PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
Previous version: v3.0 v4.0
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID Csa05g085430.1
Organism
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Camelineae; Camelina
Family RAV
Protein Properties Length: 359aa    MW: 40392.9 Da    PI: 10.259
Description RAV family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Csa05g085430.1genomeCSGPView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1AP242.22e-1365113155
             AP2   1 sgykGVrwdkkrgrWvAeIrdpsengkrkrfslgkfgtaeeAakaaiaarkkleg 55 
                     s+ykGV   + +grW A+I++      ++r++lg+f   eeAa+ ++ a+++++g
  Csa05g085430.1  65 SKYKGVVPQP-NGRWGAQIYEK-----HQRVWLGTFNEQEEAARSYDIAALRFRG 113
                     89****9888.8*********3.....5*************************98 PP

2B31016.8e-32190291192
                     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          + + ++++ + +ed +g++W+++++y+++s++yvltkGW++Fvk+++L++gD+v+F+++
  Csa05g085430.1 190 FEKAVTPSDVGKLNRLVIPKQHAEKHfplpsrspsrSPSVTKGVLINFEDVNGKVWRFRYSYWNSSQSYVLTKGWSRFVKEKNLRAGDVVTFQRS 284
                     89*************************99998888733345999*************************************************76 PP

                     SSSEE.. CS
              B3  86 grsefel 92 
                        +++l
  Csa05g085430.1 285 TGLDQQL 291
                     5444445 PP

Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PfamPF008471.7E-865113IPR001471AP2/ERF domain
CDDcd000182.86E-2665120No hitNo description
SuperFamilySSF541717.19E-1765122IPR016177DNA-binding domain
Gene3DG3DSA:3.30.730.102.2E-2066121IPR001471AP2/ERF domain
PROSITE profilePS5103220.73266121IPR001471AP2/ERF domain
SMARTSM003803.9E-3166127IPR001471AP2/ERF domain
Gene3DG3DSA:2.40.330.102.2E-40184299IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019364.32E-31188287IPR015300DNA-binding pseudobarrel domain
CDDcd100179.16E-28189284No hitNo description
PROSITE profilePS5086313.733190299IPR003340B3 DNA binding domain
SMARTSM010196.6E-26190299IPR003340B3 DNA binding domain
PfamPF023623.9E-29190294IPR003340B3 DNA binding domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation 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: 359 aa     Download sequence    Send to blast
MDSSCIEEIS SSTSESFSTT TAKKLSPPLP PAATFRLYRM GSGGSSVVLD LENGVETESR  60
KLPSSKYKGV VPQPNGRWGA QIYEKHQRVW LGTFNEQEEA ARSYDIAALR FRGRDAVVNF  120
KTLLEDGDLA FLEAHSKAEI VDMLRKHTYV DELEQNNKRR LLLSFDANGK RNGSSTALND  180
NVLRTREVLF EKAVTPSDVG KLNRLVIPKQ HAEKHFPLPS RSPSRSPSVT KGVLINFEDV  240
NGKVWRFRYS YWNSSQSYVL TKGWSRFVKE KNLRAGDVVT FQRSTGLDQQ LYIDWKVRSG  300
PRENPVQVVV RLFGVDIFNV NTVKPNDVVA VCGRKRSRVA DDMFGLRCSK KQTIVNAL*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1wid_A4e-6218730011119DNA-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}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapCsa05g085430.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAB0138870.0AB013887.1 Arabidopsis thaliana mRNA for RAV2, complete cds.
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_010511905.10.0PREDICTED: AP2/ERF and B3 domain-containing transcription repressor RAV2-like
SwissprotP822800.0RAV2_ARATH; AP2/ERF and B3 domain-containing transcription repressor RAV2
TrEMBLA0A178WNP00.0A0A178WNP0_ARATH; TEM2
STRINGXP_010511905.10.0(Camelina sativa)
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]