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.9KG563100.1.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

Protein Properties

Length: 284aa MW: 31220.3 Da PI: 9.92

Description

B3 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Pavir.9KG563100.1.p	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	B3	98.8	3.4e-31	26	130	1	99
EEEE-..-HHHHTT-EE--HHH.HTT....---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-. CS B3 1 ffkvltpsdvlksgrlvlpkkfaeeh....ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkld. 85 f+kv tpsdv+k++rlv+pk++ae++ +e++ l++ed++g+ W+++++y+++s++yv+tkGW++Fvk+++L++gD+v F + Pavir.9KG563100.1.p 26 FDKVVTPSDVGKLNRLVIPKQHAEKFfpldAAANEKGLLLSFEDRTGKPWRFRYSYWNSSQSYVMTKGWSRFVKEKRLDAGDTVSFGRGv 115 89*************************955556888*********************************************665 PP SS.SEE..EEEEE-S CS B3 86 gr.sefelvvkvfrk 99 g+ +++l++ ++r+ Pavir.9KG563100.1.p 116 GEaARGRLFIDWRRR 130 8889999*99997 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Gene3D	G3DSA:2.40.330.10	2.8E-40	18	134	IPR015300	DNA-binding pseudobarrel domain
SuperFamily	SSF101936	7.59E-29	23	130	IPR015300	DNA-binding pseudobarrel domain
CDD	cd10017	4.49E-26	24	111	No hit	No description
PROSITE profile	PS50863	14.367	26	131	IPR003340	B3 DNA binding domain
Pfam	PF02362	4.6E-28	26	130	IPR003340	B3 DNA binding domain
SMART	SM01019	7.7E-21	26	131	IPR003340	B3 DNA binding domain

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0003677	Molecular Function	DNA binding

Sequence ? help Back to Top
Protein Sequence Length: 284 aa Download sequence Send to blast
MEFTAGPTGE ERAEQLAAAV EKEHMFDKVV TPSDVGKLNR LVIPKQHAEK FFPLDAAANE 60 KGLLLSFEDR TGKPWRFRYS YWNSSQSYVM TKGWSRFVKE KRLDAGDTVS FGRGVGEAAR 120 GRLFIDWRRR PDPPVQYHRL PLPSIPYAPW ALGAKTTTTV LHLPPSPSSL CYDYDSRRRH 180 VAYGAGSRQL LFYRPHQHPQ ATAMVLDSVP VRIPTTPGQH AEPPPPVAAS ASKRVRLFGV 240 NLDCAGSEEE SGGGRAPPLQ LPSPPSSSSS SSGKARCSLN LDL*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5os9_A	1e-64	21	131	3	114	B3 domain-containing transcription factor NGA1
5os9_B	1e-64	21	131	3	114	B3 domain-containing transcription factor NGA1
Search in ModeBase

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Pavir.9KG563100.1.p

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

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	KJ727001	1e-163	KJ727001.1 Zea mays clone pUT3977 ABI3VP1 transcription factor (ABI8) gene, partial cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_025798126.1	1e-173	B3 domain-containing protein Os03g0120900-like
Swissprot	Q8LMR9	1e-110	Y3209_ORYSJ; B3 domain-containing protein Os03g0120900
TrEMBL	A0A2S3IUV8	1e-171	A0A2S3IUV8_9POAL; Uncharacterized protein
STRING	Pavir.Ib00059.1.p	0.0	(Panicum virgatum)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Monocots	OGMP583	37	168

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT2G46870.1	2e-71	B3 family protein

Link Out ? help Back to Top
Phytozome	Pavir.9KG563100.1.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]