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 Pahal.C02061.1
Organism
Panicum hallii
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: 384aa    MW: 40898.4 Da    PI: 10.1043
Description RAV family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Pahal.C02061.1genomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1AP239.51.4e-1274122155
             AP2   1 sgykGVrwdkkrgrWvAeIrdpsengkr.krfslgkfgtaeeAakaaiaarkkleg 55 
                     s+ykGV   + +grW A+I++      r +r++lg+f  + eAa+a++ a+++++g
  Pahal.C02061.1  74 SKYKGVVPQP-NGRWGAQIYE------RhQRVWLGTFTGEAEAARAYDVAAQRFRG 122
                     89****9888.8*********......44**********99*************98 PP
2B3941e-29204300189
                     EEEE-..-HHHHTT-EE--HHH.HTT............---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEE CS
              B3   1 ffkvltpsdvlksgrlvlpkkfaeeh............ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFk 83 
                     f+k+ tpsdv+k++rlv+pk++ae+h            g  + +++ l +ed  g++W+++++y+++s++yvltkGW++Fvk++gL +gD v F+
  Pahal.C02061.1 204 FDKTVTPSDVGKLNRLVIPKQHAEKHfplqlpaaasvtG--ECKGVLLNFEDAAGKVWRFRYSYWNSSQSYVLTKGWSRFVKEKGLHAGDAVGFY 296
                     89***************************8888766532..23889************************************************* PP

                     E-SSSE CS
              B3  84 ldgrse 89 
                     ++   +
  Pahal.C02061.1 297 RSA--G 300
                     543..2 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF541711.63E-1674130IPR016177DNA-binding domain
PfamPF008472.6E-874122IPR001471AP2/ERF domain
CDDcd000181.97E-2374130No hitNo description
SMARTSM003803.2E-2675136IPR001471AP2/ERF domain
Gene3DG3DSA:3.30.730.101.4E-1975130IPR001471AP2/ERF domain
PROSITE profilePS5103219.86275130IPR001471AP2/ERF domain
Gene3DG3DSA:2.40.330.102.7E-39194315IPR015300DNA-binding pseudobarrel domain
CDDcd100173.02E-28202305No hitNo description
SuperFamilySSF1019365.49E-29202302IPR015300DNA-binding pseudobarrel domain
PfamPF023621.6E-26204300IPR003340B3 DNA binding domain
PROSITE profilePS5086312.943204312IPR003340B3 DNA binding domain
SMARTSM010191.0E-21204310IPR003340B3 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: 384 aa     Download sequence    Send to blast
MDSTSCLLDD SSSGASTGKK QAPAPEAPSS RPLQRVGSGA SAVMDAAEPG AEADSGGAGR  60
AGGGGAVGGK LPSSKYKGVV PQPNGRWGAQ IYERHQRVWL GTFTGEAEAA RAYDVAAQRF  120
RGRDAVTNFR PLAESDPESA AELRFLASRS KAEVVDMLRK HTYLEELAQN RRAFAAVCPS  180
PPPKNPASSP PAAASAAAAR EHLFDKTVTP SDVGKLNRLV IPKQHAEKHF PLQLPAAASV  240
TGECKGVLLN FEDAAGKVWR FRYSYWNSSQ SYVLTKGWSR FVKEKGLHAG DAVGFYRSAG  300
KQLFIDCKVR PKTTAFASAA TTPPPVKAVR LFGVDLLTAP RPTVAPEQED MVAMMTNKRA  360
RDAIAASTPH MIFKKQCIDF ALT*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1wid_A3e-4820132211129DNA-binding protein RAV1
Search in ModeBase
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00025PBMTransfer from AT1G68840Download
Motif logo
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankFP0996390.0FP099639.1 Phyllostachys edulis cDNA clone: bphyem117o01, full insert sequence.
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
TrEMBLA0A2S3H9X50.0A0A2S3H9X5_9POAL; Uncharacterized protein
STRINGSi024576m0.0(Setaria italica)
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-104related 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]