PlantTFDB - Plant Transcription Factor Database @ CBI, PKU

PlantRegMap/PlantTFDB v5.0

Plant Transcription Factor Database

Transcription Factor Information

Basic Information | Signature Domain | Sequence |

Basic Information? help Back to Top

TF ID

AT2G39250.1

Common Name

SNZ, T16B24.11

Organism

Arabidopsis thaliana

Taxonomic ID

3702

Taxonomic Lineage

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: 325aa MW: 36440.4 Da PI: 9.2457

Description

AP2 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
AT2G39250.1	genome	TAIR	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	AP2	55.7	1.2e-17	107	156	1	55
AP2 1 sgykGVrwdkkrgrWvAeIrdpsengkr.krfslgkfgtaeeAakaaiaarkkleg 55 s+y+GV++++++grW+++I+d + k+++lg f+ta+ Aa+a+++a+ +++g AT2G39250.1 107 SHYRGVTFYRRTGRWESHIWD------CgKQVYLGGFDTAYTAARAYDRAAIRFRG 156 79*****************......55**********************997 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF54171	5.17E-15	107	164	IPR016177	DNA-binding domain
Pfam	PF00847	1.4E-9	107	156	IPR001471	AP2/ERF domain
CDD	cd00018	1.68E-23	108	163	No hit	No description
SMART	SM00380	7.6E-29	108	170	IPR001471	AP2/ERF domain
PROSITE profile	PS51032	16.766	108	164	IPR001471	AP2/ERF domain
Gene3D	G3DSA:3.30.730.10	1.9E-16	108	163	IPR001471	AP2/ERF domain

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:0009873	Biological Process	ethylene-activated signaling pathway
GO:0005730	Cellular Component	nucleolus
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:0000013	anatomy	cauline leaf
PO:0000037	anatomy	shoot apex
PO:0000293	anatomy	guard cell
PO:0008019	anatomy	leaf lamina base
PO:0009006	anatomy	shoot system
PO:0009025	anatomy	vascular leaf
PO:0009047	anatomy	stem
PO:0020030	anatomy	cotyledon
PO:0020100	anatomy	hypocotyl
PO:0001054	developmental stage	vascular leaf senescent stage
PO:0007098	developmental stage	LP.02 two leaves visible stage
PO:0007115	developmental stage	LP.04 four leaves visible stage
PO:0007123	developmental stage	LP.06 six leaves visible stage

Sequence ? help Back to Top
Protein Sequence Length: 325 aa Download sequence Send to blast
MLDLNLGILS THNEDEDCKV PTSIFIQEED SINPSNDNLS LITFGILKRN VEILPPPPPP 60 PPPPPPSENE LSGPGNEWLD LSSMQRNKQE TLVMKKKSRR GPRSRSSHYR GVTFYRRTGR 120 WESHIWDCGK QVYLGGFDTA YTAARAYDRA AIRFRGLQAD INFIVDDYKQ DIEKMKNLSK 180 EEFVQSLRRA SASLARGGSK YKNTHMRNDH IHLFQNRGLN AAAAKCNEIR KMEGDIKLGA 240 HSKGNEHNDL ELSLGISSSS KVRILEPADY YMGLNRSVTS LHGKPLPGYL PITEIKPLKT 300 VVASSGFPFI TMINPSSLSL SCFDP

Expression -- UniGene ? help Back to Top
UniGene ID	E-value	Expressed in
At.27296	0.0	leaf

Expression -- Microarray ? help Back to Top
Source	ID	E-value
GEO	79594950	0.0
Genevisible	267010_at	0.0
Expression Atlas	AT2G39250	-
AtGenExpress	AT2G39250	-
ATTED-II	AT2G39250	-

Functional Description ? help Back to Top
Source	Description
TAIR	Encodes a AP2 domain transcription factor that can repress flowering. SNZ and its paralogous gene, SCHLAFMUTZE (SMZ), 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
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]

Cis-element ? help Back to Top
Source	Link
PlantRegMap	AT2G39250.1

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	-

Interaction ? help Back to Top
Source	Intact With
IntAct	Search Q6PV67

Phenotype -- Mutation ? help Back to Top
Source	ID
T-DNA Express	AT2G39250

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	AY576276	0.0	AY576276.1 Arabidopsis thaliana AP2 domain transcription factor (SNZ) mRNA, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	NP_850313.2	0.0	Integrase-type DNA-binding superfamily protein
Swissprot	Q6PV67	0.0	SNZ_ARATH; AP2-like ethylene-responsive transcription factor SNZ
TrEMBL	D7LCG4	0.0	D7LCG4_ARALL; Uncharacterized protein
STRING	AT2G39250.1	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	AT2G39250.1
Entrez Gene	818510
iHOP	AT2G39250
wikigenes	AT2G39250

Publications ? help Back to Top
Riechmann JL, et al. Arabidopsis transcription factors: genome-wide comparative analysis among eukaryotes. Science, 2000. 290(5499): p. 2105-10 [PMID:11118137] Schmid M, et al. Dissection of floral induction pathways using global expression analysis. Development, 2003. 130(24): p. 6001-12 [PMID:14573523] Yamada K, et al. Empirical analysis of transcriptional activity in the Arabidopsis genome. Science, 2003. 302(5646): p. 842-6 [PMID:14593172] Czechowski T,Bari RP,Stitt M,Scheible WR,Udvardi MK Real-time RT-PCR profiling of over 1400 Arabidopsis transcription factors: unprecedented sensitivity reveals novel root- and shoot-specific genes. Plant J., 2004. 38(2): p. 366-79 [PMID:15078338] 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] Koroleva OA,Tomlinson ML,Leader D,Shaw P,Doonan JH High-throughput protein localization in Arabidopsis using Agrobacterium-mediated transient expression of GFP-ORF fusions. Plant J., 2005. 41(1): p. 162-74 [PMID:15610358] Axtell MJ,Bartel DP Antiquity of microRNAs and their targets in land plants. Plant Cell, 2005. 17(6): p. 1658-73 [PMID:15849273] 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] Duarte JM, et al. Expression pattern shifts following duplication indicative of subfunctionalization and neofunctionalization in regulatory genes of Arabidopsis. Mol. Biol. Evol., 2006. 23(2): p. 469-78 [PMID:16280546] 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] Ascencio-Ib Global analysis of Arabidopsis gene expression uncovers a complex array of changes impacting pathogen response and cell cycle during geminivirus infection. Plant Physiol., 2008. 148(1): p. 436-54 [PMID:18650403] 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] Arabidopsis Interactome Mapping Consortium Evidence for network evolution in an Arabidopsis interactome map. Science, 2011. 333(6042): p. 601-7 [PMID:21798944] Zou Y, et al. miR172b controls the transition to autotrophic development inhibited by ABA in Arabidopsis. PLoS ONE, 2013. 8(5): p. e64770 [PMID:23717657] Ding Y, et al. Four distinct types of dehydration stress memory genes in Arabidopsis thaliana. BMC Plant Biol., 2013. 13: p. 229 [PMID:24377444] Li W,Wang T,Zhang Y,Li Y Overexpression of soybean miR172c confers tolerance to water deficit and salt stress, but increases ABA sensitivity in transgenic Arabidopsis thaliana. J. Exp. Bot., 2016. 67(1): p. 175-94 [PMID:26466661] 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]