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 Glyma.10G204400.1.p
Common NameGLYMA_10G204400, LOC732601, RAV
Organism
Glycine max
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Fabales; Fabaceae; Papilionoideae; Phaseoleae; Glycine; Soja
Family RAV
Protein Properties Length: 352aa    MW: 38379.3 Da    PI: 8.0431
Description RAV family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Glyma.10G204400.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1AP244.53.8e-1452100155
                  AP2   1 sgykGVrwdkkrgrWvAeIrdpsengkrkrfslgkfgtaeeAakaaiaarkkleg 55 
                          s+ykGV   + +grW A+I++      ++r++lg+f  ++eAa+a++ a+++++g
  Glyma.10G204400.1.p  52 SKYKGVVPQP-NGRWGAQIYEK-----HQRVWLGTFNEEDEAARAYDIAALRFRG 100
                          89****9888.8*********3.....5**********99*************98 PP
2B393.41.6e-29172269183
                          EEEE-..-HHHHTT-EE--HHH.HTT...............---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT-- CS
                   B3   1 ffkvltpsdvlksgrlvlpkkfaeeh...............ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLk 75 
                          f+k+ tpsdv+k++rlv+pk++ae+h               g + ++++ l +ed  g++W+++++y+++s++yvltkGW++Fvk+++L+
  Glyma.10G204400.1.p 172 FEKTVTPSDVGKLNRLVIPKQHAEKHfplsgsgdesspcvaGASAAKGMLLNFEDVGGKVWRFRYSYWNSSQSYVLTKGWSRFVKEKNLR 261
                          99*****************************999999999877888******************************************** PP

                          TT-EEEEE CS
                   B3  76 egDfvvFk 83 
                          +gD v F 
  Glyma.10G204400.1.p 262 AGDAVQFF 269
                          *****986 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
CDDcd000188.59E-2752107No hitNo description
SuperFamilySSF541711.05E-1752108IPR016177DNA-binding domain
PfamPF008475.4E-952100IPR001471AP2/ERF domain
PROSITE profilePS5103220.66653108IPR001471AP2/ERF domain
SMARTSM003801.8E-3053114IPR001471AP2/ERF domain
Gene3DG3DSA:3.30.730.105.4E-2153108IPR001471AP2/ERF domain
Gene3DG3DSA:2.40.330.101.6E-38166287IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019369.16E-29170283IPR015300DNA-binding pseudobarrel domain
CDDcd100171.45E-27171280No hitNo description
PROSITE profilePS5086312.971172286IPR003340B3 DNA binding domain
SMARTSM010191.4E-21172285IPR003340B3 DNA binding domain
PfamPF023629.0E-27172269IPR003340B3 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: 352 aa     Download sequence    Send to blast
MDGGCVTDET TTSSDSLSVP PPSRVGSVAS AVVDPDGCCV SGEAESRKLP SSKYKGVVPQ  60
PNGRWGAQIY EKHQRVWLGT FNEEDEAARA YDIAALRFRG PDAVTNFKPP AASDDAESEF  120
LNSHSKFEIV DMLRKHTYDD ELQQSTRGGR RRLDADTASS GVFDAKAREQ LFEKTVTPSD  180
VGKLNRLVIP KQHAEKHFPL SGSGDESSPC VAGASAAKGM LLNFEDVGGK VWRFRYSYWN  240
SSQSYVLTKG WSRFVKEKNL RAGDAVQFFK STGPDRQLYI DCKARSGEVN NNAGGLFVPI  300
GPVVEPVQMV RLFGVNLLKL PVPGSDGVGK RKEMELFAFE CCKKLKVIGA L*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1wid_A1e-5416928711119DNA-binding protein RAV1
Search in ModeBase
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1329345KRKEMELFAFECCKKLK
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Gma.268490.0hypocotyl| leaf
Expression -- Description ? help Back to Top
Source Description
UniprotTISSUE SPECIFICITY: Expressed in leaves. {ECO:0000269|PubMed:18718758}.
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}.
Function -- GeneRIF ? help Back to Top
  1. RAV-like DNA-binding protein may be a negative regulator acting on both photosynthesis and growth.
    [PMID: 18297307]
  2. GmRAV was inferred to play a key role in cytokinin and photoperiod signalling that subsequently regulated plant development.
    [PMID: 22389516]
  3. GmRAV was inferred to have a fundamental function in photoperiod, darkness, and sucrose signaling responses to regulate plant development and flowering induction.[GmRAV]
    [PMID: 24551235]
Cis-element ? help Back to Top
SourceLink
PlantRegMapGlyma.10G204400.1.p
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 -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankDQ1479140.0DQ147914.1 Glycine max RAV-like DNA-binding protein (RAV) mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqNP_001237600.10.0RAV-like DNA-binding protein
RefseqXP_028186025.10.0AP2/ERF and B3 domain-containing transcription repressor RAV2-like
SwissprotQ9C6M51e-129RAVL1_ARATH; AP2/ERF and B3 domain-containing transcription repressor TEM1
TrEMBLA0A445IQ770.0A0A445IQ77_GLYSO; AP2/ERF and B3 domain-containing transcription repressor TEM1
TrEMBLQ45EZ40.0Q45EZ4_SOYBN; RAV-like DNA-binding protein
STRINGGLYMA10G34760.10.0(Glycine max)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
FabidsOGEF29203274
Representative plantOGRP36516108
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G25560.11e-129RAV family protein
Publications ? help Back to Top
  1. Zhao L,Luo Q,Yang C,Han Y,Li W
    A RAV-like transcription factor controls photosynthesis and senescence in soybean.
    Planta, 2008. 227(6): p. 1389-99
    [PMID:18297307]
  2. Zhao L, et al.
    Roles for a soybean RAV-like orthologue in shoot regeneration and photoperiodicity inferred from transgenic plants.
    J. Exp. Bot., 2012. 63(8): p. 3257-70
    [PMID:22389516]
  3. Ding Y, et al.
    Four distinct types of dehydration stress memory genes in Arabidopsis thaliana.
    BMC Plant Biol., 2013. 13: p. 229
    [PMID:24377444]
  4. 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]
  5. 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]
  6. Lu Q, et al.
    A GmRAV ortholog is involved in photoperiod and sucrose control of flowering time in soybean.
    PLoS ONE, 2014. 9(2): p. e89145
    [PMID:24551235]
  7. 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]
  8. 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]
  9. 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]