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 Bostr.0556s0243.1.p
Organism
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Boechereae; Boechera
Family RAV
Protein Properties Length: 337aa    MW: 38047.6 Da    PI: 8.2165
Description RAV family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Bostr.0556s0243.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1AP240.28.8e-1355103155
                  AP2   1 sgykGVrwdkkrgrWvAeIrdpsengkrkrfslgkfgtaeeAakaaiaarkkleg 55 
                          s++kGV   + +grW A+I++      ++r++lg+f  ++eAa+a++ a+ +++g
  Bostr.0556s0243.1.p  55 SRHKGVVPQP-NGRWGAQIYEK-----HQRVWLGTFNEEDEAARAYDVAAHRFRG 103
                          6899998778.8*********3.....5**********99************998 PP

2B398.44.6e-31183285195
                          EEEE-..-HHHHTT-EE--HHH.HTT........---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEE CS
                   B3   1 ffkvltpsdvlksgrlvlpkkfaeeh........ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvF 82 
                          f+k+ tpsdv+k++rlv+pk+ ae+h        ++++ +++ l +ed +g++W+++++y+++s++yvltkGW++Fvk+++L++gD + F
  Bostr.0556s0243.1.p 183 FEKTATPSDVGKLNRLVIPKHQAEKHfplplgdnNNVSVKGMLLNFEDINGKVWRFRYSYWNSSQSYVLTKGWSRFVKEKRLCAGDLISF 272
                          89*****************************998777889************************************************** PP

                          EE-SSSEE..EEE CS
                   B3  83 kldgrsefelvvk 95 
                          ++++ ++++l+++
  Bostr.0556s0243.1.p 273 RRSNGHDQKLYIG 285
                          *887788877776 PP

Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PfamPF008474.9E-855103IPR001471AP2/ERF domain
SuperFamilySSF541717.85E-1755111IPR016177DNA-binding domain
CDDcd000185.00E-2655113No hitNo description
PROSITE profilePS5103220.04756111IPR001471AP2/ERF domain
SMARTSM003803.5E-2856117IPR001471AP2/ERF domain
Gene3DG3DSA:3.30.730.101.1E-1957112IPR001471AP2/ERF domain
Gene3DG3DSA:2.40.330.106.4E-37177291IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019361.96E-29181284IPR015300DNA-binding pseudobarrel domain
CDDcd100177.36E-26182277No hitNo description
SMARTSM010192.0E-24183288IPR003340B3 DNA binding domain
PfamPF023627.7E-27183285IPR003340B3 DNA binding domain
PROSITE profilePS5086313.479183288IPR003340B3 DNA binding domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0003700Molecular Functiontranscription factor activity, sequence-specific DNA binding
GO:0044212Molecular Functiontranscription regulatory region DNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 337 aa     Download sequence    Send to blast
MEALSSVDES STTTESIHTP VKIPASLLYR MGSGTSVVLD SENGVEAESR KLPSSRHKGV  60
VPQPNGRWGA QIYEKHQRVW LGTFNEEDEA ARAYDVAAHR FRGRDAVTNF KETTLVNGDY  120
DEEEVDFLNA HSKSEIVDML RKHTYNEELE QRKRNRNGYG KKTTEFDSVT VVITGFKTAE  180
LLFEKTATPS DVGKLNRLVI PKHQAEKHFP LPLGDNNNVS VKGMLLNFED INGKVWRFRY  240
SYWNSSQSYV LTKGWSRFVK EKRLCAGDLI SFRRSNGHDQ KLYIGSKSKS GSGSDQDTGR  300
VVRLFGVDIC FSDAVEVKEE TEMFMSLSSN KNQRVL*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1wid_A4e-6217929510123DNA-binding protein RAV1
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). {ECO:0000250}.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00031PBMTransfer from AT3G25730Download
Motif logo
Cis-element ? help Back to Top
SourceLink
PlantRegMapBostr.0556s0243.1.p
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieveRetrieve
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAB0286071e-175AB028607.1 Arabidopsis thaliana genomic DNA, chromosome 3, TAC clone:K13N2.
GenBankAJ4410731e-175AJ441073.1 Arabidopsis thaliana mRNA for putative auxin response factor 14 (arf14 gene).
GenBankAK2294151e-175AK229415.1 Arabidopsis thaliana mRNA for AP2 domain transcription factor, complete cds, clone: RAFL16-68-B16.
GenBankAY0879511e-175AY087951.1 Arabidopsis thaliana clone 39877 mRNA, complete sequence.
GenBankCP0026861e-175CP002686.1 Arabidopsis thaliana chromosome 3, complete sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_020882051.10.0AP2/ERF and B3 domain-containing transcription factor ARF14
SwissprotQ9LS060.0RAVL4_ARATH; AP2/ERF and B3 domain-containing transcription factor ARF14
TrEMBLD7LQT80.0D7LQT8_ARALL; Uncharacterized protein
STRINGBostr.0556s0243.1.p0.0(Boechera stricta)
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
AT3G25730.11e-180ethylene response DNA binding factor 3