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 Neem_8605_f_1
Organism
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Sapindales; Meliaceae; Azadirachta
Family B3
Protein Properties Length: 318aa    MW: 35425.1 Da    PI: 9.8617
Description B3 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Neem_8605_f_1genomeNGDView Nucleic Acid
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B3103.89.4e-33153255199
                    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
  Neem_8605_f_1 153 FEKAVTPSDVGKLNRLVIPKQHAEKHfplqNGSTSKGVLLNFEDVTGKVWRFRYSYWNSSQSYVLTKGWSRFVKEKNLKAGDIVSFHRSTGTDKQL 248
                    89****************************88889****************************************************886688888 PP

                    EEEEE-S CS
             B3  93 vvkvfrk 99 
                    ++ + ++
  Neem_8605_f_1 249 FIDWKSR 255
                    8887665 PP

Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:2.40.330.101.1E-42146259IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019363.27E-31151255IPR015300DNA-binding pseudobarrel domain
CDDcd100176.74E-28152241No hitNo description
PROSITE profilePS5086314.353153255IPR003340B3 DNA binding domain
SMARTSM010191.5E-25153256IPR003340B3 DNA binding domain
PfamPF023626.0E-30153255IPR003340B3 DNA binding domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0048573Biological Processphotoperiodism, flowering
GO:0003677Molecular FunctionDNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 318 aa     Download sequence    Send to blast
MDATSIDEST TTDSTSISPP AFSPFPATAT KSPESFCRVG SGNSSVILDS EGGVEAESRK  60
LPSSKYKGVR FRGRDAVTNF KQMPEADEDD IEITFLNAHS KGEIVDMLRK HTYNDELEQS  120
KRNYGLDGNG KRIKVSDGVV GSDRVMKARE QLFEKAVTPS DVGKLNRLVI PKQHAEKHFP  180
LQNGSTSKGV LLNFEDVTGK VWRFRYSYWN SSQSYVLTKG WSRFVKEKNL KAGDIVSFHR  240
STGTDKQLFI DWKSRTGSGV ENPVEPVQMM RLFGVNIFKI PVNGVVDKIG GCNNGKRLRE  300
MELLSLESSK KQRMIGAL
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1wid_A4e-6115026111123DNA-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}.
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_006484413.11e-172AP2/ERF and B3 domain-containing transcription repressor RAV2-like
SwissprotQ9C6M51e-116RAVL1_ARATH; AP2/ERF and B3 domain-containing transcription repressor TEM1
TrEMBLA0A2H5P3U31e-171A0A2H5P3U3_CITUN; Uncharacterized protein
STRINGXP_006484413.11e-171(Citrus sinensis)
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
AT1G25560.11e-109RAV 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]