PlantTFDB - Plant Transcription Factor Database @ CBI, PKU

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; asterids; lamiids; Solanales; Solanaceae; Solanoideae; Solaneae; Solanum

Family

Protein Properties

Length: 334aa MW: 38295.4 Da PI: 5.3037

Description

B3 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
PGSC0003DMP400004999	genome	PGSC	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	B3	47.8	2.6e-15	31	112	11	98
HHTT-EE--HHH.HTT---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSSEE..EEEEE- CS B3 11 lksgrlvlpkkfaeehggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgrsefelvvkvfr 98 ++++rl++pk fa+++ ++ + + le +sg++Wev+l + + g+++l++GWk+F + ++ g f++F ++ rs f +v++f+ PGSC0003DMP400004999 31 HELCRLRIPKGFASRYCKNILN--PVYLEVPSGEVWEVEL--EHSEGHIWLAEGWKDFSDYYSIRRGNFFMFGYNARSHF--NVTIFD 112 46799*********544334..5***********..999999************************999999..998886 PP
2	B3	53.6	4.1e-17	235	316	4	89
E-..-HHHHTT-EE--HHH.HTT.---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSSE CS B3 4 vltpsdvlksgrlvlpkkfaeeh.ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgrse 89 + ps+v++ + l++p kfa+ + +g+ s l+l+ + sW vk+i+ +k+ + t GWk Fv +n+Lk gD++v++++++++ PGSC0003DMP400004999 235 FMHPSYVSRPHALYIPLKFARMYfMGN---SGNLVLRVPGKGSWPVKCIMLRKDAK--VTCGWKAFVLDNKLKYGDVCVLEVINDTK 316 5789*****************7544...346***********99888766..79*******************987644 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF101936	2.94E-19	17	114	IPR015300	DNA-binding pseudobarrel domain
Gene3D	G3DSA:2.40.330.10	8.3E-20	17	112	IPR015300	DNA-binding pseudobarrel domain
CDD	cd10017	5.34E-15	21	112	No hit	No description
SMART	SM01019	5.2E-13	23	114	IPR003340	B3 DNA binding domain
Pfam	PF02362	1.3E-11	31	112	IPR003340	B3 DNA binding domain
PROSITE profile	PS50863	11.942	35	114	IPR003340	B3 DNA binding domain
Gene3D	G3DSA:2.40.330.10	1.7E-22	224	318	IPR015300	DNA-binding pseudobarrel domain
SuperFamily	SSF101936	5.1E-22	225	317	IPR015300	DNA-binding pseudobarrel domain
CDD	cd10017	6.40E-18	230	326	No hit	No description
SMART	SM01019	5.4E-13	231	328	IPR003340	B3 DNA binding domain
PROSITE profile	PS50863	11.632	232	328	IPR003340	B3 DNA binding domain
Pfam	PF02362	1.9E-15	234	317	IPR003340	B3 DNA binding domain

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0006355	Biological Process	regulation of transcription, DNA-templated
GO:0005634	Cellular Component	nucleus
GO:0003677	Molecular Function	DNA binding

Sequence ? help Back to Top
Protein Sequence Length: 334 aa Download sequence Send to blast
MVHKFRKQIG EVSSISNISQ PKFCKIIFSP HELCRLRIPK GFASRYCKNI LNPVYLEVPS 60 GEVWEVELEH SEGHIWLAEG WKDFSDYYSI RRGNFFMFGY NARSHFNVTI FDFSAAEIEY 120 PPAEIESDDS IDILDVVEHS SEYLSYDPVV QERKRIRQEG EEEDDIPVEH QTNVIDEEEF 180 QGNVVSLVIS EDCEEHEQQS NIVTSKRKAE RDEGIADNYQ RAKAFKSKNP FIVSFMHPSY 240 VSRPHALYIP LKFARMYFMG NSGNLVLRVP GKGSWPVKCI MLRKDAKVTC GWKAFVLDNK 300 LKYGDVCVLE VINDTKLSLI DVTIFPGISD GTN*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
4i1k_A	3e-16	222	325	39	140	B3 domain-containing transcription factor VRN1
4i1k_B	3e-16	222	325	39	140	B3 domain-containing transcription factor VRN1
Search in ModeBase

Cis-element ? help Back to Top
Source	Link
PlantRegMap	PGSC0003DMP400004999

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	AC215404	0.0	AC215404.2 Solanum lycopersicum cultivar Heinz 1706 chromosome 2 clone C02HBa0163K16, complete sequence.
GenBank	HG975514	0.0	HG975514.1 Solanum lycopersicum chromosome ch02, complete genome.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_006344812.1	0.0	PREDICTED: B3 domain-containing transcription factor VRN1-like
TrEMBL	M0ZSN0	0.0	M0ZSN0_SOLTU; Uncharacterized protein
STRING	PGSC0003DMT400007199	0.0	(Solanum tuberosum)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Asterids	OGEA759	18	93

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT3G18990.1	5e-34	B3 family protein

Link Out ? help Back to Top
Phytozome	PGSC0003DMP400004999
Entrez Gene	102595417

Publications ? help Back to Top
Xu X, et al. Genome sequence and analysis of the tuber crop potato. Nature, 2011. 475(7355): p. 189-95 [PMID:21743474]