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 Cagra.1157s0007.1.p
Organism
Capsella grandiflora
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Camelineae; Capsella
Family RAV
Protein Properties Length: 360aa    MW: 40327.6 Da    PI: 9.7962
Description RAV family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Cagra.1157s0007.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1AP242.22e-1367115155
                  AP2   1 sgykGVrwdkkrgrWvAeIrdpsengkrkrfslgkfgtaeeAakaaiaarkkleg 55 
                          s+ykGV   + +grW A+I++      ++r++lg+f   eeAa+ ++ a+++++g
  Cagra.1157s0007.1.p  67 SKYKGVVPQP-NGRWGAQIYEK-----HQRVWLGTFNEQEEAARSYDIAALRFRG 115
                          89****9888.8*********3.....5*************************98 PP
2B3103.89.1e-33193296197
                          EEEE-..-HHHHTT-EE--HHH.HTT.......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEE CS
                   B3   1 ffkvltpsdvlksgrlvlpkkfaeeh.......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFk 83 
                          f+k+ tpsdv+k++rlv+pk++ae+h        ++ ++++ + +ed +g++W+++++y+++s++yvltkGW++Fvk+++L++gD+v+F+
  Cagra.1157s0007.1.p 193 FEKAVTPSDVGKLNRLVIPKQHAEKHfplpsqsPSPVTKGVLINFEDVNGKVWRFRYSYWNSSQSYVLTKGWSRFVKEKNLRAGDVVTFE 282
                          89***************************99886666799************************************************** PP

                          E-SSSEE..EEEEE CS
                   B3  84 ldgrsefelvvkvf 97 
                          ++   +++l++ ++
  Cagra.1157s0007.1.p 283 RSTGLDRQLYIDWR 296
                          87667777777776 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PfamPF008471.7E-867115IPR001471AP2/ERF domain
SuperFamilySSF541717.19E-1767124IPR016177DNA-binding domain
CDDcd000183.02E-2667122No hitNo description
SMARTSM003803.9E-3168129IPR001471AP2/ERF domain
Gene3DG3DSA:3.30.730.102.2E-2068123IPR001471AP2/ERF domain
PROSITE profilePS5103220.73268123IPR001471AP2/ERF domain
Gene3DG3DSA:2.40.330.108.9E-41187299IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019362.62E-32190292IPR015300DNA-binding pseudobarrel domain
CDDcd100171.88E-29192284No hitNo description
PROSITE profilePS5086314.297193299IPR003340B3 DNA binding domain
SMARTSM010195.5E-28193299IPR003340B3 DNA binding domain
PfamPF023624.3E-30193296IPR003340B3 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: 360 aa     Download sequence    Send to blast
MDSSCIEEIS SSTSESFSTT TAKKLSPPPP PPPATALRLY RMGSGGSSIV LDPENGVETE  60
SRKLPSSKYK GVVPQPNGRW GAQIYEKHQR VWLGTFNEQE EAARSYDIAA LRFRGRDAVV  120
NFKTLLEDGD LAFLEAHSKA EIVDMLRKHT YADELEQNNK RRLFLSLDAN GTQRNGSSMV  180
TNDNVLKTRE VLFEKAVTPS DVGKLNRLVI PKQHAEKHFP LPSQSPSPVT KGVLINFEDV  240
NGKVWRFRYS YWNSSQSYVL TKGWSRFVKE KNLRAGDVVT FERSTGLDRQ LYIDWRVRSG  300
PRETPVQVVV RLFGVDIFNV NTVKPNDVVA VCGRKRSRDD ADDMFGLGCS KKQAIINAL*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1wid_A1e-6119030011119DNA-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
PlantRegMapCagra.1157s0007.1.p
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAC0116650.0AC011665.8 Arabidopsis thaliana chromosome 1 BAC T6L1 genomic sequence, complete sequence.
GenBankAC0119140.0AC011914.9 Arabidopsis thaliana chromosome 1 BAC F14K14 genomic sequence, complete sequence.
GenBankAF3603120.0AF360312.1 Arabidopsis thaliana putative DNA-binding protein(RAV2 (At1g68840) mRNA, complete cds.
GenBankAY0563610.0AY056361.1 Arabidopsis thaliana putative DNA-binding protein RAV2 (At1g68840) mRNA, complete cds.
GenBankCP0026840.0CP002684.1 Arabidopsis thaliana chromosome 1 sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_006302450.10.0AP2/ERF and B3 domain-containing transcription repressor RAV2
SwissprotP822800.0RAV2_ARATH; AP2/ERF and B3 domain-containing transcription repressor RAV2
TrEMBLR0IF200.0R0IF20_9BRAS; Uncharacterized protein
STRINGCagra.1157s0007.1.p0.0(Capsella grandiflora)
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]