PlantTFDB - Plant Transcription Factor Database @ CBI, PKU

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; BOP clade; Oryzoideae; Oryzeae; Oryzinae; Oryza

Family

C2H2

Protein Properties

Length: 354aa MW: 37854.9 Da PI: 9.8614

Description

C2H2 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
OB01G19120.1	genome	OGE	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-C2H2	19.3	3.1e-06	14	36	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 ++C++Cgk F r nL+ H r H OB01G19120.1 14 FVCEICGKGFQRDQNLQLHRRGH 36 89*******************88 PP
2	zf-C2H2	13.3	0.00024	90	112	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 +kC +C+k++ +s+ k H +t+ OB01G19120.1 90 WKCDKCSKRYAVQSDWKAHSKTC 112 58*****************9998 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Gene3D	G3DSA:3.30.160.60	2.9E-6	7	36	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamily	SSF57667	1.27E-7	12	36	No hit	No description
PROSITE profile	PS50157	11.614	14	36	IPR007087	Zinc finger, C2H2
SMART	SM00355	0.012	14	36	IPR015880	Zinc finger, C2H2-like
PROSITE pattern	PS00028	0	16	36	IPR007087	Zinc finger, C2H2
SMART	SM00355	260	55	85	IPR015880	Zinc finger, C2H2-like
Gene3D	G3DSA:3.30.160.60	1.5E-4	78	111	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamily	SSF57667	1.27E-7	85	110	No hit	No description
SMART	SM00355	140	90	110	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: 354 aa Download sequence Send to blast
MAVVVVVQTR RRRFVCEICG KGFQRDQNLQ LHRRGHNLPW KLRQRSGKEP RKRVYVCPEK 60 SCVHHNPSRA LGDLTGIKKH FCRKHGEKKW KCDKCSKRYA VQSDWKAHSK TCGTREYRCD 120 CGTLFSSHFL LSPWHAQRSR DALPPMSHIG VLANGGVAPV PPQLYADLFA PGSGAPPQFD 180 AAQLSWLYGN GKLSSSNSSE LTSATAAAAA AAKEAEDSVP SVFSNQQHAK PAAPTDMSAT 240 ALLQKAAQIG AVTSTAAVPL VGAFEPTKSG ATASPADAFG KFDGAAMFAA SHHNANLGSA 300 MSELTAAAGN VPYDVLSAVR HAGLKDAGVG REETRDFLGV GVQALCSSSI HGWI

Sequence ? help Back to Top

Protein Sequence Length: 354 aa Download sequence Send to blast

MAVVVVVQTR RRRFVCEICG KGFQRDQNLQ LHRRGHNLPW KLRQRSGKEP RKRVYVCPEK  60
SCVHHNPSRA LGDLTGIKKH FCRKHGEKKW KCDKCSKRYA VQSDWKAHSK TCGTREYRCD  120
CGTLFSSHFL LSPWHAQRSR DALPPMSHIG VLANGGVAPV PPQLYADLFA PGSGAPPQFD  180
AAQLSWLYGN GKLSSSNSSE LTSATAAAAA AAKEAEDSVP SVFSNQQHAK PAAPTDMSAT  240
ALLQKAAQIG AVTSTAAVPL VGAFEPTKSG ATASPADAFG KFDGAAMFAA SHHNANLGSA  300
MSELTAAAGN VPYDVLSAVR HAGLKDAGVG REETRDFLGV GVQALCSSSI HGWI

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5b3h_C	6e-21	86	126	3	43	Zinc finger protein JACKDAW
5b3h_F	6e-21	86	126	3	43	Zinc finger protein JACKDAW
Search in ModeBase

Functional Description ? help Back to Top
Source	Description
UniProt	Transcription activator that binds to the DNA sequence 5'-CTTTTGTCC-3' (PubMed:21265895, PubMed:25929516). Regulates photoperiodic flowering by modulating sugar transport and metabolism (PubMed:21265895, PubMed:25929516). Regulates SUS1 and SUS4 (PubMed:21265895). Transcription factor that regulates tissue boundaries and asymmetric cell division (PubMed:25829440). Contributes to the sequestration of 'SHORT-ROOT' to the nucleus (PubMed:25829440). {ECO:0000269\|PubMed:21265895, ECO:0000269\|PubMed:25829440, ECO:0000269\|PubMed:25929516}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	OB01G19120.1

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: Up-regulated by 'SHORT-ROOT' (SHR)(PubMed:16640459). Strongly down-regulated by sugar deprivation, but not regulated by day-length. {ECO:0000269\|PubMed:16640459}.

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	CP012609	0.0	CP012609.1 Oryza sativa Indica Group cultivar RP Bio-226 chromosome 1 sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_015699276.1	0.0	PREDICTED: zinc finger protein NUTCRACKER-like
Swissprot	Q9FFH3	5e-93	IDD8_ARATH; Zinc finger protein NUTCRACKER
TrEMBL	J3KY56	0.0	J3KY56_ORYBR; Uncharacterized protein
STRING	OB01G19120.1	0.0	(Oryza brachyantha)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Monocots	OGMP202	38	320

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G03840.2	6e-76	C2H2 family protein

Publications ? help Back to Top
Moreno-Risueno MA, et al. Transcriptional control of tissue formation throughout root development. Science, 2015. 350(6259): p. 426-30 [PMID:26494755] Long Y, et al. In vivo FRET-FLIM reveals cell-type-specific protein interactions in Arabidopsis roots. Nature, 2017. 548(7665): p. 97-102 [PMID:28746306]