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 XP_009127674.1
Organism
Brassica rapa
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Brassiceae; Brassica
Family RAV
Protein Properties Length: 350aa    MW: 39060.2 Da    PI: 10.1162
Description RAV family protein
Gene Model
Gene Model ID Type Source Coding Sequence
XP_009127674.1genomeNCBIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1AP238.43e-1268116155
             AP2   1 sgykGVrwdkkrgrWvAeIrdpsengkrkrfslgkfgtaeeAakaaiaarkkleg 55 
                     s+ykGV   + +grW A+I++      ++r++lg+f  +eeAa  ++ a++k++g
  XP_009127674.1  68 SKYKGVVPQP-NGRWGAQIYVK-----HQRVWLGTFCDEEEAAHSYDIAARKFRG 116
                     89****9888.8*********3.....5*************************98 PP
2B3105.33.1e-33189288196
                     EEEE-..-HHHHTT-EE--HHH.HTT....---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSSEE. CS
              B3   1 ffkvltpsdvlksgrlvlpkkfaeeh....ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgrsefe 91 
                     f+kv tpsdv+k++rlv+pk++ae++    +++ ++++ + +ed +g++W+++++y+++s++yvltkGW++Fvk+++L++gD+v+F+++  s+++
  XP_009127674.1 189 FEKVVTPSDVGKLNRLVIPKQHAEKYfplpSLSVTKGVLINFEDVTGKVWRFRYSYWNSSQSYVLTKGWSRFVKEKNLRAGDVVTFERSTGSDRQ 283
                     99****************************888899***************************************************88668888 PP

                     .EEEE CS
              B3  92 lvvkv 96 
                     l++ +
  XP_009127674.1 284 LYIDW 288
                     87765 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF541711.83E-1668124IPR016177DNA-binding domain
CDDcd000188.06E-2468123No hitNo description
PfamPF008472.5E-568116IPR001471AP2/ERF domain
SMARTSM003801.5E-2669130IPR001471AP2/ERF domain
Gene3DG3DSA:3.30.730.102.6E-1969124IPR001471AP2/ERF domain
PROSITE profilePS5103219.57269124IPR001471AP2/ERF domain
Gene3DG3DSA:2.40.330.104.3E-41182293IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019362.49E-32186288IPR015300DNA-binding pseudobarrel domain
CDDcd100172.35E-29188286No hitNo description
PfamPF023622.5E-30189288IPR003340B3 DNA binding domain
SMARTSM010191.1E-26189292IPR003340B3 DNA binding domain
PROSITE profilePS5086314.706189292IPR003340B3 DNA binding domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0045892Biological Processnegative regulation of transcription, DNA-templated
GO:0003677Molecular FunctionDNA binding
GO:0003700Molecular Functiontranscription factor activity, sequence-specific DNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 350 aa     Download sequence    Send to blast
MVFSCIDESS STSESFSPAT ATATATATKF SAPPLPPLRL NRMRSGGSNV VLDSKNGVDI  60
DSRKLSSSKY KGVVPQPNGR WGAQIYVKHQ RVWLGTFCDE EEAAHSYDIA ARKFRGRDAV  120
VNFKTFLASE DDNGELCFLE AHSKAEIVDM LRKHTYADEL AQSNKRSGAN TNTNTTQSHT  180
VSRTREVLFE KVVTPSDVGK LNRLVIPKQH AEKYFPLPSL SVTKGVLINF EDVTGKVWRF  240
RYSYWNSSQS YVLTKGWSRF VKEKNLRAGD VVTFERSTGS DRQLYIDWKI RSGPSKNPVQ  300
VVVRLFGVDI FNVTSAKPSN VVDACGGKRS RDVDMFALRC SKKHAIINAL
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1wid_A1e-6018629311119DNA-binding protein RAV1
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtProbably acts as a transcriptional activator. Binds to the GCC-box pathogenesis-related promoter element. May be involved in the regulation of gene expression by stress factors and by components of stress signal transduction pathways (By similarity). Transcriptional repressor of flowering time on long day plants. Acts directly on FT expression by binding 5'-CAACA-3' and 5'-CACCTG-3 sequences (Probable). Functionally redundant with TEM1. {ECO:0000250, ECO:0000269|PubMed:18718758, ECO:0000305}.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00025PBMTransfer from AT1G68840Download
Motif logo
Cis-element ? help Back to Top
SourceLink
PlantRegMapXP_009127674.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAC0116651e-136AC011665.8 Arabidopsis thaliana chromosome 1 BAC T6L1 genomic sequence, complete sequence.
GenBankAC0119141e-136AC011914.9 Arabidopsis thaliana chromosome 1 BAC F14K14 genomic sequence, complete sequence.
GenBankAF3603121e-136AF360312.1 Arabidopsis thaliana putative DNA-binding protein(RAV2 (At1g68840) mRNA, complete cds.
GenBankAY0563611e-136AY056361.1 Arabidopsis thaliana putative DNA-binding protein RAV2 (At1g68840) mRNA, complete cds.
GenBankAY0859081e-136AY085908.1 Arabidopsis thaliana clone 19561 mRNA, complete sequence.
GenBankCP0026841e-136CP002684.1 Arabidopsis thaliana chromosome 1 sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_009127674.10.0PREDICTED: AP2/ERF and B3 domain-containing transcription repressor RAV2
SwissprotP822800.0RAV2_ARATH; AP2/ERF and B3 domain-containing transcription repressor RAV2
TrEMBLA0A078I8V80.0A0A078I8V8_BRANA; BnaA02g14040D protein
TrEMBLM4FB800.0M4FB80_BRARP; Uncharacterized protein
STRINGBra038346.1-P0.0(Brassica rapa)
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
AT1G68840.20.0related to ABI3/VP1 2
Publications ? help Back to Top
  1. 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]
  2. 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]
  3. Sun YW, et al.
    Attenuation of Histone Methyltransferase KRYPTONITE-mediated transcriptional gene silencing by Geminivirus.
    Sci Rep, 2015. 5: p. 16476
    [PMID:26602265]
  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. 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]
  6. Li P, et al.
    The Arabidopsis UGT87A2, a stress-inducible family 1 glycosyltransferase, is involved in the plant adaptation to abiotic stresses.
    Physiol Plant, 2017. 159(4): p. 416-432
    [PMID:27747895]