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_002548-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: 376aa    MW: 42478.6 Da    PI: 6.7073
Description RAV family protein
Gene Model
Gene Model ID Type Source Coding Sequence
NNU_002548-RAgenomeCASView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1AP235.91.8e-113179155
            AP2  1 sgykGVrwdkkrgrWvAeIrdpsengkrkrfslgkfgtaeeAakaaiaarkkleg 55
                   s+ykGV    ++grW A+I++      + r +lg+f+++e Aa+ +++a+  ++g
  NNU_002548-RA 31 SRYKGVV-PQSNGRWGAQIYEN-----QHRLWLGTFDSEEAAARSYDRAASLFRG 79
                   78****7.7779******9993.....5*********************987776 PP
2B3105.62.5e-33132238199
                    EEEE-..-HHHHTT-EE--HHH.HTT........---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSS CS
             B3   1 ffkvltpsdvlksgrlvlpkkfaeeh........ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgrs 88 
                    f+k ltpsdv+k++rlv+pk++ae++        g + e++  l++edesg+sW+++++y+++s++yvltkGW++Fvk+++L++gD+v F++ + +
  NNU_002548-RA 132 FEKPLTPSDVGKLNRLVIPKQHAEKYfplgggggGDSGEKGLLLSFEDESGKSWRFRYSYWNSSQSYVLTKGWSRFVKEKRLDAGDVVSFERRKFN 227
                    99******************************99555568889************************************************65447 PP

                    EE..EEEEE-S CS
             B3  89 efelvvkvfrk 99 
                    + +++++++r+
  NNU_002548-RA 228 GDRFYIRWRRR 238
                    77789999987 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PfamPF008475.9E-73178IPR001471AP2/ERF domain
CDDcd000181.05E-223186No hitNo description
SuperFamilySSF541716.54E-163188IPR016177DNA-binding domain
Gene3DG3DSA:3.30.730.102.5E-193288IPR001471AP2/ERF domain
PROSITE profilePS5103219.5463287IPR001471AP2/ERF domain
SMARTSM003801.8E-263293IPR001471AP2/ERF domain
Gene3DG3DSA:2.40.330.101.8E-41123239IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019364.58E-32128238IPR015300DNA-binding pseudobarrel domain
CDDcd100174.12E-30130237No hitNo description
PROSITE profilePS5086314.861132239IPR003340B3 DNA binding domain
PfamPF023625.5E-30132238IPR003340B3 DNA binding domain
SMARTSM010194.6E-27132239IPR003340B3 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: 376 aa     Download sequence    Send to blast
MSINHFPSDL QEGLWWTTQP MMDPATKIPS SRYKGVVPQS NGRWGAQIYE NQHRLWLGTF  60
DSEEAAARSY DRAASLFRGR DAALNFNTNQ QDNEDELEDQ QTTGDRETMV DDHDHDHNPG  120
GQRDQEEREH MFEKPLTPSD VGKLNRLVIP KQHAEKYFPL GGGGGGDSGE KGLLLSFEDE  180
SGKSWRFRYS YWNSSQSYVL TKGWSRFVKE KRLDAGDVVS FERRKFNGDR FYIRWRRRAV  240
PVQDSGTTQD ITAPSMNAWT RVFYSAHPYP PHPXGPPLLY QPDCIHAGIS TVAPVAQNPT  300
TTGNSKRLRL FGVNLDCQLD ESGPTTHDGS NQGRASFLFP QPQAHGPPHY NGYQVSRPIL  360
DSRLVLNGVS LFCSPS
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5os9_A4e-491272383113B3 domain-containing transcription factor NGA1
5os9_B4e-491272383113B3 domain-containing transcription factor NGA1
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}.
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_010246118.10.0PREDICTED: B3 domain-containing protein At2g36080-like
SwissprotQ9C6M51e-75RAVL1_ARATH; AP2/ERF and B3 domain-containing transcription repressor TEM1
TrEMBLA0A1U7Z5L20.0A0A1U7Z5L2_NELNU; B3 domain-containing protein At2g36080-like
STRINGXP_010246118.10.0(Nelumbo nucifera)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G68840.23e-70related to ABI3/VP1 2
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]