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 NNU_012716-RA
Organism
Nelumbo nucifera
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; stem eudicotyledons; Proteales; Nelumbonaceae; Nelumbo
Family RAV
Protein Properties Length: 365aa    MW: 40798 Da    PI: 9.0655
Description RAV family protein
Gene Model
Gene Model ID Type Source Coding Sequence
NNU_012716-RAgenomeCASView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1AP244.92.9e-1461109155
            AP2   1 sgykGVrwdkkrgrWvAeIrdpsengkrkrfslgkfgtaeeAakaaiaarkkleg 55 
                    s+ykGV   + +grW A+I++      ++r++lg+f  +eeAa+a++ a+++++g
  NNU_012716-RA  61 SQYKGVVPQP-NGRWGAQIYEK-----HQRVWLGTFNEEEEAARAYDIAAQRFRG 109
                    78****9888.8*********3.....5*************************98 PP
2B3101.26.1e-32193292196
                    EEEE-..-HHHHTT-EE--HHH.HTT....---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSSEE.. CS
             B3   1 ffkvltpsdvlksgrlvlpkkfaeeh....ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgrsefel 92 
                    f+k+ tpsdv+k++rlv+pk++ae+h     g++ + + l +ed  g++W+++++y+++s++yvltkGW++Fvk+++Lk+gD+v F+++   +++l
  NNU_012716-RA 193 FDKAVTPSDVGKLNRLVIPKQHAEKHfplqIGSTSKCVLLNFEDNGGKVWRFRYSYWNSSQSYVLTKGWSRFVKEKNLKAGDVVSFQRSTGPDKQL 288
                    89***************************945566889*************************************************876677777 PP

                    EEEE CS
             B3  93 vvkv 96 
                    ++ +
  NNU_012716-RA 289 YIDW 292
                    7766 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF541719.81E-1861117IPR016177DNA-binding domain
CDDcd000186.11E-2761116No hitNo description
PROSITE profilePS5103220.52162117IPR001471AP2/ERF domain
PfamPF008475.6E-962109IPR001471AP2/ERF domain
Gene3DG3DSA:3.30.730.103.7E-2162117IPR001471AP2/ERF domain
SMARTSM003801.2E-3062123IPR001471AP2/ERF domain
PRINTSPR003674.5E-56374IPR001471AP2/ERF domain
PRINTSPR003674.5E-58399IPR001471AP2/ERF domain
Gene3DG3DSA:2.40.330.101.2E-40186300IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019361.7E-29191291IPR015300DNA-binding pseudobarrel domain
CDDcd100171.07E-27192281No hitNo description
PfamPF023621.2E-28193292IPR003340B3 DNA binding domain
PROSITE profilePS5086314.099193296IPR003340B3 DNA binding domain
SMARTSM010191.3E-24193296IPR003340B3 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:0003677Molecular FunctionDNA binding
GO:0003700Molecular Functiontranscription factor activity, sequence-specific DNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 365 aa     Download sequence    Send to blast
MEGSCIDEST SDSISVTPLP VLALPGKKEP EKLCRVGSGA SSVVLDSESG VEAESRKLPS  60
SQYKGVVPQP NGRWGAQIYE KHQRVWLGTF NEEEEAARAY DIAAQRFRGR DAVTNFKPLS  120
ETDEDDIETI FLNSHSKAEI VDMLRKHTYH DELEQTKRNY GCNGDGSRRI RGGGGFGDST  180
GSDRVAKARE QLFDKAVTPS DVGKLNRLVI PKQHAEKHFP LQIGSTSKCV LLNFEDNGGK  240
VWRFRYSYWN SSQSYVLTKG WSRFVKEKNL KAGDVVSFQR STGPDKQLYI DWKPRAASTY  300
MALPQLVHPV NPVQPVEVVR LFGVNIFKIP VSSVVDTWNI NGKRLRDVDF SSLESCKKQR  360
VVGAL
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1wid_A1e-5519029811120DNA-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
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Expressed with a circadian rhythm showing a peak at dawn. {ECO:0000269|PubMed:18718758}.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_010265251.10.0PREDICTED: AP2/ERF and B3 domain-containing transcription factor RAV1-like
SwissprotQ9C6M51e-148RAVL1_ARATH; AP2/ERF and B3 domain-containing transcription repressor TEM1
TrEMBLA0A1U8AE700.0A0A1U8AE70_NELNU; AP2/ERF and B3 domain-containing transcription factor RAV1-like
STRINGXP_010265251.10.0(Nelumbo nucifera)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G13260.11e-145related to ABI3/VP1 1
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]