PlantTFDB - Plant Transcription Factor Database @ CBI, PKU

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; basal Magnoliophyta; Amborellales; Amborellaceae; Amborella

Family

C2H2

Protein Properties

Length: 650aa MW: 69415.8 Da PI: 7.3173

Description

C2H2 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
evm_27.model.AmTr_v1.0_scaffold00044.11	genome	TAGP	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-C2H2	15.7	4.3e-05	66	88	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 ++C+ C k F r nL+ H r H evm_27.model.AmTr_v1.0_scaffold00044.11 66 FVCEVCEKGFQREQNLQLHRRGH 88 89*******************88 PP
2	zf-C2H2	12.5	0.00045	142	164	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 +kC++C+k + s+ k H +t+ evm_27.model.AmTr_v1.0_scaffold00044.11 142 FKCEKCSKKYAVLSDWKAHTKTC 164 89*******************98 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Gene3D	G3DSA:3.30.160.60	3.7E-5	65	88	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamily	SSF57667	2.95E-7	65	88	No hit	No description
PROSITE profile	PS50157	10.866	66	88	IPR007087	Zinc finger, C2H2
SMART	SM00355	0.01	66	88	IPR015880	Zinc finger, C2H2-like
PROSITE pattern	PS00028	0	68	88	IPR007087	Zinc finger, C2H2
SMART	SM00355	190	107	137	IPR015880	Zinc finger, C2H2-like
Gene3D	G3DSA:3.30.160.60	8.4E-5	130	163	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamily	SSF57667	2.95E-7	137	162	No hit	No description
SMART	SM00355	120	142	162	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: 650 aa Download sequence Send to blast
MAAGSPLLGC FEEDQSSLAS KNHLNTSSAN SSSSAGNNPA QKRKRNHPNA EVIRLSPEEL 60 LATNRFVCEV CEKGFQREQN LQLHRRGHNL PWKLKAKSTK EARKKVYPCP EPTCVHHDDS 120 RALGDLTGIK KHYCRKHGEK KFKCEKCSKK YAVLSDWKAH TKTCGTREYK CDCGTIFSRR 180 DCFLSHRAFC DALAQETSKV PIALNTTGSN LYNSLGLGLS NVGSSISSLL DQNPNGGNNP 240 QIQGLGRNGA PQSFESLISP SNQAFFPSST IQTSFNENSQ NNGLLQNRSP SNSSNGFLQF 300 PQNNTSPSSI NMFVPSIFSN GPSNGYYTSD SFNYTTQSDV SSMFSSNFMS DPLGSSVSSL 360 LSQRILGESL FPHMSATSLL QKAEEMGGTS SRIGVSFPPK NANFISGSSG IQTVANLSSG 420 SETMIQKFTD FSSGSEAIQK VTNYSSGKDG FQKVANFSPG SEGIQSAANF SSAAEGFQKV 480 LNFGGGNEGI QKVPNFNGGG QGLQKVSNLS GGSEGLGEQL ENNQSHLLEL IESFTNGSSS 540 IFGGISGGLM TPPANFGGGY AMGNDEQDSG IGAYSEPNFS TLEQTVQADL HLTLAGDILT 600 RDFLGIGGVA TSFQSAISDG LNMASLEAEV KPGMFRGEKL GVRENWNHV*

Sequence ? help Back to Top

Protein Sequence Length: 650 aa Download sequence Send to blast

MAAGSPLLGC FEEDQSSLAS KNHLNTSSAN SSSSAGNNPA QKRKRNHPNA EVIRLSPEEL  60
LATNRFVCEV CEKGFQREQN LQLHRRGHNL PWKLKAKSTK EARKKVYPCP EPTCVHHDDS  120
RALGDLTGIK KHYCRKHGEK KFKCEKCSKK YAVLSDWKAH TKTCGTREYK CDCGTIFSRR  180
DCFLSHRAFC DALAQETSKV PIALNTTGSN LYNSLGLGLS NVGSSISSLL DQNPNGGNNP  240
QIQGLGRNGA PQSFESLISP SNQAFFPSST IQTSFNENSQ NNGLLQNRSP SNSSNGFLQF  300
PQNNTSPSSI NMFVPSIFSN GPSNGYYTSD SFNYTTQSDV SSMFSSNFMS DPLGSSVSSL  360
LSQRILGESL FPHMSATSLL QKAEEMGGTS SRIGVSFPPK NANFISGSSG IQTVANLSSG  420
SETMIQKFTD FSSGSEAIQK VTNYSSGKDG FQKVANFSPG SEGIQSAANF SSAAEGFQKV  480
LNFGGGNEGI QKVPNFNGGG QGLQKVSNLS GGSEGLGEQL ENNQSHLLEL IESFTNGSSS  540
IFGGISGGLM TPPANFGGGY AMGNDEQDSG IGAYSEPNFS TLEQTVQADL HLTLAGDILT  600
RDFLGIGGVA TSFQSAISDG LNMASLEAEV KPGMFRGEKL GVRENWNHV*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5b3h_C	7e-30	138	200	3	65	Zinc finger protein JACKDAW
5b3h_F	7e-30	138	200	3	65	Zinc finger protein JACKDAW
Search in ModeBase

Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	92	104	KLKAKSTKEARKK

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}.
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}.

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 -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_011627572.1	0.0	protein indeterminate-domain 2 isoform X2
Swissprot	Q8GYC1	6e-99	IDD4_ARATH; Protein indeterminate-domain 4, chloroplastic
Swissprot	Q9ZUL3	8e-99	IDD5_ARATH; Protein indeterminate-domain 5, chloroplastic
TrEMBL	U5D6M3	0.0	U5D6M3_AMBTC; Uncharacterized protein
STRING	ERN17042	0.0	(Amborella trichopoda)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Representative plant	OGRP95	16	242

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT2G02070.1	3e-85	indeterminate(ID)-domain 5

Link Out ? help Back to Top
Phytozome	evm_27.model.AmTr_v1.0_scaffold00044.11

Publications ? help Back to Top
Amborella Genome Project The Amborella genome and the evolution of flowering plants. Science, 2013. 342(6165): p. 1241089 [PMID:24357323] Moreno-Risueno MA, et al. Transcriptional control of tissue formation throughout root development. Science, 2015. 350(6259): p. 426-30 [PMID:26494755]