PlantTFDB - Plant Transcription Factor Database @ CBI, PKU

PlantRegMap/PlantTFDB v5.0

Plant Transcription Factor Database

Transcription Factor Information

Basic Information | Signature Domain | Sequence |

Basic Information? help Back to Top

TF ID

Pavir.6KG395100.1.p

Organism

Panicum virgatum

Taxonomic ID

38727

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

TCP

Protein Properties

Length: 355aa MW: 36500.8 Da PI: 5.5906

Description

TCP family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Pavir.6KG395100.1.p	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	TCP	119.7	3.6e-37	61	168	6	100
TCP 6 drhskihTkvggRdRRvRlsaecaarfFdLqdeLGfdkdsktieWLlqqakpaikeltgtssssasec.......eaesssssasnsssg 88 r+ ++hTkv+gR+RR+R++a caar+F+L++eLG+++d++ti WLlqq++pai+++tgt++ +a ++ + +ssss+s ss + Pavir.6KG395100.1.p 61 PRNRDRHTKVEGRGRRIRMPAACAARIFQLTRELGHKSDGETIRWLLQQSEPAIIAATGTGTVPAIATtvdgvirIPTQSSSSSSPSSLA 150 6999********************************************************777774433333333222222222212222 PP TCP 89 ......kaaksaakskks 100 ++++++ +k + Pavir.6KG395100.1.p 151 mvmvdgEESSAKRRRKLQ 168 455544222222222222 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS51369	27.381	63	117	IPR017887	Transcription factor TCP subgroup
Pfam	PF03634	1.5E-30	63	157	IPR005333	Transcription factor, TCP

Sequence ? help Back to Top
Protein Sequence Length: 355 aa Download sequence Send to blast
MEAQAQDRAE EGEAAARQHV VGAGAAGVAM GAIPMHGFMV PKPEPVEYFG GMAVVRSKPP 60 PRNRDRHTKV EGRGRRIRMP AACAARIFQL TRELGHKSDG ETIRWLLQQS EPAIIAATGT 120 GTVPAIATTV DGVIRIPTQS SSSSSPSSLA MVMVDGEESS AKRRRKLQPT RAAAGASPLA 180 TAAPAAYYPV IADPLLQGTG GAAISVPSGL APITAAPGAP QGLVPVFAVP AAGSPGGGAN 240 RMIPQATAVW MVPQPGAAAG GAAAQPAQFW AIQSAPQLIN LGGGQTAVFP TAVNVADFQQ 300 QQHASTMSHN SNSEQHPGSG PHEQQRGGRS DVDHPEEEED DDEEEPVSDS SPEE*

Sequence ? help Back to Top

Protein Sequence Length: 355 aa Download sequence Send to blast

MEAQAQDRAE EGEAAARQHV VGAGAAGVAM GAIPMHGFMV PKPEPVEYFG GMAVVRSKPP  60
PRNRDRHTKV EGRGRRIRMP AACAARIFQL TRELGHKSDG ETIRWLLQQS EPAIIAATGT  120
GTVPAIATTV DGVIRIPTQS SSSSSPSSLA MVMVDGEESS AKRRRKLQPT RAAAGASPLA  180
TAAPAAYYPV IADPLLQGTG GAAISVPSGL APITAAPGAP QGLVPVFAVP AAGSPGGGAN  240
RMIPQATAVW MVPQPGAAAG GAAAQPAQFW AIQSAPQLIN LGGGQTAVFP TAVNVADFQQ  300
QQHASTMSHN SNSEQHPGSG PHEQQRGGRS DVDHPEEEED DDEEEPVSDS SPEE*

Expression -- Description ? help Back to Top
Source	Description
Uniprot	TISSUE SPECIFICITY: Expressed in seedlings and leaves, mostly in the lower region rich in dividing cells. {ECO:0000269\|PubMed:9338963}.

Functional Description ? help Back to Top
Source	Description
UniProt	Transcription activator. Binds the promoter core sequence 5'-GGNCC-3', especially at sites IIa (5'-GGGCCCAC-3') and IIb (5'-GGTCCCAC-3') (essential for meristematic tissue-specificity expression) of the PCNA gene promoter. {ECO:0000269\|PubMed:12000681}.
UniProt	Transcription activator. Binds the promoter core sequence 5'-GGNCC-3', especially at sites IIa (5'-GGGCCCAC-3') and IIb (5'-GGTCCCAC-3') (essential for meristematic tissue-specificity expression) of the PCNA gene promoter. {ECO:0000269\|PubMed:12000681, ECO:0000269\|PubMed:9338963}.

Binding Motif ? help Back to Top
Motif ID	Method	Source	Motif file
MP00667	PBM	Transfer from GSVIVG01027588001	Download

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Pavir.6KG395100.1.p

Regulation -- PlantRegMap ? help Back to Top
Source	Upstream Regulator	Target Gene
PlantRegMap	Retrieve	Retrieve

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	EU945866	0.0	EU945866.1 Zea mays clone 288123 mRNA sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_025819925.1	0.0	transcription factor PCF2-like
Swissprot	A2YXQ1	1e-153	PCF2_ORYSI; Transcription factor PCF2
Swissprot	Q6ZBH6	1e-153	PCF2_ORYSJ; Transcription factor PCF2
TrEMBL	A0A2S3I4I0	0.0	A0A2S3I4I0_9POAL; Uncharacterized protein
STRING	Pavir.Fa00111.1.p	0.0	(Panicum virgatum)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Monocots	OGMP3912	31	67

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT2G45680.1	9e-42	TCP family protein

Link Out ? help Back to Top
Phytozome	Pavir.6KG395100.1.p

Publications ? help Back to Top
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]