PlantTFDB - Plant Transcription Factor Database @ CBI, PKU

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Malpighiales; Salicaceae; Saliceae; Populus

Family

C2H2

Protein Properties

Length: 483aa MW: 52650.2 Da PI: 9.0778

Description

C2H2 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
CCG010051.1	genome	LZU	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-C2H2	15.7	4.3e-05	70	90	3	23
ETTTTEEESSHHHHHHHHHHT CS zf-C2H2 3 CpdCgksFsrksnLkrHirtH 23 C++Cgk F r nL+ H r H CCG010051.1 70 CEICGKGFQRDQNLQLHRRGH 90 *******************88 PP
2	zf-C2H2	13.4	0.00022	144	166	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 +kC++C+k++ +s+ k H +t+ CCG010051.1 144 WKCEKCSKRYAVQSDWKAHSKTC 166 58*****************9998 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF57667	9.04E-7	67	90	No hit	No description
Gene3D	G3DSA:3.30.160.60	4.2E-5	67	90	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SMART	SM00355	0.076	68	90	IPR015880	Zinc finger, C2H2-like
PROSITE profile	PS50157	11.489	68	90	IPR007087	Zinc finger, C2H2
PROSITE pattern	PS00028	0	70	90	IPR007087	Zinc finger, C2H2
SMART	SM00355	250	109	139	IPR015880	Zinc finger, C2H2-like
Gene3D	G3DSA:3.30.160.60	1.6E-4	132	165	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamily	SSF57667	9.04E-7	139	164	No hit	No description
SMART	SM00355	130	144	164	IPR015880	Zinc finger, C2H2-like

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0010150	Biological Process	leaf senescence
GO:0045893	Biological Process	positive regulation of transcription, DNA-templated
GO:0048510	Biological Process	regulation of timing of transition from vegetative to reproductive phase
GO:0048573	Biological Process	photoperiodism, flowering
GO:0005634	Cellular Component	nucleus
GO:0044212	Molecular Function	transcription regulatory region DNA binding
GO:0046872	Molecular Function	metal ion binding

Sequence ? help Back to Top
Protein Sequence Length: 483 aa Download sequence Send to blast
MSGNIMAAEE AITSSYNGSV ENPVDGSNLP VLKKKRNLPG TPGKLASLYP EAEVIALSPK 60 TLMATNRFLC EICGKGFQRD QNLQLHRRGH NLPWKLKQRT NKEVRKRVYV CPEKTCVHNH 120 PSRALGDLTG IKKHFCRKHG EKKWKCEKCS KRYAVQSDWK AHSKTCGTRE YKCDCGTLFS 180 RRDSFITHRA FCDALAEETA RVNAVSSIRN STAGNISYHL TGNPLGPNMA QHFSSIFKPI 240 QSNDRHTRQG GLSLWMSQGG VPHASEAMGN NIQEIHQIGA MTSSGALFGD PHAVSCSSTL 300 PSDHYQLNWP VFGNKISSNN AHEELTSTLG LPLSNVKEAA AASQLVSVPS LYSTQQQQSH 360 QTTSANMSAT ALLQKATQIG ATSTDPSFLG CFGLKSFSTT AQDGNNKFCG LYGSSPISTN 420 PASDMENSGN DEIPTLNQLQ MYSAKRQKIF QSDQDSPAGG QTRDFLGVGV QAICHPSSIN 480 GWI

Sequence ? help Back to Top

Protein Sequence Length: 483 aa Download sequence Send to blast

MSGNIMAAEE AITSSYNGSV ENPVDGSNLP VLKKKRNLPG TPGKLASLYP EAEVIALSPK  60
TLMATNRFLC EICGKGFQRD QNLQLHRRGH NLPWKLKQRT NKEVRKRVYV CPEKTCVHNH  120
PSRALGDLTG IKKHFCRKHG EKKWKCEKCS KRYAVQSDWK AHSKTCGTRE YKCDCGTLFS  180
RRDSFITHRA FCDALAEETA RVNAVSSIRN STAGNISYHL TGNPLGPNMA QHFSSIFKPI  240
QSNDRHTRQG GLSLWMSQGG VPHASEAMGN NIQEIHQIGA MTSSGALFGD PHAVSCSSTL  300
PSDHYQLNWP VFGNKISSNN AHEELTSTLG LPLSNVKEAA AASQLVSVPS LYSTQQQQSH  360
QTTSANMSAT ALLQKATQIG ATSTDPSFLG CFGLKSFSTT AQDGNNKFCG LYGSSPISTN  420
PASDMENSGN DEIPTLNQLQ MYSAKRQKIF QSDQDSPAGG QTRDFLGVGV QAICHPSSIN  480
GWI

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5b3h_C	1e-36	140	206	3	69	Zinc finger protein JACKDAW
5b3h_F	1e-36	140	206	3	69	Zinc finger protein JACKDAW
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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}.
UniProt	Transcription factor that regulates tissue boundaries and asymmetric cell division (PubMed:17785527, PubMed:25829440). Contributes to the sequestration of 'SHORT-ROOT' to the nucleus (PubMed:17785527, PubMed:25829440). Interacts with the SCR and MGP promoters (PubMed:21935722). Does not show transcription activity by itself, but regulates the transcription of downstream genes through interaction with other transcription factors (PubMed:21935722). 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). Positively involved in gibberellic acid (GA) signaling (PubMed:24821766). {ECO:0000269\|PubMed:17785527, ECO:0000269\|PubMed:21935722, ECO:0000269\|PubMed:24821766, ECO:0000269\|PubMed:25829440}.

Binding Motif ? help Back to Top
Motif ID	Method	Source	Motif file
MP00125	DAP	Transfer from AT1G03840	Download

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}.
UniProt	INDUCTION: Up-regulated by the transcription factor JKD, and down-regulated by SHR, SCR and itself. {ECO:0000269\|PubMed:21935722}.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_011047708.1	0.0	PREDICTED: zinc finger protein NUTCRACKER-like
Swissprot	Q9FFH3	1e-149	IDD8_ARATH; Zinc finger protein NUTCRACKER
Swissprot	Q9ZWA6	1e-148	IDD3_ARATH; Zinc finger protein MAGPIE
TrEMBL	U5G9H1	0.0	U5G9H1_POPTR; Uncharacterized protein
STRING	POPTR_0007s01380.1	0.0	(Populus trichocarpa)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Fabids	OGEF4626	29	51

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G03840.1	1e-148	C2H2 family protein

Publications ? help Back to Top
Muñoz-Strale D,León G Identification of two highly specific pollen promoters using transcriptomic data. Plant Physiol. Biochem., 2014. 83: p. 292-9 [PMID:25208507] 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]