PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
Home  TFext  BLAST  Prediction  Download  Help  About  Links  PlantRegMap
(e.g., LFY)
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID Pbr013255.1
Organism
Pyrus bretschneideri
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Rosales; Rosaceae; Maloideae; Maleae; Pyrus
Family RAV
Protein Properties Length: 387aa    MW: 42451.5 Da    PI: 9.2363
Description RAV family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Pbr013255.1genomeCPETRView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1AP243.29.5e-1476124155
          AP2   1 sgykGVrwdkkrgrWvAeIrdpsengkrkrfslgkfgtaeeAakaaiaarkkleg 55 
                  s+ykGV   + +grW A+I++      ++r++lg+f  ++eAa+a++ a+++++g
  Pbr013255.1  76 SKYKGVVPQP-NGRWGAQIYEK-----HQRVWLGTFNEEDEAARAYDVAAQRFRG 124
                  89****9888.8*********3.....5**********99*************98 PP
2B396.51.7e-30213322196
                  EEEE-..-HHHHTT-EE--HHH.HTT..............---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE CS
           B3   1 ffkvltpsdvlksgrlvlpkkfaeeh..............ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkl 84 
                  f+k+ tpsdv+k++rlv+pk++ae+h               ++  +++ l +ed  g++W+++++y+++s++yvltkGW++Fvk+++Lk+gD+v F++
  Pbr013255.1 213 FEKAVTPSDVGKLNRLVIPKQHAEKHfplqsgstatvtvsASSACKGVLLNFEDVGGKVWRFRYSYWNSSQSYVLTKGWSRFVKEKNLKAGDIVSFQR 310
                  89*************************999766666655533344999*************************************************8 PP

                  -SSSEE..EEEE CS
           B3  85 dgrsefelvvkv 96 
                  +   +++l++ +
  Pbr013255.1 311 STGPDKQLYIDW 322
                  766777777765 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF541719.81E-1776132IPR016177DNA-binding domain
PfamPF008473.0E-976124IPR001471AP2/ERF domain
CDDcd000182.96E-2576134No hitNo description
SMARTSM003809.0E-2977138IPR001471AP2/ERF domain
PROSITE profilePS5103219.86277132IPR001471AP2/ERF domain
Gene3DG3DSA:3.30.730.101.1E-1977132IPR001471AP2/ERF domain
Gene3DG3DSA:2.40.330.102.5E-40207329IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019361.11E-29211325IPR015300DNA-binding pseudobarrel domain
CDDcd100171.53E-28212311No hitNo description
PfamPF023628.2E-28213322IPR003340B3 DNA binding domain
SMARTSM010191.2E-23213326IPR003340B3 DNA binding domain
PROSITE profilePS5086313.084213325IPR003340B3 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: 387 aa     Download sequence    Send to blast
MDGISSTEES TTSDSISISP PHHIVTRVEP LAKSAPQVDS LCRVGSGASS VILDSDLSSS  60
GGTGGVEAES RKLPSSKYKG VVPQPNGRWG AQIYEKHQRV WLGTFNEEDE AARAYDVAAQ  120
RFRGRDAVTN LKPSSAEPIF SDDEENDDVE AVFLSSHSKS EIVDMLRKHT YNDELEQSKR  180
NYCAYGKRGR SNGPLGLFGM DNSRVQKARE QLFEKAVTPS DVGKLNRLVI PKQHAEKHFP  240
LQSGSTATVT VSASSACKGV LLNFEDVGGK VWRFRYSYWN SSQSYVLTKG WSRFVKEKNL  300
KAGDIVSFQR STGPDKQLYI DWKTRMSVNN NSNGSNPVQG QVAPVQMVRL FGVNIFKIPG  360
SVGAGPVDAA AAAXXXXCRC YWRRLQ*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1wid_A2e-5721033411126DNA-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
PlantRegMapPbr013255.1
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 -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankGU7324600.0GU732460.1 Malus x domestica AP2 domain class transcription factor (AP2D36) mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_009356262.10.0PREDICTED: LOW QUALITY PROTEIN: AP2/ERF and B3 domain-containing transcription factor RAV1-like
SwissprotQ9C6M51e-137RAVL1_ARATH; AP2/ERF and B3 domain-containing transcription repressor TEM1
TrEMBLA0A482LZ610.0A0A482LZ61_9ROSA; Transcription factor RAV1
STRINGXP_009356262.10.0(Pyrus x bretschneideri)
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
AT1G13260.11e-126related 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]