PlantTFDB - Plant Transcription Factor Database @ CBI, PKU

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Brassicaceae incertae sedis; Schrenkiella

Family

C2H2

Protein Properties

Length: 521aa MW: 56366.4 Da PI: 9.6733

Description

C2H2 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Tp2g13500	genome	thellungiella	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-C2H2	14.9	7.9e-05	83	105	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 + C C+k F r nL+ H r H Tp2g13500 83 FICDVCKKGFQREQNLQLHRRGH 105 89*******************88 PP
2	zf-C2H2	13.3	0.00024	159	181	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 +kC++C+k++ +s+ k H +t+ Tp2g13500 159 WKCEKCSKRYAVQSDWKAHSKTC 181 58*****************9998 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF57667	4.07E-7	82	105	No hit	No description
Gene3D	G3DSA:3.30.160.60	6.4E-5	82	105	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SMART	SM00355	0.014	83	105	IPR015880	Zinc finger, C2H2-like
PROSITE profile	PS50157	10.616	83	105	IPR007087	Zinc finger, C2H2
PROSITE pattern	PS00028	0	85	105	IPR007087	Zinc finger, C2H2
SMART	SM00355	110	124	154	IPR015880	Zinc finger, C2H2-like
Gene3D	G3DSA:3.30.160.60	2.3E-5	147	180	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamily	SSF57667	4.07E-7	154	179	No hit	No description
SMART	SM00355	130	159	179	IPR015880	Zinc finger, C2H2-like

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: 521 aa Download sequence Send to blast
MSSSSYNTTV VPSSSSSAQP FFLTGSGAGD NDFDRKDTFM SMIQQPNSSA PPPKKRRNQP 60 GNPNPDAEVV ALSPKTLMAT NRFICDVCKK GFQREQNLQL HRRGHNLPWK LKQKSTKEVK 120 RKVYLCPEPT CVHHDPSRAL GDLTGIKKHY YRKHGEKKWK CEKCSKRYAV QSDWKAHSKT 180 CGTKEYRCDC GTIFSRRDSY ITHRAFCDAL IQESVRNPTV SFTSMASAGS GAGSGGFYGR 240 LDGGNALSHH HLNDHPNSGF SPLAGYNLNI ASSENSRDFV PQTSNPNFLI QCSSSQGMLA 300 VPNNSNNNNN DQSFMNQQGL IQFDPVNNIN FKNSTNNSFF NLGFFQENTK NSETSLPSLY 360 STDGLVHRRE ESLNASSNVS ATALLQKATQ MGSITSNDPS GLFRGFASSS NPSSVVVNDF 420 GGGQIMGNDN NGNLQGLMNS LVAVNGGGAG GSGGNIFDVH FGNNGNMSGS DKLTLDFLGV 480 GGMVRNVNRG GGGGGRGRGR GDVSLDGKLK FPEQNHPFGR P

Sequence ? help Back to Top

Protein Sequence Length: 521 aa Download sequence Send to blast

MSSSSYNTTV VPSSSSSAQP FFLTGSGAGD NDFDRKDTFM SMIQQPNSSA PPPKKRRNQP  60
GNPNPDAEVV ALSPKTLMAT NRFICDVCKK GFQREQNLQL HRRGHNLPWK LKQKSTKEVK  120
RKVYLCPEPT CVHHDPSRAL GDLTGIKKHY YRKHGEKKWK CEKCSKRYAV QSDWKAHSKT  180
CGTKEYRCDC GTIFSRRDSY ITHRAFCDAL IQESVRNPTV SFTSMASAGS GAGSGGFYGR  240
LDGGNALSHH HLNDHPNSGF SPLAGYNLNI ASSENSRDFV PQTSNPNFLI QCSSSQGMLA  300
VPNNSNNNNN DQSFMNQQGL IQFDPVNNIN FKNSTNNSFF NLGFFQENTK NSETSLPSLY  360
STDGLVHRRE ESLNASSNVS ATALLQKATQ MGSITSNDPS GLFRGFASSS NPSSVVVNDF  420
GGGQIMGNDN NGNLQGLMNS LVAVNGGGAG GSGGNIFDVH FGNNGNMSGS DKLTLDFLGV  480
GGMVRNVNRG GGGGGRGRGR GDVSLDGKLK FPEQNHPFGR P

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5b3h_C	2e-33	155	221	3	69	Zinc finger protein JACKDAW
5b3h_F	2e-33	155	221	3	69	Zinc finger protein JACKDAW
Search in ModeBase

Functional Description ? help Back to Top
Source	Description
UniProt	Transcription factor that may act a transcriptional activator of nuclear-encoded photosynthetic gene expression (Probable). Binds DNA via its zinc fingers (PubMed:24821766). Recognizes and binds to SCL3 promoter sequence 5'-AGACAA-3' to promotes its expression when in complex with RGA (PubMed:24821766). {ECO:0000269\|PubMed:24821766, ECO:0000305\|PubMed:19726569}.

Binding Motif ? help Back to Top
Motif ID	Method	Source	Motif file
MP00256	DAP	Transfer from AT2G02080	Download

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Tp2g13500

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: Down-regulated by gibberellin. {ECO:0000305\|PubMed:17933900}.

Regulation -- PlantRegMap ? help Back to Top
Source	Upstream Regulator	Target Gene
PlantRegMap	Retrieve	Retrieve

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	HM222924	0.0	HM222924.1 Thellungiella parvula phosphatase, cyclin J18, clathrin assembly protein-related protein, BPC1, SGR5/ATIDD15, leucine-rich receptor kinase, endomemebrane protein 70, salt overly sensitive 1, glutamate decarboxylae 4, oligopeptide transport protein, peptide transporter, and NADH-ubiquinone oxidoreductase B18 genes, complete cds; and unknown genes.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_006290880.1	0.0	protein indeterminate-domain 4, chloroplastic
Refseq	XP_023638726.1	0.0	protein indeterminate-domain 4, chloroplastic
Refseq	XP_023638727.1	0.0	protein indeterminate-domain 4, chloroplastic
Swissprot	Q8GYC1	0.0	IDD4_ARATH; Protein indeterminate-domain 4, chloroplastic
TrEMBL	E5F711	0.0	E5F711_9BRAS; Uncharacterized protein
STRING	XP_006290879.1	0.0	(Capsella rubella)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM3678	17	59

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT2G02080.1	0.0	indeterminate(ID)-domain 4

Publications ? help Back to Top
Oh DH, et al. Genome structures and halophyte-specific gene expression of the extremophile Thellungiella parvula in comparison with Thellungiella salsuginea (Thellungiella halophila) and Arabidopsis. Plant Physiol., 2010. 154(3): p. 1040-52 [PMID:20833729] Moreno-Risueno MA, et al. Transcriptional control of tissue formation throughout root development. Science, 2015. 350(6259): p. 426-30 [PMID:26494755]