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

NNU_002077-RA

Organism

Nelumbo nucifera

Taxonomic ID

4432

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; stem eudicotyledons; Proteales; Nelumbonaceae; Nelumbo

Family

AP2

Protein Properties

Length: 553aa MW: 61375.5 Da PI: 5.7739

Description

AP2 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
NNU_002077-RA	genome	CAS	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	AP2	53.2	7.3e-17	187	236	1	55
AP2 1 sgykGVrwdkkrgrWvAeIrdpsengkr.krfslgkfgtaeeAakaaiaarkkleg 55 s+y+GV++++++grW+++I+d + k+++lg f+ta Aa+a+++a+ k++g NNU_002077-RA 187 SQYRGVTFYRRTGRWESHIWD------CgKQVYLGGFDTAHAAARAYDRAAIKFRG 236 78*****************......55**********************997 PP
2	AP2	43.3	9.4e-14	279	329	1	55
AP2 1 sgykGVrwdkkrgrWvAeIrdpsengkrkrfslgkfgtaeeAakaaiaarkkleg 55 s+++GV+ +k grW+A+ + +k+++lg f+t+ eAa+a+++a+ k++g NNU_002077-RA 279 SKFRGVTLHK-CGRWEARMGQF--L-GKKYVYLGLFDTEIEAARAYDKAAIKFNG 329 79******.7**5553..2.26******99*********9987 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF54171	1.5E-15	187	245	IPR016177	DNA-binding domain
Pfam	PF00847	6.6E-9	187	236	IPR001471	AP2/ERF domain
PROSITE profile	PS51032	17.701	188	244	IPR001471	AP2/ERF domain
SMART	SM00380	5.6E-32	188	250	IPR001471	AP2/ERF domain
CDD	cd00018	5.86E-11	188	243	No hit	No description
Gene3D	G3DSA:3.30.730.10	7.1E-17	188	244	IPR001471	AP2/ERF domain
CDD	cd00018	1.20E-24	279	339	No hit	No description
SuperFamily	SSF54171	1.24E-16	279	339	IPR016177	DNA-binding domain
Pfam	PF00847	4.8E-9	279	329	IPR001471	AP2/ERF domain
SMART	SM00380	1.8E-31	280	343	IPR001471	AP2/ERF domain
PROSITE profile	PS51032	15.817	280	337	IPR001471	AP2/ERF domain
Gene3D	G3DSA:3.30.730.10	5.7E-16	280	337	IPR001471	AP2/ERF domain
PRINTS	PR00367	6.0E-6	281	292	IPR001471	AP2/ERF domain
PRINTS	PR00367	6.0E-6	319	339	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:0003677	Molecular Function	DNA binding
GO:0003700	Molecular Function	transcription factor activity, sequence-specific DNA binding

Sequence ? help Back to Top
Protein Sequence Length: 553 aa Download sequence Send to blast
MIGDPRKVGA AWIFHILETT TTDKQGEEDD DGGDTMWDLN DSPDQRKEEE SEGCSSQKTS 60 VDGDEDKGKG VGSFSNENSS SSALVIEDGS DEEEDRGARR KRSSKIFGFS VTHDDNCFSE 120 NEPVVTRQFF PIEDSEMGST PVATASLPRA HWVGVKFCQS EPLAAARPID VSQPMKKSRR 180 GPRSRSSQYR GVTFYRRTGR WESHIWDCGK QVYLGGFDTA HAAARAYDRA AIKFRGVEAD 240 INFSLDDYEE DLKQMSNLTK EEFVHVLRRQ STGFPRGSSK FRGVTLHKCG RWEARMGQFL 300 GKKYVYLGLF DTEIEAARAY DKAAIKFNGK EAVTNFDPSI YEEELNATGK DVDHNLDLSL 360 GNSAPKRDGL ELGMGDLRHS STPIEPDWGI SNGGCRSKDE LCRSNHRQDE SEENEAVRML 420 NQTHIQSPVS LKGNEMQGHW QLRRSGESPK VHILHLQQQF NPSNYQYPFP SSCDGDDRIG 480 VVGGGGVLSL ATGDSQQRQI SGWNRGSDSS SWASAGSSPQ VLAAASSGFP SSQIIKSPNW 540 LQKNGFHFLT RPT

Sequence ? help Back to Top

Protein Sequence Length: 553 aa Download sequence Send to blast

MIGDPRKVGA AWIFHILETT TTDKQGEEDD DGGDTMWDLN DSPDQRKEEE SEGCSSQKTS  60
VDGDEDKGKG VGSFSNENSS SSALVIEDGS DEEEDRGARR KRSSKIFGFS VTHDDNCFSE  120
NEPVVTRQFF PIEDSEMGST PVATASLPRA HWVGVKFCQS EPLAAARPID VSQPMKKSRR  180
GPRSRSSQYR GVTFYRRTGR WESHIWDCGK QVYLGGFDTA HAAARAYDRA AIKFRGVEAD  240
INFSLDDYEE DLKQMSNLTK EEFVHVLRRQ STGFPRGSSK FRGVTLHKCG RWEARMGQFL  300
GKKYVYLGLF DTEIEAARAY DKAAIKFNGK EAVTNFDPSI YEEELNATGK DVDHNLDLSL  360
GNSAPKRDGL ELGMGDLRHS STPIEPDWGI SNGGCRSKDE LCRSNHRQDE SEENEAVRML  420
NQTHIQSPVS LKGNEMQGHW QLRRSGESPK VHILHLQQQF NPSNYQYPFP SSCDGDDRIG  480
VVGGGGVLSL ATGDSQQRQI SGWNRGSDSS SWASAGSSPQ VLAAASSGFP SSQIIKSPNW  540
LQKNGFHFLT RPT

Functional Description ? help Back to Top
Source	Description
UniProt	Probable transcriptional activator that promotes early floral meristem identity (PubMed:7919989). Is required subsequently for the transition of an inflorescence meristem into a floral meristem (PubMed:1675158). Plays a central role in the specification of floral identity, particularly for the normal development of sepals and petals in the wild-type flower, by spatially controlling the expression domains of multiple floral organ identity genes (PubMed:1675158, PubMed:23034631). Acts as A class cadastral protein by repressing the C class floral homeotic gene AGAMOUS in association with other repressors like LEUNIG and SEUSS (PubMed:1675158). Directly represses AGAMOUS by recruiting the transcriptional corepressor TOPLESS and the histone deacetylase HDA19 (PubMed:23034631). It is also required during seed development (PubMed:1675158). {ECO:0000269\|PubMed:1675158, ECO:0000269\|PubMed:23034631, ECO:0000269\|PubMed:7919989}.

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: Negatively regulated by the C class floral homeotic protein AGAMOUS in stamens and carpels. MicroRNA 172 (miRNA172) negatively regulates APETALA2 at the translational level and may modulate its expression pattern. Seems not to be influenced by jasmonate and Alternaria brassicicola. {ECO:0000269\|PubMed:12805630, ECO:0000269\|PubMed:12893888, ECO:0000269\|PubMed:14555699}.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_010270518.1	0.0	PREDICTED: floral homeotic protein APETALA 2 isoform X2
Swissprot	P47927	1e-124	AP2_ARATH; Floral homeotic protein APETALA 2
TrEMBL	A0A1U8AVE8	0.0	A0A1U8AVE8_NELNU; floral homeotic protein APETALA 2 isoform X2
STRING	XP_010270509.1	0.0	(Nelumbo nucifera)

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT4G36920.2	1e-127	AP2 family protein

Publications ? help Back to Top
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] Thamilarasan SK,Park JI,Jung HJ,Nou IS Genome-wide analysis of the distribution of AP2/ERF transcription factors reveals duplication and CBFs genes elucidate their potential function in Brassica oleracea. BMC Genomics, 2014. 15: p. 422 [PMID:24888752] Zhang GB,Yi HY,Gong JM The Arabidopsis ethylene/jasmonic acid-NRT signaling module coordinates nitrate reallocation and the trade-off between growth and environmental adaptation. Plant Cell, 2014. 26(10): p. 3984-98 [PMID:25326291] Ranocha P,Francoz E,Burlat V,Dunand C Expression of PRX36, PMEI6 and SBT1.7 is controlled by complex transcription factor regulatory networks for proper seed coat mucilage extrusion. Plant Signal Behav, 2014. 9(11): p. e977734 [PMID:25531128] Djemal R,Khoudi H Isolation and molecular characterization of a novel WIN1/SHN1 ethylene-responsive transcription factor TdSHN1 from durum wheat (Triticum turgidum. L. subsp. durum). Protoplasma, 2015. 252(6): p. 1461-73 [PMID:25687296] Kazan K Diverse roles of jasmonates and ethylene in abiotic stress tolerance. Trends Plant Sci., 2015. 20(4): p. 219-29 [PMID:25731753] Prunet N, et al. SQUINT promotes stem cell homeostasis and floral meristem termination in Arabidopsis through APETALA2 and CLAVATA signalling. J. Exp. Bot., 2015. 66(21): p. 6905-16 [PMID:26269626] Xie W, et al. Exploring potential new floral organ morphogenesis genes of Arabidopsis thaliana using systems biology approach. Front Plant Sci, 2015. 6: p. 829 [PMID:26528302] Zumajo-Cardona C,Pabón-Mora N Evolution of the APETALA2 Gene Lineage in Seed Plants. Mol. Biol. Evol., 2016. 33(7): p. 1818-32 [PMID:27030733] Zhao Y, et al. An alternative strategy for targeted gene replacement in plants using a dual-sgRNA/Cas9 design. Sci Rep, 2016. 6: p. 23890 [PMID:27033976] Gao R,Liu P,Irwanto N,Loh R,Wong SM Upregulation of LINC-AP2 is negatively correlated with AP2 gene expression with Turnip crinkle virus infection in Arabidopsis thaliana. Plant Cell Rep., 2016. 35(11): p. 2257-2267 [PMID:27473526] Huang Z, et al. APETALA2 antagonizes the transcriptional activity of AGAMOUS in regulating floral stem cells in Arabidopsis thaliana. New Phytol., 2017. 215(3): p. 1197-1209 [PMID:27604611] Dory M, et al. Kinase-Associated Phosphoisoform Assay: a novel candidate-based method to detect specific kinase-substrate phosphorylation interactions in vivo. BMC Plant Biol., 2016. 16(1): p. 204 [PMID:27655033] Wang P, et al. Expansion and Functional Divergence of AP2 Group Genes in Spermatophytes Determined by Molecular Evolution and Arabidopsis Mutant Analysis. Front Plant Sci, 2016. 7: p. 1383 [PMID:27703459] Sharma P, et al. Promoter Trapping and Deletion Analysis Show Arabidopsis thaliana APETALA2 Gene Promoter Is Bidirectional and Functions as a Pollen- and Ovule-Specific Promoter in the Reverse Orientation. Appl. Biochem. Biotechnol., 2017. 182(4): p. 1591-1604 [PMID:28130768] Kihira M, et al. Arabidopsis thaliana FLO2 is Involved in Efficiency of Photoassimilate Translocation, Which is Associated with Leaf Growth and Aging, Yield of Seeds and Seed Quality. Plant Cell Physiol., 2017. 58(3): p. 440-450 [PMID:28158741] Balanzà V, et al. Genetic control of meristem arrest and life span in Arabidopsis by a FRUITFULL-APETALA2 pathway. Nat Commun, 2018. 9(1): p. 565 [PMID:29422669] Dotto M,Gómez MS,Soto MS,Casati P UV-B radiation delays flowering time through changes in the PRC2 complex activity and miR156 levels in Arabidopsis thaliana. Plant Cell Environ., 2018. 41(6): p. 1394-1406 [PMID:29447428] Song C,Lee J,Kim T,Hong JC,Lim CO VOZ1, a transcriptional repressor of DREB2C, mediates heat stress responses in Arabidopsis. Planta, 2018. 247(6): p. 1439-1448 [PMID:29536220]