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

Solyc12g088390.1.1

Common Name

LOC101254884

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

C2H2

Protein Properties

Length: 201aa MW: 21887.6 Da PI: 8.4948

Description

C2H2 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Solyc12g088390.1.1	genome	ITAG	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-C2H2	12.9	0.00032	64	86	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 ykC+ Cgk+F + L H +H Solyc12g088390.1.1 64 YKCSVCGKCFGSYQALGGHKASH 86 9*********9999998888777 PP
2	zf-C2H2	13.9	0.00016	111	133	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 ++C++C+k+F++ L H r+H Solyc12g088390.1.1 111 HECTICHKTFPSGQALGGHKRRH 133 78*******************99 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Gene3D	G3DSA:3.30.160.60	1.8E-4	59	86	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamily	SSF57667	2.1E-7	59	94	No hit	No description
Pfam	PF13912	1.6E-11	64	88	IPR007087	Zinc finger, C2H2
SMART	SM00355	0.011	64	86	IPR015880	Zinc finger, C2H2-like
PROSITE profile	PS50157	11.531	64	91	IPR007087	Zinc finger, C2H2
PROSITE pattern	PS00028	0	66	86	IPR007087	Zinc finger, C2H2
SuperFamily	SSF57667	2.43E-6	108	138	No hit	No description
Pfam	PF13912	1.6E-13	110	135	IPR007087	Zinc finger, C2H2
PROSITE profile	PS50157	9.993	111	138	IPR007087	Zinc finger, C2H2
SMART	SM00355	0.033	111	133	IPR015880	Zinc finger, C2H2-like
PROSITE pattern	PS00028	0	113	133	IPR007087	Zinc finger, C2H2

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:0003700	Molecular Function	transcription factor activity, sequence-specific DNA binding
GO:0043565	Molecular Function	sequence-specific DNA binding
GO:0044212	Molecular Function	transcription regulatory region DNA binding
GO:0046872	Molecular Function	metal ion binding

Sequence ? help Back to Top
Protein Sequence Length: 201 aa Download sequence Send to blast
MALEALNSWT KGKIRSKRSR SIVMEEQPSI ITEEEYLALC LLMLARSNNN NSNSNVSITG 60 DNLYKCSVCG KCFGSYQALG GHKASHRSNR DKVCEQSVIV TSGNVVSGRT HECTICHKTF 120 PSGQALGGHK RRHYEGKMTS SSSSNGVGSV NNFDLNIPVL PDNWPGFASG EDEVESPHPT 180 KKLKQFPSLE LFQTTIGHTL *

Expression -- UniGene ? help Back to Top
UniGene ID	E-value	Expressed in
Les.25400	0.0	callus\| fruit

Expression -- Description ? help Back to Top
Source	Description
Uniprot	TISSUE SPECIFICITY: Expressed in roots, stems and leaves. {ECO:0000269\|PubMed:10806347, ECO:0000269\|PubMed:15333755, ECO:0000269\|PubMed:8662738, ECO:0000269\|PubMed:9132053}.

Functional Description ? help Back to Top
Source	Description
UniProt	Transcriptional repressor involved in abiotic stress responses. Can repress the stress responsive genes DREB1A and LTI78. Probably involved in jasmonate (JA) early signaling response. May regulate the expression of the JA biosynthesis gene LOX3 and control the expression of TIFY10A/JAZ1, a key repressor in the JA signaling cascade. {ECO:0000269\|PubMed:12032082, ECO:0000269\|PubMed:15333755, ECO:0000269\|PubMed:17112521, ECO:0000269\|PubMed:18216250, ECO:0000269\|PubMed:20140232, ECO:0000269\|PubMed:8662738}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Solyc12g088390.1.1

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: By salt, cold and drought stresses. Down-regulated by gibberellin. {ECO:0000269\|PubMed:10806347, ECO:0000269\|PubMed:11351099, ECO:0000269\|PubMed:12837949, ECO:0000269\|PubMed:15333755, ECO:0000269\|PubMed:17112521, ECO:0000269\|PubMed:8662738}.

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	AC234112	0.0	Solanum lycopersicum chromosome 12 clone LE_HBa-95O18, complete sequence

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_004252818.1	1e-148	zinc finger protein ZAT10-like
Swissprot	Q96289	1e-44	ZAT10_ARATH; Zinc finger protein ZAT10
TrEMBL	M1DNM6	1e-114	M1DNM6_SOLTU; Uncharacterized protein
STRING	Solyc12g088390.1.1	1e-148	(Solanum lycopersicum)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Asterids	OGEA735	24	95
Representative plant	OGRP131	15	149

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G27730.1	2e-41	salt tolerance zinc finger

Link Out ? help Back to Top
Phytozome	Solyc12g088390.1.1
Entrez Gene	101254884

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] Li C,Chang PP,Ghebremariam KM,Qin L,Liang Y Overexpression of tomato SpMPK3 gene in Arabidopsis enhances the osmotic tolerance. Biochem. Biophys. Res. Commun., 2014. 443(2): p. 357-62 [PMID:24275141] Ding Y, et al. Four distinct types of dehydration stress memory genes in Arabidopsis thaliana. BMC Plant Biol., 2013. 13: p. 229 [PMID:24377444] Shi H,Chan Z The cysteine2/histidine2-type transcription factor ZINC FINGER OF ARABIDOPSIS THALIANA 6-activated C-REPEAT-BINDING FACTOR pathway is essential for melatonin-mediated freezing stress resistance in Arabidopsis. J. Pineal Res., 2014. 57(2): p. 185-91 [PMID:24962049] Munekage YN,Inoue S,Yoneda Y,Yokota A Distinct palisade tissue development processes promoted by leaf autonomous signalling and long-distance signalling in Arabidopsis thaliana. Plant Cell Environ., 2015. 38(6): p. 1116-26 [PMID:25293694] van Buer J,Cvetkovic J,Baier M Cold regulation of plastid ascorbate peroxidases serves as a priming hub controlling ROS signaling in Arabidopsis thaliana. BMC Plant Biol., 2016. 16(1): p. 163 [PMID:27439459] Corrales AR, et al. Multifaceted role of cycling DOF factor 3 (CDF3) in the regulation of flowering time and abiotic stress responses in Arabidopsis. Plant Cell Environ., 2017. 40(5): p. 748-764 [PMID:28044345] Nguyen HM, et al. Ethanol Enhances High-Salinity Stress Tolerance by Detoxifying Reactive Oxygen Species in Arabidopsis thaliana and Rice. Front Plant Sci, 2017. 8: p. 1001 [PMID:28717360] Geilen K,Heilmann M,Hillmer S,Böhmer M WRKY43 regulates polyunsaturated fatty acid content and seed germination under unfavourable growth conditions. Sci Rep, 2017. 7(1): p. 14235 [PMID:29079824] Liu X, et al. Histone Deacetylase AtSRT1 Links Metabolic Flux and Stress Response in Arabidopsis. Mol Plant, 2017. 10(12): p. 1510-1522 [PMID:29107034] Huang K, et al. Arabidopsis calcium-dependent protein kinase AtCPK1 plays a positive role in salt/drought-stress response. Biochem. Biophys. Res. Commun., 2018. 498(1): p. 92-98 [PMID:29196259]