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.6NG153900.1.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 MYB
Protein Properties Length: 327aa    MW: 36333 Da    PI: 5.9185
Description MYB family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Pavir.6NG153900.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Myb_DNA-binding59.95.4e-191461148
                         TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHHHT CS
      Myb_DNA-binding  1 rgrWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqkyl 48
                         +g+WT+eEd++l ++++++G g+W++ ++  g++R++k+c++rw +yl
  Pavir.6NG153900.1.p 14 KGPWTPEEDQKLMEYIQKHGHGSWRALPKLAGLNRCGKSCRLRWTNYL 61
                         79********************************************97 PP
2Myb_DNA-binding55.51.3e-1767112148
                          TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHHHT CS
      Myb_DNA-binding   1 rgrWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqkyl 48 
                          rg++T+eE++ +++ +  lG++ W++Ia++++ gRt++++k++w+++l
  Pavir.6NG153900.1.p  67 RGKFTEEEEQTILRFHSVLGNK-WSAIAKHLP-GRTDNEIKNFWNTHL 112
                          89********************.*********.************996 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:1.10.10.602.5E-27564IPR009057Homeodomain-like
PROSITE profilePS5129419.141961IPR017930Myb domain
SuperFamilySSF466899.36E-3311108IPR009057Homeodomain-like
SMARTSM007171.9E-151363IPR001005SANT/Myb domain
PfamPF002493.2E-181461IPR001005SANT/Myb domain
CDDcd001671.87E-121661No hitNo description
PROSITE profilePS5129427.41462116IPR017930Myb domain
Gene3DG3DSA:1.10.10.604.2E-2865117IPR009057Homeodomain-like
SMARTSM007173.3E-1766114IPR001005SANT/Myb domain
PfamPF002491.0E-1667112IPR001005SANT/Myb domain
CDDcd001672.10E-1369112No hitNo description
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0009733Biological Processresponse to auxin
GO:0009737Biological Processresponse to abscisic acid
GO:0009751Biological Processresponse to salicylic acid
GO:0003677Molecular FunctionDNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 327 aa     Download sequence    Send to blast
MGRSPCCDEN GLKKGPWTPE EDQKLMEYIQ KHGHGSWRAL PKLAGLNRCG KSCRLRWTNY  60
LRPDIKRGKF TEEEEQTILR FHSVLGNKWS AIAKHLPGRT DNEIKNFWNT HLKKKLIQMG  120
FDPMTHRPRT DFFAALPQLI ALANLRQLVE QRPWDDHAAR LQVEAVQDAK LQCLQNLTQS  180
AASIATTSPS SRSINTIPDL EQIGLLSPPQ MSSLSSLPSP SFLESISGQD IVAGQLPDIQ  240
IPSSFFEQPT SNDANQNSDF TPKSSVEGEN GTPKTLLLSE NSLPPLTDFP ISNLGDACSA  300
SSCDGSSIQF PSWPELFDEQ FLSEFV*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1a5j_A3e-32121165108B-MYB
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Pvr.152960.0root
Expression -- Description ? help Back to Top
Source Description
UniprotDEVELOPMENTAL STAGE: Specifically and transiently expressed in root endodermal cells overlying the early stages of lateral root primordia formation. {ECO:0000269|PubMed:24902892, ECO:0000269|PubMed:25482809}.
Functional Description ? help Back to Top
Source Description
UniProtTranscription factor that acts as negative regulator of lateral root (LR) development. Required for normal auxin responses during LR development. May be part of a negative feedback loop stimulated specifically in the endodermis upon LR initiation to ensure that LRs are formed only in the correct place. {ECO:0000269|PubMed:24902892}.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00180DAPTransfer from AT1G34670Download
Motif logo
Cis-element ? help Back to Top
SourceLink
PlantRegMapPavir.6NG153900.1.p
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Induced by abscisic acid (ABA), auxin and gravity in roots. {ECO:0000269|PubMed:24902892}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieveRetrieve
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankBT0700450.0BT070045.1 Zea mays full-length cDNA clone ZM_BFb0376N06 mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_004953959.10.0transcription factor MYB16
SwissprotQ9S9Z21e-105MYB93_ARATH; Transcription factor MYB93
TrEMBLA0A368PSI80.0A0A368PSI8_SETIT; Uncharacterized protein
TrEMBLK3YU390.0K3YU39_SETIT; Uncharacterized protein
STRINGPavir.J03585.1.p0.0(Panicum virgatum)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP112637132
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G34670.11e-102myb domain protein 93
Publications ? help Back to Top
  1. Gibbs DJ,Coates JC
    AtMYB93 is an endodermis-specific transcriptional regulator of lateral root development in arabidopsis.
    Plant Signal Behav, 2014. 9(10): p. e970406
    [PMID:25482809]