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 29738.m001050
Common NameLOC8269518, RCOM_0705620
Organism
Ricinus communis
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Malpighiales; Euphorbiaceae; Acalyphoideae; Acalypheae; Ricinus
Family RAV
Protein Properties Length: 371aa    MW: 41663 Da    PI: 9.5459
Description RAV family protein
Gene Model
Gene Model ID Type Source Coding Sequence
29738.m001050genomeJCVIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1AP243.95.8e-1466114155
            AP2   1 sgykGVrwdkkrgrWvAeIrdpsengkrkrfslgkfgtaeeAakaaiaarkkleg 55 
                    s+ykGV   + +grW A+I++      ++r++lg+f  ++eAaka++ a+++++g
  29738.m001050  66 SKYKGVVPQP-NGRWGAQIYEK-----HQRVWLGTFNEEDEAAKAYDIAAQRFRG 114
                    89****9888.8*********3.....5**********99*************98 PP
2B399.91.6e-31204301193
                    EEEE-..-HHHHTT-EE--HHH.HTT.....---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSSEE. CS
             B3   1 ffkvltpsdvlksgrlvlpkkfaeeh.....ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgrsefe 91 
                    f+k+ tpsdv+k++rlv+pk++ae+h     g+++++++ l +ed +g++W+++++y+++s++yvltkGW++Fvk+++Lk+gD+v F  +   +++
  29738.m001050 204 FEKAVTPSDVGKLNRLVIPKQHAEKHfplqsGSNSTKGVLLNFEDITGKVWRFRYSYWNSSQSYVLTKGWSRFVKEKNLKAGDIVRFLKSTGPDKQ 299
                    89*****************************99999***************************************************844335555 PP

                    .E CS
             B3  92 lv 93 
                    l+
  29738.m001050 300 LY 301
                    55 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF541717.85E-1766122IPR016177DNA-binding domain
CDDcd000181.61E-2566124No hitNo description
PfamPF008479.0E-966114IPR001471AP2/ERF domain
Gene3DG3DSA:3.30.730.106.5E-2067122IPR001471AP2/ERF domain
SMARTSM003803.5E-2867128IPR001471AP2/ERF domain
PROSITE profilePS5103220.07367122IPR001471AP2/ERF domain
Gene3DG3DSA:2.40.330.104.1E-41198309IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019363.92E-31202293IPR015300DNA-binding pseudobarrel domain
CDDcd100171.87E-28203290No hitNo description
PfamPF023621.8E-28204302IPR003340B3 DNA binding domain
SMARTSM010194.9E-22204308IPR003340B3 DNA binding domain
PROSITE profilePS5086313.662204308IPR003340B3 DNA binding domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0048573Biological Processphotoperiodism, flowering
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
GO:0003700Molecular Functiontranscription factor activity, sequence-specific DNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 371 aa     Download sequence    Send to blast
MDGSCIDEST TSDSISITPT SNISPSSNPL PSKSPESPLC RVGSGTSVVL DSESGIEAES  60
RKLPSSKYKG VVPQPNGRWG AQIYEKHQRV WLGTFNEEDE AAKAYDIAAQ RFRGRDAITN  120
FKPQATDHQS EEDEIETAFL NSHSKAEIVD MLRKHTYNDE LEQSKRNYTS NNGRGDKFQN  180
RTNMNNVGLS GSERIIMKAR EQLFEKAVTP SDVGKLNRLV IPKQHAEKHF PLQSGSNSTK  240
GVLLNFEDIT GKVWRFRYSY WNSSQSYVLT KGWSRFVKEK NLKAGDIVRF LKSTGPDKQL  300
YIDWKVRTLT PTVSNPVVCS VQPVQMVRLF GVNIFKVPGN SHIEGCNGKR IREMELLSLD  360
CIKKQRVIGA L
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1wid_A1e-5820130811118DNA-binding protein RAV1
Search in ModeBase
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}.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00024PBMTransfer from AT1G25560Download
Motif logo
Cis-element ? help Back to Top
SourceLink
PlantRegMap29738.m001050
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_002524409.10.0AP2/ERF and B3 domain-containing transcription factor RAV1
SwissprotQ9C6M51e-153RAVL1_ARATH; AP2/ERF and B3 domain-containing transcription repressor TEM1
TrEMBLB9SEJ00.0B9SEJ0_RICCO; DNA-binding protein RAV1, putative
STRINGXP_002524409.10.0(Ricinus communis)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
FabidsOGEF29203274
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G25560.11e-150RAV 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]