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 Cagra.2093s0004.1.p
Organism
Capsella grandiflora
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Camelineae; Capsella
Family RAV
Protein Properties Length: 349aa    MW: 39707.8 Da    PI: 8.1904
Description RAV family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Cagra.2093s0004.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1AP234.36e-115097154
                  AP2  1 sgykGVrwdkkrgrWvAeIrdpsengkrkrfslgkfgtaeeAakaaiaarkkle 54
                         ++ykGV +   +g W A+I+       ++r++lg+f +a eAa+a++ a  kl+
  Cagra.2093s0004.1.p 50 TKYKGVVQQQ-NGHWGAQIYAD-----HRRIWLGTFKSAAEAAAAYDSASIKLR 97
                         69****9888.8******9993.....4*********************99997 PP
2B390.61.2e-28181277185
                          EEEE-..-HHHHTT-EE--HHH.HTT............---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT- CS
                   B3   1 ffkvltpsdvlksgrlvlpkkfaeeh............ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegD 78 
                          f+k+ltpsdv+k++rlv+pkk+a ++            +g+  e+++++++d+  r+W+++++y+++s+++v+t+GW++Fvk+++Lke+D
  Cagra.2093s0004.1.p 181 FQKELTPSDVGKLNRLVIPKKYAVKYmpfisndhnekeMGEGVEDVEVVFYDRAMRQWKFRYCYWRSSQSFVFTRGWNGFVKEKNLKEKD 270
                          99*****************************988777633334999******************************************** PP

                          EEEEEE- CS
                   B3  79 fvvFkld 85 
                          ++vF+  
  Cagra.2093s0004.1.p 271 IIVFYTC 277
                          ****954 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
CDDcd000185.23E-1250110No hitNo description
Gene3DG3DSA:3.30.730.103.8E-1651108IPR001471AP2/ERF domain
SMARTSM003805.5E-1651114IPR001471AP2/ERF domain
PROSITE profilePS5103217.17451108IPR001471AP2/ERF domain
SuperFamilySSF541719.81E-1451110IPR016177DNA-binding domain
Gene3DG3DSA:2.40.330.102.1E-32176276IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019363.4E-27179277IPR015300DNA-binding pseudobarrel domain
CDDcd100175.05E-26180275No hitNo description
PROSITE profilePS5086312.182181292IPR003340B3 DNA binding domain
SMARTSM010196.9E-22181292IPR003340B3 DNA binding domain
PfamPF023628.5E-26181278IPR003340B3 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: 349 aa     Download sequence    Send to blast
MDEMSNEAKT TTETSGSSDS VLPLLKRMKP TLVVAATTNP PALSNTATTT KYKGVVQQQN  60
GHWGAQIYAD HRRIWLGTFK SAAEAAAAYD SASIKLRSFD ANSHRNFPWS DFTVHEPDFQ  120
ECYTTEAVLN MIRDGSYQHK FRDFLRIRSQ IVASINIVGS KQVQGGGDQE SNKCFSCTQL  180
FQKELTPSDV GKLNRLVIPK KYAVKYMPFI SNDHNEKEMG EGVEDVEVVF YDRAMRQWKF  240
RYCYWRSSQS FVFTRGWNGF VKEKNLKEKD IIVFYTCDVP SNAKTLEGQS KNFLMIDVHY  300
FSGNGFMVPE EVNKTARESS DEEIKLKNEE PKSEEKKGGF MLFGVRIQ*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1wid_A7e-2518027413100DNA-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}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapCagra.2093s0004.1.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
GenBankAC0798280.0AC079828.4 Arabidopsis thaliana chromosome 1 BAC F23H24 genomic sequence, complete sequence.
GenBankAY5608830.0AY560883.1 Arabidopsis thaliana putative AP2/EREBP transcription factor (At1g51120) mRNA, complete cds.
GenBankCP0026840.0CP002684.1 Arabidopsis thaliana chromosome 1 sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_006304572.10.0AP2/ERF and B3 domain-containing transcription factor At1g51120
SwissprotQ9C6880.0RAVL3_ARATH; AP2/ERF and B3 domain-containing transcription factor At1g51120
TrEMBLR0IGJ80.0R0IGJ8_9BRAS; Uncharacterized protein
STRINGCagra.2093s0004.1.p0.0(Capsella grandiflora)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM17052788
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G51120.10.0RAV family protein