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

C2H2

Protein Properties

Length: 657aa MW: 68007.6 Da PI: 7.9918

Description

C2H2 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Solyc02g062940.2.1	genome	ITAG	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-C2H2	16.8	1.9e-05	56	78	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 ++C++C+k F r nL+ H r H Solyc02g062940.2.1 56 FVCEICNKGFQRDQNLQLHRRGH 78 89*******************88 PP
2	zf-C2H2	16.9	1.8e-05	132	154	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 +kC +C+k + +s+Lk H++ + Solyc02g062940.2.1 132 WKCDKCSKKYAVQSDLKAHLKIC 154 58******************987 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Gene3D	G3DSA:3.30.160.60	2.3E-5	55	78	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamily	SSF57667	6.99E-8	55	78	No hit	No description
SMART	SM00355	0.017	56	78	IPR015880	Zinc finger, C2H2-like
Pfam	PF12874	0.0028	56	78	No hit	No description
PROSITE profile	PS50157	10.949	56	78	IPR007087	Zinc finger, C2H2
PROSITE pattern	PS00028	0	58	78	IPR007087	Zinc finger, C2H2
SMART	SM00355	230	97	127	IPR015880	Zinc finger, C2H2-like
Gene3D	G3DSA:3.30.160.60	2.2E-5	120	153	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamily	SSF57667	6.99E-8	127	152	No hit	No description
SMART	SM00355	38	132	152	IPR015880	Zinc finger, C2H2-like
PROSITE profile	PS50157	8.871	132	160	IPR007087	Zinc finger, C2H2

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0003676	Molecular Function	nucleic acid binding
GO:0046872	Molecular Function	metal ion binding

Sequence ? help Back to Top
Protein Sequence Length: 657 aa Download sequence Send to blast
MNDCVGSGEV SVLSSGDQTA PCKEAAKKKR NLPGMPDPNA EVVALSPKTL LATNRFVCEI 60 CNKGFQRDQN LQLHRRGHNL PWKLRQRSSN EVRKRVYVCP ETTCVHHDPS RALGDLTGIK 120 KHFCRKHGEK KWKCDKCSKK YAVQSDLKAH LKICGTKEYK CDCGTMFSRR DSFITHRAFC 180 DVLAKDTEKA QNAVTTPIAE EDLKVQVDVS STPQTPRTPP PSSEPPAVPS PAAPEPLPPP 240 GSPSTAVVSS DSPIQHPESP HTNSNGTITK HDIEETTAKS RLSGICSSSS CTGCTNSNCF 300 TSLTGICSSS WSSSSNGSTS NSSIFSSLTG ICSSTRSSSS NGSTGSISVF PSLSGICSNS 360 RSSSSNGSTQ SSSIFSSSTG ICSSSIFPSS TGICSGSSIF ASSTGIYSNS SSLSSNRSTS 420 GSSIFTSLTG ICSSSSNSSS NSTFASLFAS STASGSLPSQ APQFTDWFQS VAPSPPPDIE 480 PPSSMEPISL CLAMNHGSSV FGSTGQERMQ YAAAPQPSMS ATALLQKAAQ MGATATNSSL 540 LRGLGILSSS SSSSGQHEWN GRQIDTDGAT LAAGLGLGLP CDDGSGLKEL MLGTPSVFGP 600 KHPTLDLLGL GMAAGGGSTP GLSALITSMG GNLDVAAAAR PFDSGEFCGK EFGRSS*

Sequence ? help Back to Top

Protein Sequence Length: 657 aa Download sequence Send to blast

MNDCVGSGEV SVLSSGDQTA PCKEAAKKKR NLPGMPDPNA EVVALSPKTL LATNRFVCEI  60
CNKGFQRDQN LQLHRRGHNL PWKLRQRSSN EVRKRVYVCP ETTCVHHDPS RALGDLTGIK  120
KHFCRKHGEK KWKCDKCSKK YAVQSDLKAH LKICGTKEYK CDCGTMFSRR DSFITHRAFC  180
DVLAKDTEKA QNAVTTPIAE EDLKVQVDVS STPQTPRTPP PSSEPPAVPS PAAPEPLPPP  240
GSPSTAVVSS DSPIQHPESP HTNSNGTITK HDIEETTAKS RLSGICSSSS CTGCTNSNCF  300
TSLTGICSSS WSSSSNGSTS NSSIFSSLTG ICSSTRSSSS NGSTGSISVF PSLSGICSNS  360
RSSSSNGSTQ SSSIFSSSTG ICSSSIFPSS TGICSGSSIF ASSTGIYSNS SSLSSNRSTS  420
GSSIFTSLTG ICSSSSNSSS NSTFASLFAS STASGSLPSQ APQFTDWFQS VAPSPPPDIE  480
PPSSMEPISL CLAMNHGSSV FGSTGQERMQ YAAAPQPSMS ATALLQKAAQ MGATATNSSL  540
LRGLGILSSS SSSSGQHEWN GRQIDTDGAT LAAGLGLGLP CDDGSGLKEL MLGTPSVFGP  600
KHPTLDLLGL GMAAGGGSTP GLSALITSMG GNLDVAAAAR PFDSGEFCGK EFGRSS*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5b3h_C	2e-29	128	186	3	61	Zinc finger protein JACKDAW
5b3h_F	2e-29	128	186	3	61	Zinc finger protein JACKDAW
Search in ModeBase

Expression -- UniGene ? help Back to Top
UniGene ID	E-value	Expressed in
Les.18429	7e-53	fruit

Expression -- Description ? help Back to Top
Source	Description
Uniprot	DEVELOPMENTAL STAGE: Strongly up-regulated during seed development. {ECO:0000269\|PubMed:21571950}.
Uniprot	TISSUE SPECIFICITY: At 3 days post anthesis (DPA), expressed in the chalazal endosperm region. By 6 DPA, expressed in the endosperm and embryo. In fully germinated seed, strongest expression in the root tip and not detected in the cotyledons. In 4-days old seedlings, restricted to the vasculature of the cotyledons, the shoot apical meristem region, and the root tip. By 8 days, restricted to newly emerged leaves. {ECO:0000269\|PubMed:21571950}.

Functional Description ? help Back to Top
Source	Description
UniProt	Transcription factor promoting the transition to germination by regulating light and hormonal signaling during seed maturation (PubMed:21571950). Acts as a positive regulator of phytochrome and/or gibberellin action (PubMed:21571950, PubMed:25035403). {ECO:0000269\|PubMed:21571950, ECO:0000269\|PubMed:25035403}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Solyc02g062940.2.1

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	AC174607	0.0	Solanum lycopersicum, complete sequence

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_004233509.1	0.0	protein indeterminate-domain 1-like
Swissprot	Q9LVQ7	1e-113	IDD1_ARATH; Zinc finger protein ENHYDROUS
TrEMBL	A0A3Q7EZH3	0.0	A0A3Q7EZH3_SOLLC; Uncharacterized protein
STRING	Solyc02g062940.2.1	0.0	(Solanum lycopersicum)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Asterids	OGEA103	24	350
Representative plant	OGRP95	16	242

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT5G66730.1	5e-97	C2H2-like zinc finger protein

Link Out ? help Back to Top
Phytozome	Solyc02g062940.2.1
Entrez Gene	101262076

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] Fukazawa J, et al. DELLAs function as coactivators of GAI-ASSOCIATED FACTOR1 in regulation of gibberellin homeostasis and signaling in Arabidopsis. Plant Cell, 2014. 26(7): p. 2920-38 [PMID:25035403] Moreno-Risueno MA, et al. Transcriptional control of tissue formation throughout root development. Science, 2015. 350(6259): p. 426-30 [PMID:26494755]