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; Lycopersicon

Family

TALE

Protein Properties

Length: 321aa MW: 36695.9 Da PI: 4.5452

Description

TALE family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Solyc05g005090.2.1	genome	ITAG	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	Homeobox	27.5	5.2e-09	263	295	23	55
SS--HHHHHHHHHHCTS-HHHHHHHHHHHHHHH CS Homeobox 23 rypsaeereeLAkklgLterqVkvWFqNrRake 55 +yp+++++ LA+++gL+ +q+ +WF N+R ++ Solyc05g005090.2.1 263 PYPTEADKNSLAESTGLDPKQINNWFINQRKRH 295 8*****************************885 PP
2	ELK	31.3	4.6e-11	215	236	1	22
ELK 1 ELKhqLlrKYsgyLgsLkqEFs 22 ELK++LlrK++++L+sLk EFs Solyc05g005090.2.1 215 ELKDRLLRKFGSHLSSLKLEFS 236 9********************8 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SMART	SM01255	9.3E-18	88	132	IPR005540	KNOX1
Pfam	PF03790	1.5E-20	90	131	IPR005540	KNOX1
SMART	SM01256	1.3E-25	138	189	IPR005541	KNOX2
Pfam	PF03791	1.0E-24	141	188	IPR005541	KNOX2
PROSITE profile	PS51213	10.196	215	235	IPR005539	ELK domain
Pfam	PF03789	1.3E-7	215	236	IPR005539	ELK domain
SMART	SM01188	8.4E-6	215	236	IPR005539	ELK domain
PROSITE profile	PS50071	12.908	235	298	IPR001356	Homeobox domain
SuperFamily	SSF46689	1.24E-19	236	309	IPR009057	Homeodomain-like
SMART	SM00389	1.5E-13	237	302	IPR001356	Homeobox domain
Gene3D	G3DSA:1.10.10.60	2.8E-28	240	299	IPR009057	Homeodomain-like
CDD	cd00086	6.19E-12	247	299	No hit	No description
Pfam	PF05920	2.7E-17	255	294	IPR008422	Homeobox KN domain
PROSITE pattern	PS00027	0	273	296	IPR017970	Homeobox, conserved site

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0006355	Biological Process	regulation of transcription, DNA-templated
GO:0010073	Biological Process	meristem maintenance
GO:0005634	Cellular Component	nucleus
GO:0043565	Molecular Function	sequence-specific DNA binding

Sequence ? help Back to Top
Protein Sequence Length: 321 aa Download sequence Send to blast
MDDEIMYGFN STRDDYADKA LMSPENLMMQ TEYNNFHNYT NSSIMFGSDP IQLSSEQTLQ 60 NNIYRGNCCG GSGSGGDNNN NNDEDGSNII KAKILSHPYY PKLLNAYIDC QKVGAPAGIV 120 NLLEEIRQQN DFRKPNATCL CIGADPELDE FMETYCDILL KYKSDLSRPF DEATTFLNKI 180 EMQLGNLCKD DDEEEEEELS CGDASSSMRR SEDNELKDRL LRKFGSHLSS LKLEFSKKKK 240 KGKLPKEARQ MLLAWWDDHF RWPYPTEADK NSLAESTGLD PKQINNWFIN QRKRHWKPSE 300 NMQLAVMDNL SAQFFSSDVD *

Expression -- Description ? help Back to Top
Source	Description
Uniprot	DEVELOPMENTAL STAGE: First detected in torpedo stage embryos at the boundaries between the presumptive SAM and the cotyledons. Later expressed between the cotyledons and the meristem, and between the cotyledons. In seedlings, localised in stipules and at the boundaries between the SAM and the emerging primordia. Expressed at the site of lateral roots. {ECO:0000269\|PubMed:16798887}.
Uniprot	TISSUE SPECIFICITY: Expressed predominantly in shoot apices of seedlings, and, to a lower extent, in rosette leaves. {ECO:0000269\|PubMed:11311158}.

Functional Description ? help Back to Top
Source	Description
UniProt	Plays a role in meristem function. Contributes to the shoot apical meristem (SAM) maintenance and organ separation by controlling boundary establishment in embryo in a CUC1, CUC2 and STM-dependent manner. Involved in maintaining cells in an undifferentiated, meristematic state. Probably binds to the DNA sequence 5'-TGAC-3'. {ECO:0000269\|PubMed:16798887}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Solyc05g005090.2.1

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: Seems to be repressed by AS2 and AS1 but induced by STM, CUC1 and CUC2. {ECO:0000269\|PubMed:11311158, ECO:0000269\|PubMed:16798887}.

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	AC212308	0.0	Solanum lycopersicum cv. Heinz 1706, chromosome 5 BAC clone C05SLe0101I15, complete sequence

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	NP_001233927.1	0.0	knotted 3 protein
Swissprot	Q84JS6	1e-110	KNAT6_ARATH; Homeobox protein knotted-1-like 6
TrEMBL	A0A3Q7H4G7	0.0	A0A3Q7H4G7_SOLLC; Uncharacterized protein
STRING	Solyc05g005090.2.1	0.0	(Solanum lycopersicum)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Asterids	OGEA753	24	80
Representative plant	OGRP167	17	148

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G23380.1	3e-97	KNOTTED1-like homeobox gene 6

Link Out ? help Back to Top
Phytozome	Solyc05g005090.2.1

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] Duarte JM, et al. Expression pattern shifts following duplication indicative of subfunctionalization and neofunctionalization in regulatory genes of Arabidopsis. Mol. Biol. Evol., 2006. 23(2): p. 469-78 [PMID:16280546] Khan M, et al. Repression of Lateral Organ Boundary Genes by PENNYWISE and POUND-FOOLISH Is Essential for Meristem Maintenance and Flowering in Arabidopsis. Plant Physiol., 2015. 169(3): p. 2166-86 [PMID:26417006]