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.9NG099300.1.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_related
Protein Properties Length: 566aa    MW: 63425.8 Da    PI: 7.4967
Description MYB_related family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Pavir.9NG099300.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Myb_DNA-binding33.87.9e-11111151445
                          S-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHH CS
      Myb_DNA-binding   4 WTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwq 45 
                          W ++E+ ll+++++++G g+W  +a+++g +++  qc++++ 
  Pavir.9NG099300.1.p 111 WNADEEILLLEGIEMYGLGNWLEVAEHVG-TKSKLQCIDHYT 151
                          *****************************.**********96 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PIRSFPIRSF0250248.7E-17537561IPR016827Transcriptional adaptor 2
SMARTSM002911.6E-104792IPR000433Zinc finger, ZZ-type
PfamPF005693.2E-94990IPR000433Zinc finger, ZZ-type
CDDcd023353.57E-265199No hitNo description
PROSITE profilePS5013510.8245194IPR000433Zinc finger, ZZ-type
SuperFamilySSF578502.71E-1451114No hitNo description
PROSITE patternPS0135705380IPR000433Zinc finger, ZZ-type
SuperFamilySSF466893.59E-12104157IPR009057Homeodomain-like
PROSITE profilePS5129321.633106158IPR017884SANT domain
SMARTSM007175.0E-10107156IPR001005SANT/Myb domain
PfamPF002498.6E-11110151IPR001005SANT/Myb domain
CDDcd001678.10E-11111152No hitNo description
Gene3DG3DSA:1.10.10.605.0E-7111153IPR009057Homeodomain-like
SuperFamilySSF466892.69E-20469554IPR009057Homeodomain-like
PROSITE profilePS509349.567474565IPR007526SWIRM domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006357Biological Processregulation of transcription from RNA polymerase II promoter
GO:0016573Biological Processhistone acetylation
GO:0003677Molecular FunctionDNA binding
GO:0005515Molecular Functionprotein binding
GO:0008270Molecular Functionzinc ion binding
Sequence ? help Back to Top
Protein Sequence    Length: 566 aa     Download sequence    Send to blast
MGRSRGVPNS GDDDTGHRSK RRRVSSSGDA TDTISAAMGG AGEGGGKKAL YHCNYCNKDI  60
SGKIRIKCSK CPDFDLCVEC FSVGAEVTPH RSNHPYRVMD NLSFPLICPD WNADEEILLL  120
EGIEMYGLGN WLEVAEHVGT KSKLQCIDHY TTAYMNSPCY PLPDMSHVNG KNRKELLAMA  180
KVQGESKKGT SLLPGELTPK AESPFSPSRV KLEEALGDGP AGRSPSHMAG GANKKASNAG  240
QVKDSSNVSK VEDGHVDRSV GVKKPRYSAD EGPSLTELSG YNSKRHEFDP EYDNDAEQAL  300
AEMEFKETDS ETDRELKLRV LRIYLSRLDE RKRRKEFILE RNLLFPNPLE KDLTNEDKEV  360
YHRYKVFMRF LSKEEHEALV RSVIEERKIR RRIQELQECR SAGCCTLAEA KIHIEQKRKR  420
EYELNSQKSK ESGQLIPNNK SVQKMNRPMK IESDGNLDPK KGGTGLDSPK TTGLASVKQW  480
DDWDIVGLPG AELLSASEKL LCCQNRLLPS HYLRMQEVLM QEIFKDNGLK KEDARVLFKV  540
DPSKVDTVYD MVTKKLGNHE EAPTV*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
6cw2_C5e-38511665120Transcriptional adapter 2
6cw3_E6e-38511665120Transcriptional adapter 2
6cw3_G6e-38511665120Transcriptional adapter 2
Search in ModeBase
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
11923KRRRV
2330335RKRRKE
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Pvr.58660.0callus| leaf| root| stem
Functional Description ? help Back to Top
Source Description
UniProtRequired for the function of some acidic activation domains, which activate transcription from a distant site. The exact mechanism of action is not yet known. ADA2 and GCN5 function to acetylate nucleosomes, opening up the promoter region (By similarity). {ECO:0000250}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapPavir.9NG099300.1.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
GenBankBT0413330.0BT041333.1 Zea mays full-length cDNA clone ZM_BFb0092G09 mRNA, complete cds.
GenBankKJ7274980.0KJ727498.1 Zea mays clone pUT5357 MYB-related transcription factor (MYBR66) mRNA, partial cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_025796153.10.0transcriptional adapter ADA2
SwissprotQ75LL60.0TADA2_ORYSJ; Transcriptional adapter ADA2
TrEMBLA0A3L6TQ010.0A0A3L6TQ01_PANMI; Transcriptional adapter
STRINGPavir.Ia00545.1.p0.0(Panicum virgatum)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP77083847
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]