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.4NG008900.1.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: 192aa MW: 20783.6 Da PI: 5.078

Description

B3 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Pavir.4NG008900.1.p	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	B3	37	6e-12	68	147	1	86
EEEE-..-HHHHTT-EE--HHH.HTT---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-S CS B3 1 ffkvltpsdvlksgrlvlpkkfaeehggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldg 86 f +v+++s v k+ +lv+p + + e + l +grsW ++ + k ++ + +GW++F+ +n L++gD +vF+l+ Pavir.4NG008900.1.p 68 FTTVMSKSQVQKQFQLVIPARLQRLLP---EARVPAALL-CRGRSWAASYCGDLKCKK--IDAGWRDFAVDNALRVGDACVFELIT 147 8899*************99874442...223334444.48****66555555..9********************875 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Gene3D	G3DSA:2.40.330.10	9.5E-17	62	169	IPR015300	DNA-binding pseudobarrel domain
SuperFamily	SSF101936	1.55E-14	64	146	IPR015300	DNA-binding pseudobarrel domain
CDD	cd10017	2.94E-14	66	169	No hit	No description
Pfam	PF02362	4.9E-10	68	147	IPR003340	B3 DNA binding domain
PROSITE profile	PS50863	11.42	68	171	IPR003340	B3 DNA binding domain
SMART	SM01019	0.002	68	171	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: 192 aa Download sequence Send to blast
METRTPGFPW KKQQQQPDPD GFPKLELEPP HAGGKPKVEP CEEQEHSPPA APDDDWEVTP 60 LSGGHPFFTT VMSKSQVQKQ FQLVIPARLQ RLLPEARVPA ALLCRGRSWA ASYCGDLKCK 120 KIDAGWRDFA VDNALRVGDA CVFELITAPA ATGSSAASSE VVFRVQVLRG GLPEEITSKG 180 ATPDEPLVIV D*

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Pavir.4NG008900.1.p

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

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_025811196.1	8e-99	B3 domain-containing protein Os06g0112300-like isoform X1
Swissprot	Q9LHY9	1e-46	Y6112_ORYSJ; B3 domain-containing protein Os06g0112300
TrEMBL	A0A3L6PEL1	3e-97	A0A3L6PEL1_PANMI; B3 domain-containing protein
STRING	Pavir.Db02470.1.p	1e-137	(Panicum virgatum)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Monocots	OGMP12046	19	33

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT5G58280.1	4e-06	B3 family protein

Link Out ? help Back to Top
Phytozome	Pavir.4NG008900.1.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]