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 Araha.43210s0001.1.p
Organism
Arabidopsis halleri
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Camelineae; Arabidopsis
Family RAV
Protein Properties Length: 339aa    MW: 37880.6 Da    PI: 9.722
Description RAV family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Araha.43210s0001.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1AP240.56.7e-1356104155
                   AP2   1 sgykGVrwdkkrgrWvAeIrdpsengkrkrfslgkfgtaeeAakaaiaarkkleg 55 
                           s++kGV   + +grW A+I++      ++r++lg+f  ++eAa+a++ a+ +++g
  Araha.43210s0001.1.p  56 SRFKGVVPQP-NGRWGAQIYEK-----HQRVWLGTFNEEDEAARAYDVAAHRFRG 104
                           689***9788.8*********3.....5**********99************998 PP
2B3101.93.5e-32184289199
                           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
  Araha.43210s0001.1.p 184 FEKTVTPSDVGKLNRLVIPKHQAEKHfplplgnNNVSVKGMLLNFEDVNGKVWRFRYSYWNSSQSYVLTKGWSRFVKEKRLCAGDLISF 272
                           99*****************************9977888*************************************************** PP

                           EE-SSSEE..EEEEE-S CS
                    B3  83 kldgrsefelvvkvfrk 99 
                           k+++ ++++l++++ +k
  Araha.43210s0001.1.p 273 KRSNGQDQKLFIGWKSK 289
                           *9877999999999876 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
CDDcd000182.64E-2656114No hitNo description
SuperFamilySSF541715.36E-1756112IPR016177DNA-binding domain
PfamPF008473.0E-856104IPR001471AP2/ERF domain
PROSITE profilePS5103220.08657112IPR001471AP2/ERF domain
SMARTSM003802.0E-2857118IPR001471AP2/ERF domain
Gene3DG3DSA:3.30.730.102.9E-2057113IPR001471AP2/ERF domain
Gene3DG3DSA:2.40.330.109.5E-39178291IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019367.32E-31181288IPR015300DNA-binding pseudobarrel domain
CDDcd100176.51E-27183277No hitNo description
PROSITE profilePS5086313.662184290IPR003340B3 DNA binding domain
SMARTSM010191.2E-25184290IPR003340B3 DNA binding domain
PfamPF023622.6E-28184289IPR003340B3 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: 339 aa     Download sequence    Send to blast
MDAMSSVDES STTTDSVPAR NLSSPASLLY RMGSGTSVVL DSENGVEAES RKLPSSRFKG  60
VVPQPNGRWG AQIYEKHQRV WLGTFNEEDE AARAYDVAAH RFRGRDAVTN FKETTLVDGN  120
DDDEVDFLNA HSKSEIVDML RKHTYKEEIE QRKRNRNGNG NKTTEFGSVT VAVITGFKTS  180
ELLFEKTVTP SDVGKLNRLV IPKHQAEKHF PLPLGNNNVS VKGMLLNFED VNGKVWRFRY  240
SYWNSSQSYV LTKGWSRFVK EKRLCAGDLI SFKRSNGQDQ KLFIGWKSKS GSGSDLETGR  300
VVKLFGVDIS LNDVVVVKEA TEVLVSSSLR CNKKQRVL*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1wid_A1e-6418029510123DNA-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
PlantRegMapAraha.43210s0001.1.p
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAB0286070.0AB028607.1 Arabidopsis thaliana genomic DNA, chromosome 3, TAC clone:K13N2.
GenBankAJ4410730.0AJ441073.1 Arabidopsis thaliana mRNA for putative auxin response factor 14 (arf14 gene).
GenBankAK2294150.0AK229415.1 Arabidopsis thaliana mRNA for AP2 domain transcription factor, complete cds, clone: RAFL16-68-B16.
GenBankCP0026860.0CP002686.1 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
STRINGfgenesh2_kg.5__327__AT3G25730.10.0(Arabidopsis lyrata)
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
AT3G25730.10.0ethylene response DNA binding factor 3