PlantTFDB - Plant Transcription Factor Database @ CBI, PKU

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; PACMAD clade; Panicoideae; Andropogonodae; Andropogoneae; Tripsacinae; Zea

Family

C2H2

Protein Properties

Length: 588aa MW: 61136.2 Da PI: 8.4494

Description

C2H2 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
GRMZM2G129261_P03	genome	MaizeSequence	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-C2H2	17.2	1.4e-05	84	106	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 ++C+ C+k F r nL+ H r H GRMZM2G129261_P03 84 FVCEVCNKGFQREQNLQLHRRGH 106 89*******************88 PP
2	zf-C2H2	11.6	0.00086	161	183	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 +kC +C+k++ +s+ k H + + GRMZM2G129261_P03 161 WKCDKCSKRYAVQSDWKAHSKIC 183 58*****************9876 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Gene3D	G3DSA:3.30.160.60	8.1E-6	83	106	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamily	SSF57667	1.67E-7	83	106	No hit	No description
Pfam	PF12171	3.8E-5	84	106	IPR022755	Zinc finger, double-stranded RNA binding
PROSITE profile	PS50157	11.094	84	106	IPR007087	Zinc finger, C2H2
SMART	SM00355	0.0041	84	106	IPR015880	Zinc finger, C2H2-like
PROSITE pattern	PS00028	0	86	106	IPR007087	Zinc finger, C2H2
Gene3D	G3DSA:3.30.160.60	4.0E-4	149	182	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamily	SSF57667	1.67E-7	156	181	No hit	No description
SMART	SM00355	140	161	181	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: 588 aa Download sequence Send to blast
MASNSSAAFF GVRDGDQQDQ IKPLISPQQQ LAAALPGVAG GVPAASGQGA PPAQPPPKKK 60 RTMPDPDAEV IALSPKTLMA TNRFVCEVCN KGFQREQNLQ LHRRGHNLPW KLKQKNPLQA 120 QRRRVYLCPE PTCVHHDPAR ALGDLTGIKK HFCRKHGEKK WKCDKCSKRY AVQSDWKAHS 180 KICGTREYRC DCGTLFSRRD SFITHRAFCD ALAQESARLP PTSLSSLTSH LYGATSTGNM 240 ALSLSQVGSH LTSTLQDGHH HHPSAELLRL GATAGGGSSI AARLDHLLSP NGASAFRPPQ 300 GPPSSASFFL NAGASVGPDF GDDVGNGPHS FLQGNKPFHG LMQLPDLQGN GAGGPGGSGP 360 SLFNLSFFAN NGNSSGSSHE HASQGLMNNN DHFNGGAGGG GGGSEASEAG IFGGNFVGGG 420 DQVPPPGLYS DQASMLPQMS ATALLQKAAQ MGATSSANGG AASMFRGFVG SSPHVRPATP 480 HMEQSDANLN DLMNSLAGGG VGAGGMFGSS NGAGGPGMFD PRQLCDMEHE VKFGHGGGDM 540 TRDFLGVGGG GIVRGISTPR GDHQSSSDMS SLEAEMKSAS SFNGGRMP

Sequence ? help Back to Top

Protein Sequence Length: 588 aa Download sequence Send to blast

MASNSSAAFF GVRDGDQQDQ IKPLISPQQQ LAAALPGVAG GVPAASGQGA PPAQPPPKKK  60
RTMPDPDAEV IALSPKTLMA TNRFVCEVCN KGFQREQNLQ LHRRGHNLPW KLKQKNPLQA  120
QRRRVYLCPE PTCVHHDPAR ALGDLTGIKK HFCRKHGEKK WKCDKCSKRY AVQSDWKAHS  180
KICGTREYRC DCGTLFSRRD SFITHRAFCD ALAQESARLP PTSLSSLTSH LYGATSTGNM  240
ALSLSQVGSH LTSTLQDGHH HHPSAELLRL GATAGGGSSI AARLDHLLSP NGASAFRPPQ  300
GPPSSASFFL NAGASVGPDF GDDVGNGPHS FLQGNKPFHG LMQLPDLQGN GAGGPGGSGP  360
SLFNLSFFAN NGNSSGSSHE HASQGLMNNN DHFNGGAGGG GGGSEASEAG IFGGNFVGGG  420
DQVPPPGLYS DQASMLPQMS ATALLQKAAQ MGATSSANGG AASMFRGFVG SSPHVRPATP  480
HMEQSDANLN DLMNSLAGGG VGAGGMFGSS NGAGGPGMFD PRQLCDMEHE VKFGHGGGDM  540
TRDFLGVGGG GIVRGISTPR GDHQSSSDMS SLEAEMKSAS SFNGGRMP

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5b3h_C	6e-35	157	226	3	70	Zinc finger protein JACKDAW
5b3h_F	6e-35	157	226	3	70	Zinc finger protein JACKDAW
Search in ModeBase

Expression -- UniGene ? help Back to Top
UniGene ID	E-value	Expressed in
Zm.6242	0.0	aerial organ\| embryo\| endosperm\| meristem\| shoot

Expression -- Microarray ? help Back to Top
Source	ID
Expression Atlas	GRMZM2G129261

Expression -- Description ? help Back to Top
Source	Description
Uniprot	TISSUE SPECIFICITY: Highly expressed in leaf tissues. {ECO:0000305\|PubMed:22898356}.

Functional Description ? help Back to Top
Source	Description
UniProt	Transcription factor acting as a positive regulator of the starch synthase SS4. Controls chloroplast development and starch granule formation (PubMed:22898356). 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:22898356, ECO:0000269\|PubMed:24821766}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	GRMZM2G129261_P03

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	AY754866	0.0	AY754866.1 Zea mays INDETERMINATE-related protein 9 mRNA, complete cds.
GenBank	BT064120	0.0	BT064120.1 Zea mays full-length cDNA clone ZM_BFc0139A11 mRNA, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	NP_001338648.1	0.0	uncharacterized protein LOC542199
Refseq	XP_008668634.1	0.0	uncharacterized protein LOC542199 isoform X1
Refseq	XP_008668635.1	0.0	uncharacterized protein LOC542199 isoform X1
Swissprot	Q9ZUL3	1e-116	IDD5_ARATH; Protein indeterminate-domain 5, chloroplastic
TrEMBL	Q5UDB6	0.0	Q5UDB6_MAIZE; INDETERMINATE-related protein 9
STRING	GRMZM2G129261_P01	0.0	(Zea mays)

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT3G50700.1	1e-101	indeterminate(ID)-domain 2

Link Out ? help Back to Top
Phytozome	GRMZM2G129261_P03
Entrez Gene	542199

Publications ? help Back to Top
Colasanti J, et al. The maize INDETERMINATE1 flowering time regulator defines a highly conserved zinc finger protein family in higher plants. BMC Genomics, 2006. 7: p. 158 [PMID:16784536] Moreno-Risueno MA, et al. Transcriptional control of tissue formation throughout root development. Science, 2015. 350(6259): p. 426-30 [PMID:26494755]