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 PSME_00032471-RA
Organism
Pseudotsuga menziesii
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Acrogymnospermae; Pinidae; Pinales; Pinaceae; Pseudotsuga
Family RAV
Protein Properties Length: 525aa    MW: 57834.4 Da    PI: 9.3187
Description RAV family protein
Gene Model
Gene Model ID Type Source Coding Sequence
PSME_00032471-RAgenomePRSView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1AP237.84.7e-12151199155
               AP2   1 sgykGVrwdkkrgrWvAeIrdpsengkrkrfslgkfgtaeeAakaaiaarkkleg 55 
                       s+ykGV   + +grW A+I++      ++r++lg+f  +++Aa+a+++a+ k++g
  PSME_00032471-RA 151 SQYKGVVPQP-NGRWGAQIYEK-----HQRVWLGTFNREQDAARAYDRAAIKFRG 199
                       78****9888.8*********3.....5**********99*************98 PP
2B3102.81.9e-32271375199
                       EEEE-..-HHHHTT-EE--HHH.HTT.......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-S CS
                B3   1 ffkvltpsdvlksgrlvlpkkfaeeh.......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldg 86 
                       f+k+ tpsdv+k++rlv+pk++ae++       gg k +++ l + d + ++W+++++y+++s++yvltkGW++Fvk+++L++gD+v+F+  +
  PSME_00032471-RA 271 FDKAVTPSDVGKLNRLVIPKQHAEKYfplnvasGGGKGKGILLNFDDNTDKTWRFRYSYWNSSQSYVLTKGWSRFVKEKRLQSGDIVTFE--Q 361
                       89*******************************88889****************************************************..4 PP

                       S.SEE..EEEEE-S CS
                B3  87 r.sefelvvkvfrk 99 
                       + ++++l+++++r+
  PSME_00032471-RA 362 StKSRHLFITFRRR 375
                       44999999999997 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF541713.6E-17151207IPR016177DNA-binding domain
CDDcd000184.85E-14151206No hitNo description
PROSITE profilePS5103219.651152207IPR001471AP2/ERF domain
SMARTSM003805.1E-27152213IPR001471AP2/ERF domain
Gene3DG3DSA:3.30.730.104.6E-21152207IPR001471AP2/ERF domain
PfamPF008472.9E-7152199IPR001471AP2/ERF domain
Gene3DG3DSA:2.40.330.101.0E-40263384IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019362.35E-31266382IPR015300DNA-binding pseudobarrel domain
CDDcd100177.54E-26269374No hitNo description
PfamPF023625.7E-29271375IPR003340B3 DNA binding domain
PROSITE profilePS5086314.452271376IPR003340B3 DNA binding domain
SMARTSM010193.1E-24271376IPR003340B3 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: 525 aa     Download sequence    Send to blast
MSCSAVTVPV LETPHHNNLL KAVGNERTDM HQGFGRFYSP MEAKSSGNSR TEIKKAMESD  60
SRTEFKNAME ADSRSLTETE ESGSLTDDHD SDASPVAAGK SVSSSLADRE ELERMGSGIS  120
VVSSENIIHS HTPSPSAKSD QEKPCKKLPS SQYKGVVPQP NGRWGAQIYE KHQRVWLGTF  180
NREQDAARAY DRAAIKFRGA DAITNFNLVD THPEASFLRG HSKGEIVDML RKHTYDEELD  240
QNNNANRNKG APDVNSHVAG SKPPEPREHL FDKAVTPSDV GKLNRLVIPK QHAEKYFPLN  300
VASGGGKGKG ILLNFDDNTD KTWRFRYSYW NSSQSYVLTK GWSRFVKEKR LQSGDIVTFE  360
QSTKSRHLFI TFRRRPCNIQ PPAASLPQRC PQSVNPFSVV GYPHWAQFFY APPPVNNAVA  420
RGSFHDPVAL YKKALESSPS PSDDGNSSSL LFVNLSSESA PPSSNGSSSS SPSIRLFGVN  480
LKPSPLNLFP AVEEDRTEKT IKRNAAGAGL PGLFLGRKKR CAGED
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5os9_A2e-472673764114B3 domain-containing transcription factor NGA1
5os9_B2e-472673764114B3 domain-containing transcription factor NGA1
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtProbably acts as a transcriptional activator. Binds to the GCC-box pathogenesis-related promoter element. May be involved in the regulation of gene expression by stress factors and by components of stress signal transduction pathways (By similarity). Transcriptional repressor of flowering time on long day plants. Acts directly on FT expression by binding 5'-CAACA-3' and 5'-CACCTG-3 sequences (Probable). Functionally redundant with TEM1. {ECO:0000250, ECO:0000269|PubMed:18718758, ECO:0000305}.
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_009400502.11e-105PREDICTED: AP2/ERF and B3 domain-containing transcription repressor RAV2-like
SwissprotP822802e-98RAV2_ARATH; AP2/ERF and B3 domain-containing transcription repressor RAV2
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G68840.21e-100related to ABI3/VP1 2
Publications ? help Back to Top
  1. 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]
  2. 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]
  3. Sun YW, et al.
    Attenuation of Histone Methyltransferase KRYPTONITE-mediated transcriptional gene silencing by Geminivirus.
    Sci Rep, 2015. 5: p. 16476
    [PMID:26602265]
  4. Mittal A,Jiang Y,Ritchie GL,Burke JJ,Rock CD
    AtRAV1 and AtRAV2 overexpression in cotton increases fiber length differentially under drought stress and delays flowering.
    Plant Sci., 2015. 241: p. 78-95
    [PMID:26706061]
  5. 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]
  6. Li P, et al.
    The Arabidopsis UGT87A2, a stress-inducible family 1 glycosyltransferase, is involved in the plant adaptation to abiotic stresses.
    Physiol Plant, 2017. 159(4): p. 416-432
    [PMID:27747895]