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_011597-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: 568aa MW: 62662.9 Da PI: 5.1865

Description

AP2 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
NNU_011597-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	7.5e-17	206	255	1	55
AP2 1 sgykGVrwdkkrgrWvAeIrdpsengkr.krfslgkfgtaeeAakaaiaarkkleg 55 s+y+GV++++++grW+++I+d + k+++lg f+ta Aa+a+++a+ k++g NNU_011597-RA 206 SQYRGVTFYRRTGRWESHIWD------CgKQVYLGGFDTAHAAARAYDRAAIKFRG 255 78*****************......55**********************997 PP
2	AP2	43.6	7.4e-14	298	348	1	55
AP2 1 sgykGVrwdkkrgrWvAeIrdpsengkrkrfslgkfgtaeeAakaaiaarkkleg 55 s+y+GV+ +k grW+A+ + +k+++lg f+t+ eAa+a+++a+ k +g NNU_011597-RA 298 SKYRGVTLHK-CGRWEARMGQF--L-GKKYVYLGLFDTEIEAARAYDKAAIKCNG 348 89******.7**5553..2.26******99********99776 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Pfam	PF00847	6.9E-9	206	255	IPR001471	AP2/ERF domain
SuperFamily	SSF54171	1.57E-15	206	264	IPR016177	DNA-binding domain
CDD	cd00018	8.36E-11	207	262	No hit	No description
PROSITE profile	PS51032	17.701	207	263	IPR001471	AP2/ERF domain
Gene3D	G3DSA:3.30.730.10	7.4E-17	207	263	IPR001471	AP2/ERF domain
SMART	SM00380	5.6E-32	207	269	IPR001471	AP2/ERF domain
Pfam	PF00847	1.6E-9	298	348	IPR001471	AP2/ERF domain
CDD	cd00018	1.61E-24	298	358	No hit	No description
SuperFamily	SSF54171	7.19E-17	298	358	IPR016177	DNA-binding domain
Gene3D	G3DSA:3.30.730.10	2.7E-16	299	356	IPR001471	AP2/ERF domain
PROSITE profile	PS51032	15.461	299	356	IPR001471	AP2/ERF domain
SMART	SM00380	5.4E-31	299	362	IPR001471	AP2/ERF domain
PRINTS	PR00367	5.9E-6	300	311	IPR001471	AP2/ERF domain
PRINTS	PR00367	5.9E-6	338	358	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:0010073	Biological Process	meristem maintenance
GO:0010093	Biological Process	specification of floral organ identity
GO:0048316	Biological Process	seed development
GO:0048481	Biological Process	plant ovule development
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: 568 aa Download sequence Send to blast
MILFCSLFIR GKVGAAWIFD LVEATSDKGG EAEEEKEEEE EEEEEEEEGG GNMWDLNDSP 60 DQRREEESEG CSSQKTSFDG DDDKGKGIGS VSNENSSSSA VVIEEGSDDD DERGGRRKRS 120 SKIFGFSVTH DDNCSSESEP VVMTRQFFPV EEPEMGAPPA VVTAPLPRAH WVGVKFCQSE 180 PLAAGRPMEV SQPMKKSRRG PRSRSSQYRG VTFYRRTGRW ESHIWDCGKQ VYLGGFDTAH 240 AAARAYDRAA IKFRGVEADI NFSLDDYEED LKQMSNLTKE EFVHVLRRQS TGFPRGSSKY 300 RGVTLHKCGR WEARMGQFLG KKYVYLGLFD TEIEAARAYD KAAIKCNGKE AVTNFDPSIY 360 EDELNSTGND AGHNLDLSLG SSTLKRDGSE LGVGDPRSSS TPFEPNWGIN NRIFRSKDER 420 CRNSSGSQSQ RREGSGESEA TRMLNQIHIQ SPLSMKTNEM LRHGQFRRIG DAPAPMVHIL 480 QPHLNPPNCQ FPSCSDGDGQ IGGGLSLATG DSQQRQSSGW NHRGSGISWV SAGSSPQVLA 540 TTAASSGFPS TQISWLQRNG FHSLTGPT

Sequence ? help Back to Top

Protein Sequence Length: 568 aa Download sequence Send to blast

MILFCSLFIR GKVGAAWIFD LVEATSDKGG EAEEEKEEEE EEEEEEEEGG GNMWDLNDSP  60
DQRREEESEG CSSQKTSFDG DDDKGKGIGS VSNENSSSSA VVIEEGSDDD DERGGRRKRS  120
SKIFGFSVTH DDNCSSESEP VVMTRQFFPV EEPEMGAPPA VVTAPLPRAH WVGVKFCQSE  180
PLAAGRPMEV SQPMKKSRRG PRSRSSQYRG VTFYRRTGRW ESHIWDCGKQ VYLGGFDTAH  240
AAARAYDRAA IKFRGVEADI NFSLDDYEED LKQMSNLTKE EFVHVLRRQS TGFPRGSSKY  300
RGVTLHKCGR WEARMGQFLG KKYVYLGLFD TEIEAARAYD KAAIKCNGKE AVTNFDPSIY  360
EDELNSTGND AGHNLDLSLG SSTLKRDGSE LGVGDPRSSS TPFEPNWGIN NRIFRSKDER  420
CRNSSGSQSQ RREGSGESEA TRMLNQIHIQ SPLSMKTNEM LRHGQFRRIG DAPAPMVHIL  480
QPHLNPPNCQ FPSCSDGDGQ IGGGLSLATG DSQQRQSSGW NHRGSGISWV SAGSSPQVLA  540
TTAASSGFPS TQISWLQRNG FHSLTGPT

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_010263475.1	0.0	PREDICTED: floral homeotic protein APETALA 2 isoform X2
Swissprot	P47927	1e-126	AP2_ARATH; Floral homeotic protein APETALA 2
TrEMBL	A0A1U8AM46	0.0	A0A1U8AM46_NELNU; floral homeotic protein APETALA 2 isoform X2
STRING	XP_010263474.1	0.0	(Nelumbo nucifera)

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT4G36920.2	1e-118	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]