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.1KG014800.1.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 bHLH
Protein Properties Length: 553aa    MW: 58036.4 Da    PI: 4.2376
Description bHLH family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Pavir.1KG014800.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1HLH40.26.1e-13306349755
                          HHHHHHHHHHHHHHHHHHCTSCCC...TTS-STCHHHHHHHHHHHHHHH CS
                  HLH   7 erErrRRdriNsafeeLrellPkaskapskKlsKaeiLekAveYIksLq 55 
                           +ErrRR+++N+++ +Lr+l+P+      +K++ a+iL  A++YI  Lq
  Pavir.1KG014800.1.p 306 VAERRRRKKLNDRLYKLRSLVPNI-----TKMDRASILGDAIDYIVGLQ 349
                          58*********************7.....7***************9887 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
CDDcd000832.24E-14298360No hitNo description
SuperFamilySSF474596.02E-18299361IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
PROSITE profilePS5088815.974299348IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
SMARTSM003532.1E-16305354IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
PfamPF000101.8E-10306349IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
Gene3DG3DSA:4.10.280.107.4E-17306360IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
CDDcd048730.00313431496No hitNo description
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0009555Biological Processpollen development
GO:0048657Biological Processanther wall tapetum cell differentiation
GO:0005634Cellular Componentnucleus
GO:0000978Molecular FunctionRNA polymerase II core promoter proximal region sequence-specific DNA binding
GO:0046983Molecular Functionprotein dimerization activity
Sequence ? help Back to Top
Protein Sequence    Length: 553 aa     Download sequence    Send to blast
MAGGDHQCMA AAAAAAAGDG GASVESALRP LVGADAWDYC IYWRLSPDQR FLEMTGFCCS  60
SEFEAQISAL GELPSSIPLD SSSAGMHAEA MLSNQPIWQT SCVSEIPASY SSEHASSGGP  120
RTRLLVPVAG GLVELFAARF MAEEEQMAEL VMAQCGVPAA GAGDGEGNEG GVVVNAWPEA  180
APGFAWDGAA ADPQRMYAAV PSLNLFDAAG NVAADAFLAA AAAPGVVDDA DAAAAGWQYA  240
AAAGSEPSVV AVQQEQPQPL QNGGARAGGA DSGSEGSDIQ GDPEDDGDGD GQGRGGGKRQ  300
QCKNLVAERR RRKKLNDRLY KLRSLVPNIT KMDRASILGD AIDYIVGLQN QVKELQDELE  360
DRADGAPDVL LDHPPPASLV GLENDDSPRT SLHQPAAAGS KRPRAAAEEE KGHDMEPQVE  420
VRQVEANEFF LQVLCEHKPG HFVRLMDAVN ALGLEVTNVN VTSYKTLVLN VFRVVSRDNE  480
VAVQADRVRD SLLEVMRESY GVWSSKPPVM GSGGADAKLD GVDVKLDDVD AQAQAAAEDH  540
FGGYNHLLQY LA*
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1307314ERRRRKKL
Functional Description ? help Back to Top
Source Description
UniProtTranscription factor involved in the regulation of tapetum programmed cell death (PCD) and degradation during male reproductive development. Promotes tapetal PCD. Positively regulates the expression of two tapetum-specific genes, the cysteine protease CP1 and the lipid-transfer protein C6 (PubMed:17138695). Acts upstream from and interacts with EAT1/DTD in the regulation of tapetal PCD (PubMed:23385589). Regulates the expression of genes related to aliphatic metabolism during pollen development. May play regulatory role in the lipidic metabolism involved in the formation of pollen wall (PubMed:19825565). {ECO:0000269|PubMed:17138695, ECO:0000269|PubMed:19825565, ECO:0000269|PubMed:23385589}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapPavir.1KG014800.1.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
GenBankBT0343260.0BT034326.1 Zea mays full-length cDNA clone ZM_BFc0007A07 mRNA, complete cds.
GenBankBT0427910.0BT042791.1 Zea mays full-length cDNA clone ZM_BFc0041J08 mRNA, complete cds.
GenBankBT0630100.0BT063010.2 Zea mays full-length cDNA clone ZM_BFc0017C04 mRNA, complete cds.
GenBankBT0631180.0BT063118.1 Zea mays full-length cDNA clone ZM_BFc0027J15 mRNA, complete cds.
GenBankBT0657170.0BT065717.1 Zea mays full-length cDNA clone ZM_BFc0042K04 mRNA, complete cds.
GenBankBT0677850.0BT067785.1 Zea mays full-length cDNA clone ZM_BFc0159F07 mRNA, complete cds.
GenBankBT0688360.0BT068836.1 Zea mays full-length cDNA clone ZM_BFc0079O03 mRNA, complete cds.
GenBankBT0880900.0BT088090.1 Zea mays full-length cDNA clone ZM_BFc0009P17 mRNA, complete cds.
GenBankBT0882990.0BT088299.1 Zea mays full-length cDNA clone ZM_BFc0123M15 mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_025825508.10.0transcription factor TDR-like
RefseqXP_025825517.10.0transcription factor TDR-like
RefseqXP_025825524.10.0transcription factor TDR-like
RefseqXP_025825535.10.0transcription factor TDR-like
RefseqXP_025825544.10.0transcription factor TDR-like
RefseqXP_025825551.10.0transcription factor TDR-like
RefseqXP_025825560.10.0transcription factor TDR-like
SwissprotQ6YUS30.0TDR_ORYSJ; Transcription factor TDR
TrEMBLA0A3L6QCU40.0A0A3L6QCU4_PANMI; Transcription factor ABORTED MICROSPORES-like isoform X2
STRINGPavir.Ab00204.1.p0.0(Panicum virgatum)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP55303449
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT2G16910.12e-56bHLH family protein
Publications ? help Back to Top
  1. Endo M, et al.
    High temperatures cause male sterility in rice plants with transcriptional alterations during pollen development.
    Plant Cell Physiol., 2009. 50(11): p. 1911-22
    [PMID:19808807]
  2. Xu J,Wu M,He C
    [Identification and functional analysis of Tdrxoo, the member of TonB-dependent-receptor family proteins in Xanthomonas oryzae pv. oryzae].
    Wei Sheng Wu Xue Bao, 2010. 50(2): p. 155-61
    [PMID:20387456]
  3. Liu Z,Bao W,Liang W,Yin J,Zhang D
    Identification of gamyb-4 and analysis of the regulatory role of GAMYB in rice anther development.
    J Integr Plant Biol, 2010. 52(7): p. 670-8
    [PMID:20590996]
  4. Zhang D, et al.
    OsC6, encoding a lipid transfer protein, is required for postmeiotic anther development in rice.
    Plant Physiol., 2010. 154(1): p. 149-62
    [PMID:20610705]
  5. Senapati PK,Behera S
    Experimental investigation on an entrained flow type biomass gasification system using coconut coir dust as powdery biomass feedstock.
    Bioresour. Technol., 2012. 117: p. 99-106
    [PMID:22613886]
  6. Zhang SR,Dong DM,Zheng WG,Zhao XD,Wang JH
    [Laser-induced fluorescence spectroscopy characterization of farmland soil moisture content].
    Guang Pu Xue Yu Guang Pu Fen Xi, 2012. 32(10): p. 2623-7
    [PMID:23285852]
  7. Li L, et al.
    An anther development F-box (ADF) protein regulated by tapetum degeneration retardation (TDR) controls rice anther development.
    Planta, 2015. 241(1): p. 157-66
    [PMID:25236969]
  8. Yi J, et al.
    Defective Tapetum Cell Death 1 (DTC1) Regulates ROS Levels by Binding to Metallothionein during Tapetum Degeneration.
    Plant Physiol., 2016. 170(3): p. 1611-23
    [PMID:26697896]