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; Boechereae; Boechera

Family

C2H2

Protein Properties

Length: 598aa MW: 64095.3 Da PI: 9.2057

Description

C2H2 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Bostr.0556s0033.1.p	genome	JGI	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	82	104	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 + C+ C+k F r nL+ H r H Bostr.0556s0033.1.p 82 FICEVCNKGFQREQNLQLHRRGH 104 89*******************88 PP
2	zf-C2H2	12.5	0.00046	158	180	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 +kC +C+k++ +s+ k H +t+ Bostr.0556s0033.1.p 158 WKCDKCSKRYAVQSDWKAHSKTC 180 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	6.7E-6	81	104	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamily	SSF57667	2.74E-7	81	104	No hit	No description
PROSITE profile	PS50157	10.99	82	104	IPR007087	Zinc finger, C2H2
SMART	SM00355	0.0052	82	104	IPR015880	Zinc finger, C2H2-like
Pfam	PF12171	2.9E-5	82	104	IPR022755	Zinc finger, double-stranded RNA binding
PROSITE pattern	PS00028	0	84	104	IPR007087	Zinc finger, C2H2
SMART	SM00355	110	123	153	IPR015880	Zinc finger, C2H2-like
Gene3D	G3DSA:3.30.160.60	4.0E-5	146	179	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamily	SSF57667	2.74E-7	153	178	No hit	No description
SMART	SM00355	140	158	178	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: 598 aa Download sequence Send to blast
MAASSSSPAS FFGVRQDDQS HLLPPNSSAA APSPPPHLQP PPPPPPLEAP PQKKKRNQPR 60 TPNSDAEVIA LSPKTLMATN RFICEVCNKG FQREQNLQLH RRGHNLPWKL KQKSTKEVKR 120 KVYLCPEPSC VHHDPSRALG DLTGIKKHYY RKHGEKKWKC DKCSKRYAVQ SDWKAHSKTC 180 GTKEYRCDCG TLFSRRDSFI THRAFCDALA QESARHPTSL TSLPSHHFPY GQNTNNSNNN 240 TSSMILGLSH MGAPQNLDHH SGDVLRLGSG GGGAASRSSS DLIAANPSGY FMQEQNPSFH 300 DQQDHHHHHQ QGFLAANSNI KPSSMSFQQN LMQFSHDNHN SASSNLFNLS FLSGNNGVTS 360 ATSNPNAAAA AAVSSGNLMI SNHYDGETAV EGGGEGSTGL FPNNLMSSAD RISSGSVPSL 420 FSSSMQNPNS APHMSATALL QKAAQMGSTS SNNNNGSNNN NNNNASSILR SFGSGMYGEN 480 ESNLQDLMNS FSNPGATGNV NGVDSPFGSY GGVNKGLSAD KQSMTRDFLG VGQIVRSMSG 540 SGGFQQQQQQ QQQQHHGNSR ERVGSSSDSA DRSSMNVNTG GGPASTSPPY GIHHASF*

Sequence ? help Back to Top

Protein Sequence Length: 598 aa Download sequence Send to blast

MAASSSSPAS FFGVRQDDQS HLLPPNSSAA APSPPPHLQP PPPPPPLEAP PQKKKRNQPR  60
TPNSDAEVIA LSPKTLMATN RFICEVCNKG FQREQNLQLH RRGHNLPWKL KQKSTKEVKR  120
KVYLCPEPSC VHHDPSRALG DLTGIKKHYY RKHGEKKWKC DKCSKRYAVQ SDWKAHSKTC  180
GTKEYRCDCG TLFSRRDSFI THRAFCDALA QESARHPTSL TSLPSHHFPY GQNTNNSNNN  240
TSSMILGLSH MGAPQNLDHH SGDVLRLGSG GGGAASRSSS DLIAANPSGY FMQEQNPSFH  300
DQQDHHHHHQ QGFLAANSNI KPSSMSFQQN LMQFSHDNHN SASSNLFNLS FLSGNNGVTS  360
ATSNPNAAAA AAVSSGNLMI SNHYDGETAV EGGGEGSTGL FPNNLMSSAD RISSGSVPSL  420
FSSSMQNPNS APHMSATALL QKAAQMGSTS SNNNNGSNNN NNNNASSILR SFGSGMYGEN  480
ESNLQDLMNS FSNPGATGNV NGVDSPFGSY GGVNKGLSAD KQSMTRDFLG VGQIVRSMSG  540
SGGFQQQQQQ QQQQHHGNSR ERVGSSSDSA DRSSMNVNTG GGPASTSPPY GIHHASF*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5b3h_C	3e-33	154	215	3	64	Zinc finger protein JACKDAW
5b3h_F	3e-33	154	215	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	Bostr.0556s0033.1.p

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	AJ621495	0.0	AJ621495.1 Arabidopsis thaliana mRNA for ID1-like zinc finger protein 2 (idz2 gene).
GenBank	AY056174	0.0	AY056174.1 Arabidopsis thaliana putative C2H2-type zinc finger protein (At2g02070) mRNA, complete cds.
GenBank	BT001215	0.0	BT001215.1 Arabidopsis thaliana putative C2H2-type zinc finger protein (At2g02070) mRNA, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_010502220.1	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	Bostr.0556s0033.1.p	0.0	(Boechera stricta)

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

Link Out ? help Back to Top
Phytozome	Bostr.0556s0033.1.p

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]