQR FRGRDAVTNF  120
KPLFDFQTEE IEISFLNSRS KVEIVEMLRK HTYNDELQHA KKVYNNNTFE MNGRSTCHTN  180
TNIATFSLDT NEKVANIASE LLFEKVVTPS DVGKLNRLVI PKQHAERYFP LVAKVNKNDN  240
TSKGVLLNFE DMNGKMWRFR YSYWNSSQSY VLTKGWSRYV KEKKLKAGDI VSFKRCSGVE  300
IEDKLLIDSK NRIIRGEQVK MVRLFGVNIC KVQDVSNNVV VEKNMSVGKR MREMELLAFE  360
CSKKQRVIID AL*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5os9_A2e-492003125113B3 domain-containing transcription factor NGA1
5os9_B2e-492003125113B3 domain-containing transcription factor NGA1
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Les.104130.0flower| fruit
Expression -- Microarray ? help Back to Top
Source ID E-value
GEO43845490.0
Expression -- Description ? help Back to Top
Source Description
UniprotTISSUE SPECIFICITY: Expressed in all tissues examined: Roots, rosette leaves, cauline leaves, inflorescence stems, flowers and siliques. Highest expression in roots and rosette leaves. Very low expression in flowers. {ECO:0000269|PubMed:9862967}.
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}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapSolyc04g007000.1.1
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
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankEU1644160.0Solanum lycopersicum RAV1 gene, promoter region and complete cds
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_004236999.10.0AP2/ERF and B3 domain-containing transcription factor RAV1
SwissprotQ9ZWM91e-123RAV1_ARATH; AP2/ERF and B3 domain-containing transcription factor RAV1
TrEMBLE1U2K40.0E1U2K4_SOLLC; RAV1
STRINGSolyc04g007000.1.10.0(Solanum lycopersicum)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
AsteridsOGEA29582453
Representative plantOGRP36516108
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G13260.11e-122related to ABI3/VP1 1
Publications ? help Back to Top
  1. Wang Y,van der Hoeven RS,Nielsen R,Mueller LA,Tanksley SD
    Characteristics of the tomato nuclear genome as determined by sequencing undermethylated EcoRI digested fragments.
    Theor. Appl. Genet., 2005. 112(1): p. 72-84
    [PMID:16208505]
  2. Li CW, et al.
    Tomato RAV transcription factor is a pivotal modulator involved in the AP2/EREBP-mediated defense pathway.
    Plant Physiol., 2011. 156(1): p. 213-27
    [PMID:21398258]
  3. 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]
  4. 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]
  5. 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]
  6. 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]