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_013622296.1
Organism
Brassica oleracea
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: 352aa    MW: 39507.4 Da    PI: 9.7613
Description RAV family protein
Gene Model
Gene Model ID Type Source Coding Sequence
XP_013622296.1genomeNCBIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1AP239.91e-1260108155
             AP2   1 sgykGVrwdkkrgrWvAeIrdpsengkrkrfslgkfgtaeeAakaaiaarkkleg 55 
                     s++kGV   + +grW A+I++      ++r++lg+f  +eeAa+ ++ a+++++g
  XP_013622296.1  60 SKFKGVVPQP-NGRWGAQIYEK-----HQRVWLGTFNEEEEAAASYDIAARRFRG 108
                     79****9888.8*********3.....5*************************98 PP
2B3104.84.5e-33185287196
                     EEEE-..-HHHHTT-EE--HHH.HTT.......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSS CS
              B3   1 ffkvltpsdvlksgrlvlpkkfaeeh.......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgrs 88 
                     f+k+ tpsdv+k++rlv+pk++ae+h         ++++++ + led++g++W+++++y+++s++yvltkGW++Fvk+++L++gD+v F++++  
  XP_013622296.1 185 FEKAVTPSDVGKLNRLVIPKQHAEKHfplpvsvTPSPTKGVLINLEDRTGKVWRFRYSYWNSSQSYVLTKGWSRFVKEKNLRAGDVVCFERSSGP 279
                     89****************************9996677899**************************************************88777 PP

                     EE..EEEE CS
              B3  89 efelvvkv 96 
                     +++l++ +
  XP_013622296.1 280 DQQLYIDW 287
                     77777765 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
CDDcd000183.99E-2560115No hitNo description
SuperFamilySSF541713.01E-1660116IPR016177DNA-binding domain
PfamPF008477.7E-760108IPR001471AP2/ERF domain
PROSITE profilePS5103219.45461116IPR001471AP2/ERF domain
Gene3DG3DSA:3.30.730.101.4E-1961116IPR001471AP2/ERF domain
SMARTSM003801.7E-2861122IPR001471AP2/ERF domain
Gene3DG3DSA:2.40.330.106.0E-41182299IPR015300DNA-binding pseudobarrel domain
CDDcd100174.43E-30184276No hitNo description
SuperFamilySSF1019368.24E-32184287IPR015300DNA-binding pseudobarrel domain
PROSITE profilePS5086314.522185291IPR003340B3 DNA binding domain
PfamPF023621.7E-29185287IPR003340B3 DNA binding domain
SMARTSM010195.5E-26185291IPR003340B3 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: 352 aa     Download sequence    Send to blast
MDYSCIDDNT SNTSETLSMS KKTPPQATMR LYRMGSGGSS VVLDLENGVE TESSRKLPSS  60
KFKGVVPQPN GRWGAQIYEK HQRVWLGTFN EEEEAAASYD IAARRFRGRD AVTNFKSPSS  120
DAESAFLEAH SKAEIVDMLR KHTYADELRQ SERKFLDGDG NGKKRRESKT TVTDENDGVL  180
REVLFEKAVT PSDVGKLNRL VIPKQHAEKH FPLPVSVTPS PTKGVLINLE DRTGKVWRFR  240
YSYWNSSQSY VLTKGWSRFV KEKNLRAGDV VCFERSSGPD QQLYIDWKVR SGIEKTTSVQ  300
TVVRLFGVNI FNATTNANTN DAVGESSSKK RSREVDLFAL GCSKKQAIIN VL
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1wid_A2e-5918229211119DNA-binding protein RAV1
Search in ModeBase
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}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapXP_013622296.1
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 -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_013622296.10.0PREDICTED: AP2/ERF and B3 domain-containing transcription repressor TEM1
RefseqXP_013657185.10.0AP2/ERF and B3 domain-containing transcription repressor TEM1-like
SwissprotQ9C6M50.0RAVL1_ARATH; AP2/ERF and B3 domain-containing transcription repressor TEM1
TrEMBLA0A0D3BI420.0A0A0D3BI42_BRAOL; Uncharacterized protein
STRINGBo3g138550.10.0(Brassica oleracea)
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
AT1G25560.10.0RAV family protein
Publications ? help Back to Top
  1. Ding Y, et al.
    Four distinct types of dehydration stress memory genes in Arabidopsis thaliana.
    BMC Plant Biol., 2013. 13: p. 229
    [PMID:24377444]
  2. 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]
  3. 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]
  4. 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]
  5. 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]
  6. 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]