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: 603aa MW: 64619.8 Da PI: 9.3515

Description

C2H2 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Tp2g13490	genome	thellungiella	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-C2H2	16.1	3.1e-05	83	105	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 + C+ C+k F r nL+ H r H Tp2g13490 83 FICEVCNKGFQREQNLQLHRRGH 105 89*******************88 PP
2	zf-C2H2	13.1	0.00029	159	181	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 +kC++C+k++ +s+ k H +t+ Tp2g13490 159 WKCEKCSKRYAVQSDWKAHSKTC 181 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	6.8E-6	82	105	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamily	SSF57667	3.71E-7	82	105	No hit	No description
Pfam	PF12171	3.0E-5	83	105	IPR022755	Zinc finger, double-stranded RNA binding
SMART	SM00355	0.0052	83	105	IPR015880	Zinc finger, C2H2-like
PROSITE profile	PS50157	10.99	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	2.8E-5	147	180	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamily	SSF57667	3.71E-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: 603 aa Download sequence Send to blast
MAASSSSAAS FFGVRQDDQS HLLPPNSSAA APPPPPHHQP PQPQQVPLEA PPQKKKRNQP 60 RTPNSDAEVI ALSPKTLMAT NRFICEVCNK GFQREQNLQL HRRGHNLPWK LKQKSTKEVK 120 RKVYLCPEPT CVHHDPSRAL GDLTGIKKHY YRKHGEKKWK CEKCSKRYAV QSDWKAHSKT 180 CGTKEYRCDC GTLFSRRDSF ITHRAFCDAL AQESARHPTS LTSLPSHHFP YGQNTNNSNN 240 NTSSMILGLS HMGAPQNLDH QSGDVLRLGS GGGGGGGAAS RSSSDLIAAN ASGYFMQEQT 300 PGFHDQQDHH HHQHQQQGFL AASNNMKPSS MNFQQSLMQF SHDSHNSPSS NPFNLSFLSG 360 NNAVASATSN PNAGAVSSGN LMISNHFDGE NAVGGGGGGE GSTGLFPNNL MSSADRISSG 420 AVPSLFSSSM QNPNSTPHMS ATALLQKAAQ MGSTSSNNNN NGSNNSNNNN ASSILRSFGS 480 GMYGENESNL HDLMNSFSNP GATGNNVNGV DSPFGSYGGV NKGLNADKQS MTRDFLGVGQ 540 IVRSMSGSGG FQQQQQQQQQ QHGNNSRERV GSSSDSADRN SMNVNPGGGP ASSPPYGIHH 600 ASF

Sequence ? help Back to Top

Protein Sequence Length: 603 aa Download sequence Send to blast

MAASSSSAAS FFGVRQDDQS HLLPPNSSAA APPPPPHHQP PQPQQVPLEA PPQKKKRNQP  60
RTPNSDAEVI ALSPKTLMAT NRFICEVCNK GFQREQNLQL HRRGHNLPWK LKQKSTKEVK  120
RKVYLCPEPT CVHHDPSRAL GDLTGIKKHY YRKHGEKKWK CEKCSKRYAV QSDWKAHSKT  180
CGTKEYRCDC GTLFSRRDSF ITHRAFCDAL AQESARHPTS LTSLPSHHFP YGQNTNNSNN  240
NTSSMILGLS HMGAPQNLDH QSGDVLRLGS GGGGGGGAAS RSSSDLIAAN ASGYFMQEQT  300
PGFHDQQDHH HHQHQQQGFL AASNNMKPSS MNFQQSLMQF SHDSHNSPSS NPFNLSFLSG  360
NNAVASATSN PNAGAVSSGN LMISNHFDGE NAVGGGGGGE GSTGLFPNNL MSSADRISSG  420
AVPSLFSSSM QNPNSTPHMS ATALLQKAAQ MGSTSSNNNN NGSNNSNNNN ASSILRSFGS  480
GMYGENESNL HDLMNSFSNP GATGNNVNGV DSPFGSYGGV NKGLNADKQS MTRDFLGVGQ  540
IVRSMSGSGG FQQQQQQQQQ QHGNNSRERV GSSSDSADRN SMNVNPGGGP ASSPPYGIHH  600
ASF

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5b3h_C	8e-34	155	216	3	64	Zinc finger protein JACKDAW
5b3h_F	8e-34	155	216	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	Tp2g13490

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_009123129.1	0.0	PREDICTED: protein indeterminate-domain 5, chloroplastic-like
Swissprot	Q9ZUL3	0.0	IDD5_ARATH; Protein indeterminate-domain 5, chloroplastic
TrEMBL	A0A397Y3X1	0.0	A0A397Y3X1_BRACM; Uncharacterized protein
STRING	Bra040974.1-P	0.0	(Brassica rapa)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM4373	26	54

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT2G02070.1	0.0	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]