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 Pavir.3KG280900.1.p
Organism
Panicum virgatum
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; PACMAD clade; Panicoideae; Panicodae; Paniceae; Panicinae; Panicum
Family RAV
Protein Properties Length: 344aa    MW: 37258.5 Da    PI: 10.3501
Description RAV family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Pavir.3KG280900.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1AP239.81.2e-122977155
                  AP2  1 sgykGVrwdkkrgrWvAeIrdpsengkr.krfslgkfgtaeeAakaaiaarkkleg 55
                         s+ykGV   + +grW A+I++      r +r++lg+f  + eAa+a++ a+++++g
  Pavir.3KG280900.1.p 29 SKYKGVVPQP-NGRWGAQIYE------RhQRVWLGTFTGEAEAARAYDVAAQRFRG 77
                         89****9888.8*********......44**********99*************98 PP
2B393.41.6e-29160257189
                          EEEE-..-HHHHTT-EE--HHH.HTT.............---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT CS
                   B3   1 ffkvltpsdvlksgrlvlpkkfaeeh.............ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkeg 77 
                          f k+ tpsdv+k++rlv+pk++ae+h             g  + +++ l +ed  g++W+++++y+++s++yvltkGW++Fvk++gL +g
  Pavir.3KG280900.1.p 160 FNKTVTPSDVGKLNRLVIPKQHAEKHfplqlpaaasvvtG--ECKGVLLNFEDAAGKVWRFRYSYWNSSQSYVLTKGWSRFVKEKGLHAG 247
                          899**************************88887766532..23899******************************************* PP

                          -EEEEEE-SSSE CS
                   B3  78 DfvvFkldgrse 89 
                          D v F+++   +
  Pavir.3KG280900.1.p 248 DAVGFYRSA--G 257
                          ******543..2 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PfamPF008472.2E-82977IPR001471AP2/ERF domain
CDDcd000184.65E-232985No hitNo description
SuperFamilySSF541711.37E-162985IPR016177DNA-binding domain
Gene3DG3DSA:3.30.730.101.2E-193085IPR001471AP2/ERF domain
SMARTSM003803.2E-263091IPR001471AP2/ERF domain
PROSITE profilePS5103219.8623085IPR001471AP2/ERF domain
Gene3DG3DSA:2.40.330.106.3E-39151270IPR015300DNA-binding pseudobarrel domain
CDDcd100171.92E-28158262No hitNo description
SuperFamilySSF1019366.93E-29158259IPR015300DNA-binding pseudobarrel domain
PfamPF023622.4E-26160257IPR003340B3 DNA binding domain
SMARTSM010191.0E-20160267IPR003340B3 DNA binding domain
PROSITE profilePS5086312.915160269IPR003340B3 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: 344 aa     Download sequence    Send to blast
MDAAEPGAEA DSGGAGRAAA VVGGKLPSSK YKGVVPQPNG RWGAQIYERH QRVWLGTFTG  60
EAEAARAYDV AAQRFRGRDA VTNFRPLAES DPESAAELRF LASRSKPEVV DMLRKHTYVE  120
ELAQNRRAFT AVSPLPPPKN PAASSPPSGA SAAAAREHLF NKTVTPSDVG KLNRLVIPKQ  180
HAEKHFPLQL PAAASVVTGE CKGVLLNFED AAGKVWRFRY SYWNSSQSYV LTKGWSRFVK  240
EKGLHAGDAV GFYRSAGKQL FIDCKVRPKT TAFANAATMP PPAVKAVRLF GVDLLTAPRP  300
PTVAPEQEEM LPVMTNKRAR DAFAASTTPH MIFKKQCIDF ALT*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1wid_A1e-4715726711117DNA-binding protein RAV1
5os9_A9e-481542702116B3 domain-containing transcription factor NGA1
5os9_B9e-481542702116B3 domain-containing transcription factor NGA1
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Pvr.1940.0root
Cis-element ? help Back to Top
SourceLink
PlantRegMapPavir.3KG280900.1.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
GenBankBT0419620.0BT041962.2 Zea mays full-length cDNA clone ZM_BFb0089O18 mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_025807648.10.0AP2/ERF and B3 domain-containing protein Os05g0549800
SwissprotQ6L4H41e-164Y5498_ORYSJ; AP2/ERF and B3 domain-containing protein Os05g0549800
TrEMBLA0A2T7EAR20.0A0A2T7EAR2_9POAL; Uncharacterized protein
STRINGPavir.Ca01826.1.p0.0(Panicum virgatum)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP45638203
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. Cheng CH, et al.
    A fine physical map of the rice chromosome 5.
    Mol. Genet. Genomics, 2005. 274(4): p. 337-45
    [PMID:16261349]