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; Brassiceae; Brassica

Family

C2H2

Protein Properties

Length: 499aa MW: 54098.2 Da PI: 9.5813

Description

C2H2 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
XP_013613031.1	genome	NCBI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-C2H2	14.9	7.5e-05	83	105	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 + C C+k F r nL+ H r H XP_013613031.1 83 FICDVCKKGFQREQNLQLHRRGH 105 89*******************88 PP
2	zf-C2H2	12.8	0.00037	159	181	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 +kC +C+k++ +s+ k H +t+ XP_013613031.1 159 WKCDKCSKRYAVQSDWKAHSKTC 181 58*****************9998 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF57667	2.48E-7	82	105	No hit	No description
Pfam	PF13912	9.8E-5	82	105	IPR007087	Zinc finger, C2H2
Gene3D	G3DSA:3.30.160.60	6.1E-5	82	105	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SMART	SM00355	0.014	83	105	IPR015880	Zinc finger, C2H2-like
PROSITE profile	PS50157	10.616	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	3.2E-5	147	180	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamily	SSF57667	2.48E-7	154	179	No hit	No description
SMART	SM00355	140	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: 499 aa Download sequence Send to blast
MASSSYNASV VPSSSSSAQP FFLTGSGVGE NDFGQKDTFV SMIQQPNSSA PLPKKRRNQP 60 GNPNPDAEVV ALSPKTIMAT NRFICDVCKK GFQREQNLQL HRRGHNLPWK LKQKSTKEVK 120 RKVYLCPEPT CVHHDPSRAL GDLTGIKKHY YRKHGEKKWK CDKCSKRYAV QSDWKAHSKT 180 CGTKEYRCDC GTIFSRRDSY ITHRAFCDAL IQETARNPTL SFTSMEAASS GAGSGGLYGR 240 LDGGRTLSHH HLSGHPNSGF SPLAGYNLNI ASSENSRHFV PQTSNPNFLI QSSQGMLTVP 300 NNNDQSFMNH QGLNQFDPVN NINSKSSTNN SFFNLGFFQE NIKNSETSLP SLYSSDVLVH 360 RPEESLNVGS NVSATALLQK ATQMGSITSN DPSALLRGLA SSSSNDFGGG QIMGNDNNGN 420 LQGLMNSLVA VNGGGAGGSG CNIFDVHFGN NGNMSGSDKL TLDFLGVGGM VRNVNRGRGR 480 GGDVGELKFS EQNHPFGRS

Sequence ? help Back to Top

Protein Sequence Length: 499 aa Download sequence Send to blast

MASSSYNASV VPSSSSSAQP FFLTGSGVGE NDFGQKDTFV SMIQQPNSSA PLPKKRRNQP  60
GNPNPDAEVV ALSPKTIMAT NRFICDVCKK GFQREQNLQL HRRGHNLPWK LKQKSTKEVK  120
RKVYLCPEPT CVHHDPSRAL GDLTGIKKHY YRKHGEKKWK CDKCSKRYAV QSDWKAHSKT  180
CGTKEYRCDC GTIFSRRDSY ITHRAFCDAL IQETARNPTL SFTSMEAASS GAGSGGLYGR  240
LDGGRTLSHH HLSGHPNSGF SPLAGYNLNI ASSENSRHFV PQTSNPNFLI QSSQGMLTVP  300
NNNDQSFMNH QGLNQFDPVN NINSKSSTNN SFFNLGFFQE NIKNSETSLP SLYSSDVLVH  360
RPEESLNVGS NVSATALLQK ATQMGSITSN DPSALLRGLA SSSSNDFGGG QIMGNDNNGN  420
LQGLMNSLVA VNGGGAGGSG CNIFDVHFGN NGNMSGSDKL TLDFLGVGGM VRNVNRGRGR  480
GGDVGELKFS EQNHPFGRS

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5b3h_C	8e-34	155	221	3	69	Zinc finger protein JACKDAW
5b3h_F	8e-34	155	221	3	69	Zinc finger protein JACKDAW
Search in ModeBase

Functional Description ? help Back to Top
Source	Description
UniProt	Transcription factor that may act a transcriptional activator of nuclear-encoded photosynthetic gene expression (Probable). 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:24821766, ECO:0000305\|PubMed:19726569}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	XP_013613031.1

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: Down-regulated by gibberellin. {ECO:0000305\|PubMed:17933900}.

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	AK117733	0.0	AK117733.1 Arabidopsis thaliana At2g02080 mRNA for putative C2H2-type zinc finger protein, complete cds, clone: RAFL17-41-L01.
GenBank	BT005897	0.0	BT005897.1 Arabidopsis thaliana At2g02080 gene, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_013613030.1	0.0	PREDICTED: protein indeterminate-domain 4, chloroplastic
Refseq	XP_013613031.1	0.0	PREDICTED: protein indeterminate-domain 4, chloroplastic
Swissprot	Q8GYC1	0.0	IDD4_ARATH; Protein indeterminate-domain 4, chloroplastic
TrEMBL	A0A0D3E7J1	0.0	A0A0D3E7J1_BRAOL; Uncharacterized protein
STRING	Bo9g071570.1	0.0	(Brassica oleracea)

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT2G02080.1	0.0	indeterminate(ID)-domain 4

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]