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.8NG052200.1.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: 263aa MW: 29693.9 Da PI: 7.4466

Description

B3 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Pavir.8NG052200.1.p	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	B3	92.1	4.2e-29	34	135	1	96
EEEE-..-HHHHTT-EE--HHH.HTT....---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-S CS B3 1 ffkvltpsdvlksgrlvlpkkfaeeh....ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldg 86 f+k ltpsdv+k++rlv+pk++ae++ g + e++ l++ede g+ W+++++y+ +s++yvltkGW+++ k+++L++gD+v F++++ Pavir.8NG052200.1.p 34 FEKPLTPSDVGKLNRLVIPKQHAERYfplsGDSGEKGLILSFEDEAGKPWRFRYSYWTSSQSYVLTKGWSRYIKEKQLDAGDVVHFERMR 123 99*************************9666668889**********************************************774 PP S..SEE..EEEE CS B3 87 r..sefelvvkv 96 + +l+++ Pavir.8NG052200.1.p 124 GfgMADRLFISY 135 334555555555 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Gene3D	G3DSA:2.40.330.10	1.4E-40	29	147	IPR015300	DNA-binding pseudobarrel domain
SuperFamily	SSF101936	5.89E-28	31	125	IPR015300	DNA-binding pseudobarrel domain
CDD	cd10017	5.20E-27	32	124	No hit	No description
SMART	SM01019	1.4E-21	34	139	IPR003340	B3 DNA binding domain
PROSITE profile	PS50863	13.733	34	139	IPR003340	B3 DNA binding domain
Pfam	PF02362	2.1E-26	34	137	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: 263 aa Download sequence Send to blast
MNHLSQEHPQ AWPWGVAMYT NLHYHHYYEK EHLFEKPLTP SDVGKLNRLV IPKQHAERYF 60 PLSGDSGEKG LILSFEDEAG KPWRFRYSYW TSSQSYVLTK GWSRYIKEKQ LDAGDVVHFE 120 RMRGFGMADR LFISYRRRSE SATGAAASPA AVCVADPAQS AGGEQQPWSP MCYSTSGSYP 180 TSPANSHAYR HSVDHDHSNM QHAGESRYNR SCSAASAPPR RLRLFGVNLD CGPEPEPEPE 240 TPTTMYSYMH QSPYAPNTWG SP*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5os9_A	5e-52	29	138	3	113	B3 domain-containing transcription factor NGA1
5os9_B	5e-52	29	138	3	113	B3 domain-containing transcription factor NGA1
Search in ModeBase

Expression -- UniGene ? help Back to Top
UniGene ID	E-value	Expressed in
Pvr.12100	0.0	root

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Pavir.8NG052200.1.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	BT035540	5e-35	BT035540.2 Zea mays full-length cDNA clone ZM_BFb0068L13 mRNA, complete cds.
GenBank	EU963065	5e-35	EU963065.1 Zea mays clone 257076 B3 DNA binding domain containing protein mRNA, complete cds.
GenBank	JX469967	5e-35	JX469967.1 Zea mays subsp. mays clone UT3229 ABI3VP1-type transcription factor mRNA, partial cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_025827830.1	1e-176	B3 domain-containing protein Os11g0156000-like isoform X2
Swissprot	Q53QI0	1e-122	Y1160_ORYSJ; B3 domain-containing protein Os11g0156000
TrEMBL	A0A2T7CKD2	1e-175	A0A2T7CKD2_9POAL; Uncharacterized protein
STRING	Pavir.Ha01761.1.p	0.0	(Panicum virgatum)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Monocots	OGMP2446	38	89

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT2G36080.2	1e-53	B3 family protein

Link Out ? help Back to Top
Phytozome	Pavir.8NG052200.1.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]