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.1KG450100.2.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: 327aa    MW: 35816.6 Da    PI: 10.4655
Description B3 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Pavir.1KG450100.2.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B397.11.1e-30294189
                         EEEE-..-HHHHTT-EE--HHH.HTT.....---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SS CS
                   B3  1 ffkvltpsdvlksgrlvlpkkfaeeh.....ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgr 87
                         f+kv tpsdv+k++rlv+pk++ae++      g+ e++  l++ed+ g+ W+++++y+++s++yv+tkGW++Fvk+++L +gD+v F++   
  Pavir.1KG450100.2.p  2 FEKVVTPSDVGKLNRLVIPKQYAEKYfpldaAGN-EKGLLLSFEDTAGKHWRFRYSYWNSSQSYVMTKGWSRFVKEKRLVAGDTVSFSRAAA 92
                         99****************************8444.57789************************************************6643 PP

                         SE CS
                   B3 88 se 89
                         ++
  Pavir.1KG450100.2.p 93 ED 94
                         33 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF1019361.83E-291108IPR015300DNA-binding pseudobarrel domain
CDDcd100175.86E-27189No hitNo description
Gene3DG3DSA:2.40.330.101.5E-381106IPR015300DNA-binding pseudobarrel domain
SMARTSM010191.1E-212107IPR003340B3 DNA binding domain
PROSITE profilePS5086314.7622105IPR003340B3 DNA binding domain
PfamPF023628.3E-282103IPR003340B3 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: 327 aa     Download sequence    Send to blast
MFEKVVTPSD VGKLNRLVIP KQYAEKYFPL DAAGNEKGLL LSFEDTAGKH WRFRYSYWNS  60
SQSYVMTKGW SRFVKEKRLV AGDTVSFSRA AAEDARHRLF IDWKRRVDTR GPLRFSGLAL  120
PMPLASHHYG PHHYSPWGFG GGGGGGGFFM PPSPPATLYE HHLRQGLDFR GMSMTYPAPT  180
VGRQLLFFGS ARTTMPPHAP LQQPRAPTTL PLHYTMQPSA AGVAAASPRP VVLDSVPVIE  240
SPTTAAKRVR LFGVNLDNNP QSDGGEASHH QGNALSLQMP GWQQRTTPTL RLLELPRHGA  300
ESSAASTPSS SSSSKREARS ALDLDL*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5os9_A6e-5511067113B3 domain-containing transcription factor NGA1
5os9_B6e-5511067113B3 domain-containing transcription factor NGA1
Search in ModeBase
Cis-element ? help Back to Top
SourceLink
PlantRegMapPavir.1KG450100.2.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
GenBankBT0884010.0BT088401.1 Zea mays full-length cDNA clone ZM_BFc0175G08 mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_025794708.10.0B3 domain-containing protein Os02g0683500-like
SwissprotQ6EU301e-136Y2835_ORYSJ; B3 domain-containing protein Os02g0683500
TrEMBLA0A3L6RS460.0A0A3L6RS46_PANMI; Uncharacterized protein
STRINGPavir.Ab02711.1.p0.0(Panicum virgatum)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT2G46870.13e-56B3 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]