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.1NG425300.2.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: 320aa    MW: 35092.8 Da    PI: 10.49
Description B3 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Pavir.1NG425300.2.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B395.92.7e-30294189
                         EEEE-..-HHHHTT-EE--HHH.HTT....---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSS CS
                   B3  1 ffkvltpsdvlksgrlvlpkkfaeeh....ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgrs 88
                         f+kv tpsdv+k++rlv+pk++ae++       +e++  l++ed+ g+ W+++++y+++s++yv+tkGW++Fvk+++L +gD+v F++   +
  Pavir.1NG425300.2.p  2 FDKVVTPSDVGKLNRLVIPKQYAEKYfpldAAANEKGLLLSFEDSAGKHWRFRYSYWNSSQSYVMTKGWSRFVKEKRLVAGDTVSFSRAAAE 93
                         89***************************955556888*************************************************66433 PP

                         E CS
                   B3 89 e 89
                         +
  Pavir.1NG425300.2.p 94 D 94
                         3 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:2.40.330.108.7E-391106IPR015300DNA-binding pseudobarrel domain
CDDcd100173.07E-26189No hitNo description
SuperFamilySSF1019368.5E-291108IPR015300DNA-binding pseudobarrel domain
SMARTSM010192.8E-202107IPR003340B3 DNA binding domain
PROSITE profilePS5086314.6632105IPR003340B3 DNA binding domain
PfamPF023621.5E-272103IPR003340B3 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: 320 aa     Download sequence    Send to blast
MFDKVVTPSD VGKLNRLVIP KQYAEKYFPL DAAANEKGLL LSFEDSAGKH WRFRYSYWNS  60
SQSYVMTKGW SRFVKEKRLV AGDTVSFSRA AAEDARHRLF IDWKRRVDTR GPLRFSNLAL  120
PMPLASYYGP HHYSPWGFGA GGGGGGFFMP PSPPATLYEH RLRQGLDFRG MSMSYPAPTV  180
GRQLLIFNSA RTMPPHAPIQ PRAPTLPLHY TVQPSAAGVT AASRPVVLDS VPVIESPTTA  240
AKRVRLFGVN LDNNPQSDGG EASHQGNALS LQMPGWQQRT PTLRLLELPR HGAESSAAAS  300
PSSSSSSKRE ARSALDLDL*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5os9_A2e-5511067113B3 domain-containing transcription factor NGA1
5os9_B2e-5511067113B3 domain-containing transcription factor NGA1
Search in ModeBase
Cis-element ? help Back to Top
SourceLink
PlantRegMapPavir.1NG425300.2.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-141Y2835_ORYSJ; B3 domain-containing protein Os02g0683500
TrEMBLA0A2S3GSD90.0A0A2S3GSD9_9POAL; Uncharacterized protein
STRINGPavir.Aa00929.1.p0.0(Panicum virgatum)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT2G46870.11e-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]