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.1KG402200.1.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: 257aa    MW: 28799.3 Da    PI: 6.943
Description MYB family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Pavir.1KG402200.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Myb_DNA-binding53.74.7e-171461148
                         TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHHHT CS
      Myb_DNA-binding  1 rgrWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqkyl 48
                         rg+WT+eEd +lv  ++++G  +W++ ++  g+ R++k+c++rw +yl
  Pavir.1KG402200.1.p 14 RGPWTPEEDRILVAHIERHGHSNWRALPKQAGLLRCGKSCRLRWINYL 61
                         89******************************99************97 PP
2Myb_DNA-binding52.21.4e-1667112148
                          TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHHHT CS
      Myb_DNA-binding   1 rgrWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqkyl 48 
                          rg++T eE++ +++++++lG++ W++Ia++++ gRt++++k+ w+++l
  Pavir.1KG402200.1.p  67 RGNFTREEEDAIIHLHHMLGNR-WSAIAARLP-GRTDNEIKNVWHTHL 112
                          89********************.*********.************986 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:1.10.10.603.5E-25564IPR009057Homeodomain-like
PROSITE profilePS5129416.543961IPR017930Myb domain
SuperFamilySSF466891.91E-3010108IPR009057Homeodomain-like
SMARTSM007177.8E-141363IPR001005SANT/Myb domain
PfamPF002493.2E-151461IPR001005SANT/Myb domain
CDDcd001677.64E-111661No hitNo description
PROSITE profilePS5129425.61662116IPR017930Myb domain
Gene3DG3DSA:1.10.10.603.7E-2665116IPR009057Homeodomain-like
SMARTSM007178.1E-1566114IPR001005SANT/Myb domain
PfamPF002491.4E-1567112IPR001005SANT/Myb domain
CDDcd001671.33E-1069112No hitNo description
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0003677Molecular FunctionDNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 257 aa     Download sequence    Send to blast
MGRAPCCERM GLKRGPWTPE EDRILVAHIE RHGHSNWRAL PKQAGLLRCG KSCRLRWINY  60
LRPDIKRGNF TREEEDAIIH LHHMLGNRWS AIAARLPGRT DNEIKNVWHT HLKKRLEPKP  120
ASQQQAAAPK RKPTKKKQQQ QPDAEVVVLD GPTSITAPVS PEQSSLYTST TTSSADCSAA  180
SSLDNNADSF TSEEDYRIED SFWSETLAMA VDSSGDYSSG MEREDAPAAP AANDDMDFWL  240
KLFMQASDMQ NNLLQI*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1a5j_A1e-25121175109B-MYB
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Pvr.87611e-109callus| root
Functional Description ? help Back to Top
Source Description
UniProtActs as negative regulator of cold tolerance. Negatively regulates beta-amylase genes at the transcriptional level in response to cold stress. Suppresses beta-amylase gene expression by interacting with TIFY11A/JAZ9. Maltose produced by beta-amylases has a role in protecting cell membranes under cold stress conditions in rice and may contribute to the cold tolerance as a compatible solute. {ECO:0000269|PubMed:28062835}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapPavir.1KG402200.1.p
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Induced by cold stress and flooding. {ECO:0000269|PubMed:28062835}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_025798785.11e-164transcription factor MYB30-like
SwissprotQ6K1S61e-110MYB30_ORYSJ; Transcription factor MYB30
TrEMBLA0A2S3GRM61e-163A0A2S3GRM6_9POAL; Uncharacterized protein
TrEMBLA0A2T7F9751e-163A0A2T7F975_9POAL; Uncharacterized protein
STRINGPavir.Ab02340.1.p0.0(Panicum virgatum)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP7938563
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G23250.11e-78myb domain protein 15
Publications ? help Back to Top
  1. Kikuchi S, et al.
    Collection, mapping, and annotation of over 28,000 cDNA clones from japonica rice.
    Science, 2003. 301(5631): p. 376-9
    [PMID:12869764]
  2. Yilmaz A, et al.
    GRASSIUS: a platform for comparative regulatory genomics across the grasses.
    Plant Physiol., 2009. 149(1): p. 171-80
    [PMID:18987217]
  3. Lv Y, et al.
    The OsMYB30 Transcription Factor Suppresses Cold Tolerance by Interacting with a JAZ Protein and Suppressing β-Amylase Expression.
    Plant Physiol., 2017. 173(2): p. 1475-1491
    [PMID:28062835]