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.8NG077400.1.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 B3
Protein Properties Length: 504aa    MW: 55543 Da    PI: 10.6086
Description B3 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Pavir.8NG077400.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B357.32.9e-1894182197
                          EEEE-..-HHHHTT-EE--HHH.HTT---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSSEE CS
                   B3   1 ffkvltpsdvlksgrlvlpkkfaeehggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgrsef 90 
                          ffk++   +  + +rl +p +f ++ ++++++   ++l+ +sg++W+  l  +  s++ ++++GWkeFv ++ +k+g f+vF++dg s+f
  Pavir.8NG077400.1.p  94 FFKIF--FSDQSGQRLKIPASFHQHLKEQPTG--LVSLKGPSGNTWQAVL--TSDSEGLFFGQGWKEFVMDHSVKQGHFLVFTYDGLSQF 177
                          67777..44555668*******9666777766..7***************..********************************998999 PP

                          ..EEEEE CS
                   B3  91 elvvkvf 97 
                             v+vf
  Pavir.8NG077400.1.p 178 --SVTVF 182
                          ..66666 PP
2B345.21.7e-14397488398
                          EE-..-HHHHTT-EE--HHH.HTT---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSSEE.. CS
                   B3   3 kvltpsdvlksgrlvlpkkfaeehggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgrsefel 92 
                          ++++ s+v     + +  +f++e    +++sk++tl d+ g+ Wev++ y  +++   +++GW +F+  n+L+  D++vF+l ++   + 
  Pavir.8NG077400.1.p 397 QTMMESYVYVGFFMNITCEFVRESL--PRTSKKMTLWDPLGKPWEVNYVYYSGRSVASFSGGWGKFALGNNLEKFDVCVFELFKE--DNI 482
                          6789999999999999999*98884..46889****************9988888899***********************8764..445 PP

                          EEEEE- CS
                   B3  93 vvkvfr 98 
                          +v+++r
  Pavir.8NG077400.1.p 483 RVHIYR 488
                          788776 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:2.40.330.101.0E-2187183IPR015300DNA-binding pseudobarrel domain
PROSITE profilePS5086313.15592185IPR003340B3 DNA binding domain
SuperFamilySSF1019363.34E-1993183IPR015300DNA-binding pseudobarrel domain
SMARTSM010195.3E-1494185IPR003340B3 DNA binding domain
CDDcd100174.32E-1794182No hitNo description
PfamPF023624.8E-1694181IPR003340B3 DNA binding domain
Gene3DG3DSA:2.40.330.103.2E-23386488IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019365.1E-23388488IPR015300DNA-binding pseudobarrel domain
CDDcd100175.86E-22393488No hitNo description
SMARTSM010191.3E-10395490IPR003340B3 DNA binding domain
PROSITE profilePS5086312.337395490IPR003340B3 DNA binding domain
PfamPF023626.5E-13397488IPR003340B3 DNA binding domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0003677Molecular FunctionDNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 504 aa     Download sequence    Send to blast
MVAGRKKQQG SSGAAATPEK KSGKGKGKAA REDGKERAKE KEVTGASKKA AKGKEPAKEK  60
QKEARGDGKK GRAKAKQQQK EAAAAAAKSA GQQFFKIFFS DQSGQRLKIP ASFHQHLKEQ  120
PTGLVSLKGP SGNTWQAVLT SDSEGLFFGQ GWKEFVMDHS VKQGHFLVFT YDGLSQFSVT  180
VFGSLGVVDP PALIAKPTND VVIKIEDDEE VQGDMDAGGT SDTSVLPPKE GNGKTRKRTR  240
GVNDLSEGGN ASKRHSSVAK NAEKKRPEAK TRKRTRGVND LSEGGNASKR HSSVAKNAEK  300
KRPEAIPRTS KDRLTSKDAS TIENTEKGTP FRLLDESTAF NKTQVREKNM PKLGKFIVRR  360
ARQPVVISQR RPVTQEEKDL ALKRAKEFKS ENPFAVQTMM ESYVYVGFFM NITCEFVRES  420
LPRTSKKMTL WDPLGKPWEV NYVYYSGRSV ASFSGGWGKF ALGNNLEKFD VCVFELFKED  480
NIRVHIYRVV SEITPLLRAS SKD*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4i1k_A1e-1236848922142B3 domain-containing transcription factor VRN1
4i1k_B1e-1236848922142B3 domain-containing transcription factor VRN1
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Pvr.70340.0callus| leaf| root
Cis-element ? help Back to Top
SourceLink
PlantRegMapPavir.8NG077400.1.p
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_025827675.10.0B3 domain-containing protein Os11g0197600-like
RefseqXP_025827676.10.0B3 domain-containing protein Os11g0197600-like
SwissprotQ2R9D21e-127Y1176_ORYSJ; B3 domain-containing protein Os11g0197600
TrEMBLA0A2T7CLC40.0A0A2T7CLC4_9POAL; Uncharacterized protein
STRINGPavir.Ha01581.1.p0.0(Panicum virgatum)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP44613766
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G06220.13e-18B3 family protein
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]