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.9NG290100.1.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: 386aa    MW: 41159.7 Da    PI: 10.2343
Description RAV family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Pavir.9NG290100.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1AP239.51.4e-1275123155
                  AP2   1 sgykGVrwdkkrgrWvAeIrdpsengkr.krfslgkfgtaeeAakaaiaarkkleg 55 
                          s+ykGV   + +grW A+I++      r +r++lg+f  + eAa+a++ a+++++g
  Pavir.9NG290100.1.p  75 SKYKGVVPQP-NGRWGAQIYE------RhQRVWLGTFTGEAEAARAYDVAAQRFRG 123
                          89****9888.8*********......44**********99*************98 PP
2B3941.1e-29205301189
                          EEEE-..-HHHHTT-EE--HHH.HTT............---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT- CS
                   B3   1 ffkvltpsdvlksgrlvlpkkfaeeh............ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegD 78 
                          f+k+ tpsdv+k++rlv+pk++ae+h            g  + +++ l +ed  g++W+++++y+++s++yvltkGW++Fvk++gL +gD
  Pavir.9NG290100.1.p 205 FDKTVTPSDVGKLNRLVIPKQHAEKHfplqlpaaasvtG--ECKGVLLNFEDAAGKVWRFRYSYWNSSQSYVLTKGWSRFVKEKGLHAGD 292
                          89***************************8888766532..23889******************************************** PP

                          EEEEEE-SSSE CS
                   B3  79 fvvFkldgrse 89 
                           v F+++   +
  Pavir.9NG290100.1.p 293 AVGFYRSA--G 301
                          *****543..2 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
CDDcd000181.93E-2375131No hitNo description
PfamPF008472.6E-875123IPR001471AP2/ERF domain
SuperFamilySSF541711.63E-1675131IPR016177DNA-binding domain
SMARTSM003805.9E-2776137IPR001471AP2/ERF domain
Gene3DG3DSA:3.30.730.101.0E-1976131IPR001471AP2/ERF domain
PROSITE profilePS5103219.86276131IPR001471AP2/ERF domain
Gene3DG3DSA:2.40.330.103.3E-39195314IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019365.49E-29203303IPR015300DNA-binding pseudobarrel domain
CDDcd100173.06E-28203306No hitNo description
SMARTSM010191.0E-21205311IPR003340B3 DNA binding domain
PROSITE profilePS5086312.943205313IPR003340B3 DNA binding domain
PfamPF023621.6E-26205301IPR003340B3 DNA binding domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0045892Biological Processnegative regulation 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: 386 aa     Download sequence    Send to blast
MDSTSCLLDD LSSGGASTGK KQAPAPAAPS SRPLQRVGSG ASAVMDAAEP GAEADSGGAG  60
RAAAAGAVGG KLPSSKYKGV VPQPNGRWGA QIYERHQRVW LGTFTGEAEA ARAYDVAAQR  120
FRGRDAVTNF RPLSESDPES AAELRFLASR SKAEVVDMLR KHTYLEELAQ NRRAFAAASP  180
SPPPKNPASS PPSAASAAAA REHLFDKTVT PSDVGKLNRL VIPKQHAEKH FPLQLPAAAS  240
VTGECKGVLL NFEDAAGKVW RFRYSYWNSS QSYVLTKGWS RFVKEKGLHA GDAVGFYRSA  300
GKQLFIDCKV RPKTTSFANA ATTPPHAVKA VRLFGVDLLT PPKPTVAPEQ EEMLPMMTNK  360
RARDAIAAST PHMIFKKQCI DFALT*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1wid_A4e-4820231111117DNA-binding protein RAV1
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Pvr.1940.0root
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00025PBMTransfer from AT1G68840Download
Motif logo
Cis-element ? help Back to Top
SourceLink
PlantRegMapPavir.9NG290100.1.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
SwissprotQ6L4H40.0Y5498_ORYSJ; AP2/ERF and B3 domain-containing protein Os05g0549800
TrEMBLA0A2T7EAR20.0A0A2T7EAR2_9POAL; Uncharacterized protein
STRINGPavir.J13012.1.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-102related 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]