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

Solyc02g065350.2.1

Common Name

LOC101260398

Organism

Solanum lycopersicum

Taxonomic ID

4081

Taxonomic Lineage

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

Family

Protein Properties

Length: 332aa MW: 38191.4 Da PI: 5.9566

Description

B3 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Solyc02g065350.2.1	genome	ITAG	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	B3	47.1	4.2e-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 ++g++Wev+l + + g+++l++GWk+F + ++ g f++F ++ rs f +v++f+ Solyc02g065350.2.1 31 HELCRLRIPKGFASRYCKNILN--PVYLEVPNGEVWEVEL--EHSEGHIWLAEGWKDFSDYYSIRRGNFFMFGYNARSHF--NVTIFD 112 46799*********544334..5***********..999999************************999999..998886 PP
2	B3	56.8	4.2e-18	233	314	4	89
E-..-HHHHTT-EE--HHH.HTT---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSSE CS B3 4 vltpsdvlksgrlvlpkkfaeehggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgrse 89 + ps+v+k + l++p kfa+ + + +s l+l+ + sW+vk+ + +k+ + t GWk Fv +n+Lk gD++vF+++++++ Solyc02g065350.2.1 233 FMHPSYVSKPHALYIPLKFARMYLMR--NSGNLVLRVPGKGSWSVKCVMLRKDAK--VTCGWKAFVLDNKLKYGDVCVFEVINDTK 314 5789*****************545..3447***********77777655..79*******************987644 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Gene3D	G3DSA:2.40.330.10	1.2E-19	18	112	IPR015300	DNA-binding pseudobarrel domain
SuperFamily	SSF101936	4.12E-19	19	114	IPR015300	DNA-binding pseudobarrel domain
CDD	cd10017	4.37E-15	21	112	No hit	No description
SMART	SM01019	4.2E-13	23	114	IPR003340	B3 DNA binding domain
Pfam	PF02362	1.6E-11	31	112	IPR003340	B3 DNA binding domain
PROSITE profile	PS50863	11.956	35	114	IPR003340	B3 DNA binding domain
Gene3D	G3DSA:2.40.330.10	3.3E-23	222	316	IPR015300	DNA-binding pseudobarrel domain
SuperFamily	SSF101936	9.42E-23	223	315	IPR015300	DNA-binding pseudobarrel domain
CDD	cd10017	1.22E-18	228	324	No hit	No description
SMART	SM01019	7.9E-13	229	326	IPR003340	B3 DNA binding domain
PROSITE profile	PS50863	12.788	230	326	IPR003340	B3 DNA binding domain
Pfam	PF02362	6.4E-16	232	315	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: 332 aa Download sequence Send to blast
MVNKFRRQIG KVSSISYTSQ PKFCKIIFSP HELCRLRIPK GFASRYCKNI LNPVYLEVPN 60 GEVWEVELEH SEGHIWLAEG WKDFSDYYSI RRGNFFMFGY NARSHFNVTI FDFSAAEIEY 120 PPAEIESDDS IDISDVVEYS SEYLSHDPLV KERKRIRQEG EEENDIPVER QTIVIDEEES 180 QLNVVSLVIS EDCEEQQSNI VTSKRKEERD EGTADNYQRA KAFKSKNPFI VSFMHPSYVS 240 KPHALYIPLK FARMYLMRNS GNLVLRVPGK GSWSVKCVML RKDAKVTCGW KAFVLDNKLK 300 YGDVCVFEVI NDTKLSLIDV TIFPGISDGT N*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
4i1k_A	1e-14	213	323	28	140	B3 domain-containing transcription factor VRN1
4i1k_B	1e-14	213	323	28	140	B3 domain-containing transcription factor VRN1
Search in ModeBase

Expression -- UniGene ? help Back to Top
UniGene ID	E-value	Expressed in
Les.15921	0.0	flower\| leaf

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Solyc02g065350.2.1

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	Solanum lycopersicum chromosome 2 clone C02HBa0163K16, complete sequence

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_025885043.1	0.0	B3 domain-containing transcription factor VRN1
TrEMBL	M0ZSN0	0.0	M0ZSN0_SOLTU; Uncharacterized protein
STRING	Solyc02g065350.2.1	0.0	(Solanum lycopersicum)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Asterids	OGEA759	18	93
Representative plant	OGRP1718	5	38

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT3G18990.1	2e-17	B3 family protein

Link Out ? help Back to Top
Phytozome	Solyc02g065350.2.1
Entrez Gene	101260398

Publications ? help Back to Top
Wang Y,van der Hoeven RS,Nielsen R,Mueller LA,Tanksley SD Characteristics of the tomato nuclear genome as determined by sequencing undermethylated EcoRI digested fragments. Theor. Appl. Genet., 2005. 112(1): p. 72-84 [PMID:16208505]