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.1KG076500.1.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 SBP
Protein Properties Length: 333aa    MW: 36120.3 Da    PI: 8.443
Description SBP family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Pavir.1KG076500.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SBP127.16.8e-4060137178
                          --SSTT-----TT--HHHHHTT--HHHHT-S-EEETTEEEEE-TTTSSEEETTT--SS--S-STTTT-------S--- CS
                  SBP   1 lCqvegCeadlseakeyhrrhkvCevhskapvvlvsgleqrfCqqCsrfhelsefDeekrsCrrrLakhnerrrkkqa 78 
                          +CqvegC  +l +ak+yhr+h+vCe+h+k+p v+v+g+e+rfCqqCsrfh+lsefD++krsCrrrL++hn+rrrk+q+
  Pavir.1KG076500.1.p  60 RCQVEGCGLELGTAKDYHRKHRVCEAHTKCPRVVVAGQERRFCQQCSRFHALSEFDQKKRSCRRRLSDHNARRRKPQP 137
                          6**************************************************************************997 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS512575131No hitNo description
Gene3DG3DSA:4.10.1100.109.4E-3354122IPR004333Transcription factor, SBP-box
PROSITE profilePS5114131.7758135IPR004333Transcription factor, SBP-box
SuperFamilySSF1036123.92E-3859140IPR004333Transcription factor, SBP-box
PfamPF031101.7E-3061134IPR004333Transcription factor, SBP-box
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 333 aa     Download sequence    Send to blast
MEWTAPKPAA SPSSPPLLWD WGNHAAAGSG CSGDAPARRG GKEREAKRTK GEEGGGAEVR  60
CQVEGCGLEL GTAKDYHRKH RVCEAHTKCP RVVVAGQERR FCQQCSRFHA LSEFDQKKRS  120
CRRRLSDHNA RRRKPQPDAY AFASARLPSS LFDDRRQISF VWNRAPLSHV RPFTSPCDSS  180
SDFKLSHAKE ISELSTKVGT ITGQVHFDKS HLSNAIPTLS HGKDELLPMK GPDTSITASK  240
FDGAPDLQRA LSLLSAGSCG FPDPVPQASC LIQFTGASEN SGDLHLSHGG NSGPASCADE  300
QHVAPQPQLV RFTMDTSSNV YEPTFFGVNQ IN*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1ul4_A1e-2451134184squamosa promoter binding protein-like 4
Search in ModeBase
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1116133KKRSCRRRLSDHNARRRK
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Pvr.74510.0callus| leaf| root
Expression -- Description ? help Back to Top
Source Description
UniprotTISSUE SPECIFICITY: Expressed in stems, leaf sheaths, and young panicles. {ECO:0000269|PubMed:16861571}.
Functional Description ? help Back to Top
Source Description
UniProtTrans-acting factor that binds specifically to the consensus nucleotide sequence 5'-TNCGTACAA-3' (By similarity). May be involved in panicle development. {ECO:0000250}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapPavir.1KG076500.1.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
GenBankBT0334150.0BT033415.1 Zea mays full-length cDNA clone ZM_BFb0223G18 mRNA, complete cds.
GenBankBT0875080.0BT087508.1 Zea mays full-length cDNA clone ZM_BFb0098L17 mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_025805124.10.0squamosa promoter-binding-like protein 4
SwissprotQ653Z51e-103SPL11_ORYSJ; Squamosa promoter-binding-like protein 11
TrEMBLA0A3L6QEF90.0A0A3L6QEF9_PANMI; Squamosa promoter-binding-like protein 4
STRINGPavir.Ab00499.1.p0.0(Panicum virgatum)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP62712952
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G43270.31e-45squamosa promoter binding protein-like 2