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; Camelineae; Arabidopsis

Family

AP2

Protein Properties

Length: 346aa MW: 38671.5 Da PI: 9.6964

Description

AP2 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
AT3G54990.1	genome	TAIR	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	AP2	56.1	9.4e-18	121	170	1	55
AP2 1 sgykGVrwdkkrgrWvAeIrdpsengkr.krfslgkfgtaeeAakaaiaarkkleg 55 s+y+GV++++++grW+++I+d + k+++lg f+ta+ Aa+a+++a+ k++g AT3G54990.1 121 SQYRGVTFYRRTGRWESHIWD------CgKQVYLGGFDTAYAAARAYDRAAIKFRG 170 78*****************......55**********************998 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF54171	2.42E-15	121	178	IPR016177	DNA-binding domain
Pfam	PF00847	1.9E-9	121	170	IPR001471	AP2/ERF domain
PROSITE profile	PS51032	17.332	122	178	IPR001471	AP2/ERF domain
Gene3D	G3DSA:3.30.730.10	1.8E-16	122	177	IPR001471	AP2/ERF domain
SMART	SM00380	1.6E-29	122	184	IPR001471	AP2/ERF domain
CDD	cd00018	3.61E-11	122	177	No hit	No description

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0006355	Biological Process	regulation of transcription, DNA-templated
GO:0007275	Biological Process	multicellular organism development
GO:0009658	Biological Process	chloroplast organization
GO:0009873	Biological Process	ethylene-activated signaling pathway
GO:0005634	Cellular Component	nucleus
GO:0003677	Molecular Function	DNA binding
GO:0003700	Molecular Function	transcription factor activity, sequence-specific DNA binding

Plant Ontology ? help Back to Top
PO Term	PO Category	PO Description
PO:0000037	anatomy	shoot apex
PO:0000293	anatomy	guard cell
PO:0009005	anatomy	root
PO:0009006	anatomy	shoot system
PO:0009009	anatomy	plant embryo
PO:0009010	anatomy	seed
PO:0009025	anatomy	vascular leaf
PO:0009029	anatomy	stamen
PO:0009030	anatomy	carpel
PO:0009031	anatomy	sepal
PO:0009032	anatomy	petal
PO:0009046	anatomy	flower
PO:0009047	anatomy	stem
PO:0009052	anatomy	flower pedicel
PO:0020030	anatomy	cotyledon
PO:0020038	anatomy	petiole
PO:0020100	anatomy	hypocotyl
PO:0025022	anatomy	collective leaf structure
PO:0001078	developmental stage	plant embryo cotyledonary stage
PO:0001185	developmental stage	plant embryo globular stage
PO:0004507	developmental stage	plant embryo bilateral stage
PO:0007095	developmental stage	LP.08 eight leaves visible stage
PO:0007103	developmental stage	LP.10 ten leaves visible stage
PO:0007115	developmental stage	LP.04 four leaves visible stage
PO:0007123	developmental stage	LP.06 six leaves visible stage
PO:0007611	developmental stage	petal differentiation and expansion stage
PO:0007616	developmental stage	flowering stage

Sequence ? help Back to Top
Protein Sequence Length: 346 aa Download sequence Send to blast
MLDLNLKIFS SYNEDQDRKV PLMISTTGEE ESNSSSSSTT DSAARDAFIA FGILKRDDDL 60 VPPPPPPPHK ETGDLFPVVA DARRNIEFSV EDSHWLNLSS LQRNTQKMVK KSRRGPRSRS 120 SQYRGVTFYR RTGRWESHIW DCGKQVYLGG FDTAYAAARA YDRAAIKFRG LDADINFVVD 180 DYRHDIDKMK NLNKVEFVQT LRRESASFGR GSSKYKGLAL QKCTQFKTHD QIHLFQNRGW 240 DAAAIKYNEL GKGEGAMKFG AHIKGNGHND LELSLGISSS SESIKLTTGD YYKGINRSTM 300 GLYGKQSSIF LPMATMKPLK TVAASSGFPF ISMTSSSSSM SNCFDP

Sequence ? help Back to Top

Protein Sequence Length: 346 aa Download sequence Send to blast

MLDLNLKIFS SYNEDQDRKV PLMISTTGEE ESNSSSSSTT DSAARDAFIA FGILKRDDDL  60
VPPPPPPPHK ETGDLFPVVA DARRNIEFSV EDSHWLNLSS LQRNTQKMVK KSRRGPRSRS  120
SQYRGVTFYR RTGRWESHIW DCGKQVYLGG FDTAYAAARA YDRAAIKFRG LDADINFVVD  180
DYRHDIDKMK NLNKVEFVQT LRRESASFGR GSSKYKGLAL QKCTQFKTHD QIHLFQNRGW  240
DAAAIKYNEL GKGEGAMKFG AHIKGNGHND LELSLGISSS SESIKLTTGD YYKGINRSTM  300
GLYGKQSSIF LPMATMKPLK TVAASSGFPF ISMTSSSSSM SNCFDP

Expression -- Microarray ? help Back to Top
Source	ID	E-value
GEO	79445477	0.0
Genevisible	251811_at	0.0
Expression Atlas	AT3G54990	-
AtGenExpress	AT3G54990	-
ATTED-II	AT3G54990	-

Functional Description ? help Back to Top
Source	Description
TAIR	Encodes a AP2 domain transcription factor that can repress flowering. SMZ and its paralogous gene, SNARCHZAPFEN (SNZ), share a signature with partial complementarity to the miR172 microRNA, whose precursor is induced upon flowering.
UniProt	Probably acts as a transcriptional activator. Binds to the GCC-box pathogenesis-related promoter element. May be involved in the regulation of gene expression by stress factors and by components of stress signal transduction pathways (By similarity). Repressor of flowering. {ECO:0000250, ECO:0000269\|PubMed:14573523}.

Function -- GeneRIF ? help Back to Top
Expression of SMZ is developmentally regulated and tissue specific. SMZ represses flowering (via FT and other genes) under long-day photoperiod; SMZ repression of flowering is dependent on FLM but independent of FLC. SMZ represses FT transcription. [PMID: 19582143] Repressors of flowering time belonging to the AP2-type transcription factor family including SCHLAFMUTZE (SMZ) and SCHNARCHZAPFEN (SNZ) are important regulators of flowering time in response to nitrate. The results support a model whereby nitrate activates SMZ and SNZ via the gibberellin pathway to repress flowering time in Arabidopsis thaliana. [PMID: 29309650]

Binding Motif ? help Back to Top
Motif ID	Method	Source	Motif file
MP00075	ChIP-chip	26531826	Download

Cis-element ? help Back to Top
Source	Link
PlantRegMap	AT3G54990.1

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: Repressed by miR172 after photoperiod changement. {ECO:0000269\|PubMed:14573523}.

Regulation -- PlantRegMap ? help Back to Top
Source	Upstream Regulator	Target Gene
PlantRegMap	Retrieve	Retrieve

Regulation -- MicroRNA ? help Back to Top
Source	Description
miRTarBase	Regulated by ath-miR172b

Phenotype -- Mutation ? help Back to Top
Source	ID
T-DNA Express	AT3G54990

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	AY576275	0.0	AY576275.1 Arabidopsis thaliana AP2 domain transcription factor (SMZ) mRNA, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	NP_191059.2	0.0	Integrase-type DNA-binding superfamily protein
Swissprot	Q6PV68	0.0	SMZ_ARATH; AP2-like ethylene-responsive transcription factor SMZ
TrEMBL	A0A178VF64	0.0	A0A178VF64_ARATH; SMZ
STRING	AT3G54990.1	0.0	(Arabidopsis thaliana)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM10858	18	32
Representative plant	OGRP497	17	84

Link Out ? help Back to Top
Phytozome	AT3G54990.1
Entrez Gene	824664
iHOP	AT3G54990
wikigenes	AT3G54990

Publications ? help Back to Top
Krizek BA,Prost V,Macias A AINTEGUMENTA promotes petal identity and acts as a negative regulator of AGAMOUS. Plant Cell, 2000. 12(8): p. 1357-66 [PMID:10948255] Riechmann JL, et al. Arabidopsis transcription factors: genome-wide comparative analysis among eukaryotes. Science, 2000. 290(5499): p. 2105-10 [PMID:11118137] Zik M,Irish VF Global identification of target genes regulated by APETALA3 and PISTILLATA floral homeotic gene action. Plant Cell, 2003. 15(1): p. 207-22 [PMID:12509532] Schmid M, et al. Dissection of floral induction pathways using global expression analysis. Development, 2003. 130(24): p. 6001-12 [PMID:14573523] Scheible WR, et al. Genome-wide reprogramming of primary and secondary metabolism, protein synthesis, cellular growth processes, and the regulatory infrastructure of Arabidopsis in response to nitrogen. Plant Physiol., 2004. 136(1): p. 2483-99 [PMID:15375205] Nole-Wilson S,Tranby TL,Krizek BA AINTEGUMENTA-like (AIL) genes are expressed in young tissues and may specify meristematic or division-competent states. Plant Mol. Biol., 2005. 57(5): p. 613-28 [PMID:15988559] Kim S,Soltis PS,Wall K,Soltis DE Phylogeny and domain evolution in the APETALA2-like gene family. Mol. Biol. Evol., 2006. 23(1): p. 107-20 [PMID:16151182] Nakano T,Suzuki K,Fujimura T,Shinshi H Genome-wide analysis of the ERF gene family in Arabidopsis and rice. Plant Physiol., 2006. 140(2): p. 411-32 [PMID:16407444] Glazińska P,Zienkiewicz A,Wojciechowski W,Kopcewicz J The putative miR172 target gene InAPETALA2-like is involved in the photoperiodic flower induction of Ipomoea nil. J. Plant Physiol., 2009. 166(16): p. 1801-13 [PMID:19560230] Mathieu J,Yant LJ,Mürdter F,Küttner F,Schmid M Repression of flowering by the miR172 target SMZ. PLoS Biol., 2009. 7(7): p. e1000148 [PMID:19582143] Yant L, et al. Orchestration of the floral transition and floral development in Arabidopsis by the bifunctional transcription factor APETALA2. Plant Cell, 2010. 22(7): p. 2156-70 [PMID:20675573] Ruckle ME,Burgoon LD,Lawrence LA,Sinkler CA,Larkin RM Plastids are major regulators of light signaling in Arabidopsis. Plant Physiol., 2012. 159(1): p. 366-90 [PMID:22383539] Gras DE, et al. SMZ/SNZ and gibberellin signaling are required for nitrate-elicited delay of flowering time in Arabidopsis thaliana. J. Exp. Bot., 2018. 69(3): p. 619-631 [PMID:29309650] Ohme-Takagi M,Shinshi H Ethylene-inducible DNA binding proteins that interact with an ethylene-responsive element. Plant Cell, 1995. 7(2): p. 173-82 [PMID:7756828] Jofuku KD,den Boer BG,Van Montagu M,Okamuro JK Control of Arabidopsis flower and seed development by the homeotic gene APETALA2. Plant Cell, 1994. 6(9): p. 1211-25 [PMID:7919989] Okamuro JK,Caster B,Villarroel R,Van Montagu M,Jofuku KD The AP2 domain of APETALA2 defines a large new family of DNA binding proteins in Arabidopsis. Proc. Natl. Acad. Sci. U.S.A., 1997. 94(13): p. 7076-81 [PMID:9192694]