PlantTFDB - Plant Transcription Factor Database @ CBI, PKU

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Rosales; Rosaceae; Maloideae; Amygdaleae; Prunus

Family

C2H2

Protein Properties

Length: 628aa MW: 67446.8 Da PI: 8.7095

Description

C2H2 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
XP_008220979.1	genome	BGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-C2H2	16.1	3.3e-05	74	96	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 + C+ C+k F r nL+ H r H XP_008220979.1 74 FICEVCNKGFQREQNLQLHRRGH 96 89*******************88 PP
2	zf-C2H2	13	0.0003	150	172	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 +kC++C+k++ +s+ k H +t+ XP_008220979.1 150 WKCEKCSKRYAVQSDWKAHSKTC 172 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	7.1E-6	73	96	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamily	SSF57667	1.89E-7	73	96	No hit	No description
PROSITE profile	PS50157	10.99	74	96	IPR007087	Zinc finger, C2H2
Pfam	PF12171	3.1E-5	74	96	IPR022755	Zinc finger, double-stranded RNA binding
SMART	SM00355	0.0052	74	96	IPR015880	Zinc finger, C2H2-like
PROSITE pattern	PS00028	0	76	96	IPR007087	Zinc finger, C2H2
SMART	SM00355	160	115	145	IPR015880	Zinc finger, C2H2-like
Gene3D	G3DSA:3.30.160.60	7.7E-5	138	171	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamily	SSF57667	1.89E-7	145	170	No hit	No description
SMART	SM00355	130	150	170	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: 628 aa Download sequence Send to blast
MAASSSSVEP LFGIREEDQN QQMKQQHSST PPTSSTAAAA APPQKKKRNQ PGTPNPEAEV 60 IALSPKTLMA TNRFICEVCN KGFQREQNLQ LHRRGHNLPW KLKQKTTKEP KRKVYLCPEP 120 TCVHHDPSRA LGDLTGIKKH FSRKHGEKKW KCEKCSKRYA VQSDWKAHSK TCGTREYRCD 180 CGTLFSRRDS FITHRAFCDA LAQESARHPP SLSTIGSSLY GGSLSNTGLG LSHQVVGPPQ 240 ISSLQQDHSQ SSTAADILRL GGAGAAGAAR TGQFDHLLGS SFRPAAQSSA SFFLTAADQS 300 TQQQYHDHDQ DKSFQGLMQF SDNHHHHHHH LHQNNNNSNN PPHHHSAGAN LFSLPFLSNN 360 TTNTTNNNNS ATNNNLLISP DHFNTNVNGT TTAAGGSEGS HNLFSGHIVG GDHISTGIPS 420 LYSTNSNINN NNQQQQQQHA SMAHMSATAL LQKAAQMGST NSSNNTTASL LRSFGSSSSA 480 TAKSDRPGAL VPSSLGGMFG SDQHDQSHLQ DLMNSFANTG GSSIFANASF GGYDAAAANR 540 AINMEETKLQ QQNSLGVSNI GGADRLTRDF LGVGQVVRSM SGGFSHQRSE HHSEQQHGMD 600 MSSLDSESNA AAAAAPSSQS FGGGGNFQ

Sequence ? help Back to Top

Protein Sequence Length: 628 aa Download sequence Send to blast

MAASSSSVEP LFGIREEDQN QQMKQQHSST PPTSSTAAAA APPQKKKRNQ PGTPNPEAEV  60
IALSPKTLMA TNRFICEVCN KGFQREQNLQ LHRRGHNLPW KLKQKTTKEP KRKVYLCPEP  120
TCVHHDPSRA LGDLTGIKKH FSRKHGEKKW KCEKCSKRYA VQSDWKAHSK TCGTREYRCD  180
CGTLFSRRDS FITHRAFCDA LAQESARHPP SLSTIGSSLY GGSLSNTGLG LSHQVVGPPQ  240
ISSLQQDHSQ SSTAADILRL GGAGAAGAAR TGQFDHLLGS SFRPAAQSSA SFFLTAADQS  300
TQQQYHDHDQ DKSFQGLMQF SDNHHHHHHH LHQNNNNSNN PPHHHSAGAN LFSLPFLSNN  360
TTNTTNNNNS ATNNNLLISP DHFNTNVNGT TTAAGGSEGS HNLFSGHIVG GDHISTGIPS  420
LYSTNSNINN NNQQQQQQHA SMAHMSATAL LQKAAQMGST NSSNNTTASL LRSFGSSSSA  480
TAKSDRPGAL VPSSLGGMFG SDQHDQSHLQ DLMNSFANTG GSSIFANASF GGYDAAAANR  540
AINMEETKLQ QQNSLGVSNI GGADRLTRDF LGVGQVVRSM SGGFSHQRSE HHSEQQHGMD  600
MSSLDSESNA AAAAAPSSQS FGGGGNFQ

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5b3h_C	2e-33	146	207	3	64	Zinc finger protein JACKDAW
5b3h_F	2e-33	146	207	3	64	Zinc finger protein JACKDAW
Search in ModeBase

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}.

Binding Motif ? help Back to Top
Motif ID	Method	Source	Motif file
MP00255	DAP	Transfer from AT2G02070	Download

Cis-element ? help Back to Top
Source	Link
PlantRegMap	XP_008220979.1

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	AM455095	1e-122	AM455095.1 Vitis vinifera contig VV78X055432.12, whole genome shotgun sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_008220979.1	0.0	PREDICTED: protein indeterminate-domain 5, chloroplastic
Refseq	XP_016648019.1	0.0	PREDICTED: protein indeterminate-domain 5, chloroplastic
Swissprot	Q9ZUL3	1e-139	IDD5_ARATH; Protein indeterminate-domain 5, chloroplastic
TrEMBL	M5XVM9	0.0	M5XVM9_PRUPE; Uncharacterized protein
STRING	XP_008220979.1	0.0	(Prunus mume)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Fabids	OGEF1536	33	97

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT2G02070.1	1e-114	indeterminate(ID)-domain 5

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]