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

AT3G23130.1

Common Name

FLO10, FON1, K14B15.1, SUP

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

C2H2

Protein Properties

Length: 204aa MW: 23083.8 Da PI: 8.9333

Description

C2H2 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
AT3G23130.1	genome	TAIR	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-C2H2	14.9	7.8e-05	47	69	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 y+C+ C++ F++ L H+++H AT3G23130.1 47 YTCSFCKREFRSAQALGGHMNVH 69 9********************99 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF57667	1.25E-6	44	73	No hit	No description
Pfam	PF13912	1.3E-6	47	70	IPR007087	Zinc finger, C2H2
PROSITE profile	PS50157	11.24	47	74	IPR007087	Zinc finger, C2H2
SMART	SM00355	0.0038	47	69	IPR015880	Zinc finger, C2H2-like
PROSITE pattern	PS00028	0	49	69	IPR007087	Zinc finger, C2H2

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0008361	Biological Process	regulation of cell size
GO:0009755	Biological Process	hormone-mediated signaling pathway
GO:0010093	Biological Process	specification of floral organ identity
GO:0010160	Biological Process	formation of organ boundary
GO:0030154	Biological Process	cell differentiation
GO:0042127	Biological Process	regulation of cell proliferation
GO:0045892	Biological Process	negative regulation of transcription, DNA-templated
GO:0005634	Cellular Component	nucleus
GO:0003677	Molecular Function	DNA binding
GO:0003700	Molecular Function	transcription factor activity, sequence-specific DNA binding
GO:0008270	Molecular Function	zinc ion binding
GO:0043565	Molecular Function	sequence-specific DNA binding
GO:0044212	Molecular Function	transcription regulatory region DNA binding

Plant Ontology ? help Back to Top
PO Term	PO Category	PO Description
PO:0000115	anatomy	socket cell
PO:0000146	anatomy	abscission zone
PO:0003011	anatomy	root vascular system
PO:0006502	anatomy	floral organ abscission zone
PO:0009009	anatomy	plant embryo
PO:0009025	anatomy	vascular leaf
PO:0009031	anatomy	sepal
PO:0009032	anatomy	petal
PO:0009046	anatomy	flower
PO:0009052	anatomy	flower pedicel
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:0007611	developmental stage	petal differentiation and expansion stage
PO:0007616	developmental stage	flowering stage

Sequence ? help Back to Top
Protein Sequence Length: 204 aa Download sequence Send to blast
MERSNSIELR NSFYGRARTS PWSYGDYDNC QQDHDYLLGF SWPPRSYTCS FCKREFRSAQ 60 ALGGHMNVHR RDRARLRLQQ SPSSSSTPSP PYPNPNYSYS TMANSPPPHH SPLTLFPTLS 120 PPSSPRYRAG LIRSLSPKSK HTPENACKTK KSSLLVEAGE ATRFTSKDAC KILRNDEIIS 180 LELEIGLINE SEQDLDLELR LGFA

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
1njq_A	4e-14	42	69	2	29	superman protein
2l1o_A	4e-14	42	69	2	29	Transcriptional regulator SUPERMAN
Search in ModeBase

Expression -- UniGene ? help Back to Top
UniGene ID	E-value	Expressed in
At.53448	0.0	flower

Expression -- Microarray ? help Back to Top
Source	ID	E-value
GEO	18403661	0.0
Genevisible	257915_at	0.0
Expression Atlas	AT3G23130	-
AtGenExpress	AT3G23130	-
ATTED-II	AT3G23130	-

Expression -- Description ? help Back to Top
Source	Description
Uniprot	TISSUE SPECIFICITY: Expressed early in the third whorl, and later becomes localized at the boundary between the stamen and carpel whorls. Also detected in developing ovule primordia.

Functional Description ? help Back to Top
Source	Description
TAIR	Flower-specific gene controlling the boundary of the stamen and carpel whorls. Similar to zinc finger transcription factors.
UniProt	Probable transcriptional regulator considered as cadastral protein that acts indirectly to prevent the B class homeotic proteins APETALA3 and perhaps PISTILLATA from acting in the gynoecial whorl. Principal function is to balance cell proliferation in the third and fourth whorls of developing flowers thereby maintaining the boundary between stamens and carpels. May fulfill this role by repressing genes implicated in cell division. Plays equally a role in the determinacy of the floral meristem. Is also required for normal ovule development. {ECO:0000269\|PubMed:11006335, ECO:0000269\|PubMed:11943180, ECO:0000269\|PubMed:12324589, ECO:0000269\|PubMed:1352237, ECO:0000269\|PubMed:7477325}.

Function -- GeneRIF ? help Back to Top
Arabidopsis superman regulate hormone signalling and mediate cell proliferation and differentiation. [PMID: 20980362] Sup role in resolving male/female gradients into sharp male and female identities (whorls, organs) and in enforcing flower homeostasis during evolution [PMID: 27098089] SUPERMAN gene is required for proper specification of the boundary between stamens in whorl 3 and carpels in whorl 4, as superman mutants exhibit supernumerary stamens but usually lack carpels; the extra stamens in superman mutants arise from cells in whorl 4, which change their fate from female to male, while floral stem cells proliferate longer, allowing for the production of additional stamens [PMID: 28634297] Our work presents a new floral meristem regulatory mechanism, in which SUP, a boundary gene, coordinates floral organogenesis and floral meristem size through fine-tuning auxin biosynthesis. [PMID: 29764982]

Cis-element ? help Back to Top
Source	Link
PlantRegMap	AT3G23130.1

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: Repressed by KRYPTONITE/SUVH4, member of the histone H3-K9 methyltransferase family that contributes with other factors to the CpNpG methylation of the SUP gene resulting in its silencing. The alternative epigenetic states of the SUPERMAN locus have been called Clark Kent alleles. Positively regulated at an early stage of development by LEAFY and by B class homeotic proteins APETALA3 and PISTILLATA. Later expression is maintained by both the B class homeotic proteins and the C class homeotic protein AGAMOUS. These two steps of regulation require the intervention of additional factors. {ECO:0000269\|PubMed:11898023}.

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

Regulation -- ATRM (Manually Curated Upstream Regulators) ? help Back to Top
Source	Upstream Regulator (A: Activate/R: Repress)
ATRM	AT3G54340 (A), AT4G18960 (A), AT5G20240 (A), AT5G61850 (A)

Regulation -- ATRM (Manually Curated Target Genes) ? help Back to Top
Source	Target Gene (A: Activate/R: Repress)
ATRM	AT1G23420(R), AT2G17950(R), AT3G54340(R), AT5G20240(R)

Phenotype -- Mutation ? help Back to Top
Source	ID
T-DNA Express	AT3G23130

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	AB025608	0.0	AB025608.1 Arabidopsis thaliana genomic DNA, chromosome 3, TAC clone:K14B15.
GenBank	ATU38946	0.0	U38946.1 Arabidopsis thaliana SUPERMAN (sup) gene, complete cds.
GenBank	CP002686	0.0	CP002686.1 Arabidopsis thaliana chromosome 3, complete sequence.
GenBank	DQ056605	0.0	DQ056605.1 Arabidopsis thaliana superman protein (At3g23130) mRNA, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	NP_188954.1	1e-150	C2H2 and C2HC zinc fingers superfamily protein
Swissprot	Q38895	1e-151	SUP_ARATH; Transcriptional regulator SUPERMAN
TrEMBL	C0SVC6	1e-148	C0SVC6_ARATH; Uncharacterized protein At3g23130 (Fragment)
STRING	AT3G23130.1	1e-149	(Arabidopsis thaliana)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM8109	24	32
Representative plant	OGRP576	15	81

Link Out ? help Back to Top
Phytozome	AT3G23130.1
Entrez Gene	821888
iHOP	AT3G23130
wikigenes	AT3G23130

Publications ? help Back to Top
Chen Q, et al. The Arabidopsis FILAMENTOUS FLOWER gene is required for flower formation. Development, 1999. 126(12): p. 2715-26 [PMID:10331982] Takatsuji H Zinc-finger proteins: the classical zinc finger emerges in contemporary plant science. Plant Mol. Biol., 1999. 39(6): p. 1073-8 [PMID:10380795] Jacobsen SE,Running MP,Meyerowitz EM Disruption of an RNA helicase/RNAse III gene in Arabidopsis causes unregulated cell division in floral meristems. Development, 1999. 126(23): p. 5231-43 [PMID:10556049] Rohde A, et al. Carpel, a new Arabidopsis epi-mutant of the SUPERMAN gene: phenotypic analysis and DNA methylation status. Plant Cell Physiol., 1999. 40(9): p. 961-72 [PMID:10588067] Villanueva JM, et al. INNER NO OUTER regulates abaxial- adaxial patterning in Arabidopsis ovules. Genes Dev., 1999. 13(23): p. 3160-9 [PMID:10601041] Meyerowitz EM,Running MP,Sakai H,Williams RW Multiple modes of cell division control in Arabidopsis flower development. Symp. Soc. Exp. Biol., 1998. 51: p. 19-26 [PMID:10645419] Jacobsen SE,Sakai H,Finnegan EJ,Cao X,Meyerowitz EM Ectopic hypermethylation of flower-specific genes in Arabidopsis. Curr. Biol., 2000. 10(4): p. 179-86 [PMID:10704409] Nandi AK,Kushalappa K,Prasad K,Vijayraghavan U A conserved function for Arabidopsis SUPERMAN in regulating floral-whorl cell proliferation in rice, a monocotyledonous plant. Curr. Biol., 2000. 10(4): p. 215-8 [PMID:10704413] Kater MM,Franken J,van Aelst A,Angenent GC Suppression of cell expansion by ectopic expression of the Arabidopsis SUPERMAN gene in transgenic petunia and tobacco. Plant J., 2000. 23(3): p. 407-13 [PMID:10929133] Sakai H,Krizek BA,Jacobsen SE,Meyerowitz EM Regulation of SUP expression identifies multiple regulators involved in arabidopsis floral meristem development. Plant Cell, 2000. 12(9): p. 1607-18 [PMID:11006335] Riechmann JL, et al. Arabidopsis transcription factors: genome-wide comparative analysis among eukaryotes. Science, 2000. 290(5499): p. 2105-10 [PMID:11118137] Tian L,Chen ZJ Blocking histone deacetylation in Arabidopsis induces pleiotropic effects on plant gene regulation and development. Proc. Natl. Acad. Sci. U.S.A., 2001. 98(1): p. 200-5 [PMID:11134508] Lindroth AM, et al. Requirement of CHROMOMETHYLASE3 for maintenance of CpXpG methylation. Science, 2001. 292(5524): p. 2077-80 [PMID:11349138] Kishimoto N, et al. Site specificity of the Arabidopsis METI DNA methyltransferase demonstrated through hypermethylation of the superman locus. Plant Mol. Biol., 2001. 46(2): p. 171-83 [PMID:11442057] Bereterbide A,Hernould M,Castera S,Mouras A Inhibition of cell proliferation, cell expansion and differentiation by the Arabidopsis SUPERMAN gene in transgenic tobacco plants. Planta, 2001. 214(1): p. 22-9 [PMID:11762167] Yun JY,Weigel D,Lee I Ectopic expression of SUPERMAN suppresses development of petals and stamens. Plant Cell Physiol., 2002. 43(1): p. 52-7 [PMID:11828022] Bereterbide A,Hernould M,Farbos I,Glimelius K,Mouras A Restoration of stamen development and production of functional pollen in an alloplasmic CMS tobacco line by ectopic expression of the Arabidopsis thaliana SUPERMAN gene. Plant J., 2002. 29(5): p. 607-15 [PMID:11874573] Jackson JP,Lindroth AM,Cao X,Jacobsen SE Control of CpNpG DNA methylation by the KRYPTONITE histone H3 methyltransferase. Nature, 2002. 416(6880): p. 556-60 [PMID:11898023] Goff SA, et al. A draft sequence of the rice genome (Oryza sativa L. ssp. japonica). Science, 2002. 296(5565): p. 92-100 [PMID:11935018] Hiratsu K,Ohta M,Matsui K,Ohme-Takagi M The SUPERMAN protein is an active repressor whose carboxy-terminal repression domain is required for the development of normal flowers. FEBS Lett., 2002. 514(2-3): p. 351-4 [PMID:11943180] Cao X,Jacobsen SE Role of the arabidopsis DRM methyltransferases in de novo DNA methylation and gene silencing. Curr. Biol., 2002. 12(13): p. 1138-44 [PMID:12121623] Meister RJ,Kotow LM,Gasser CS SUPERMAN attenuates positive INNER NO OUTER autoregulation to maintain polar development of Arabidopsis ovule outer integuments. Development, 2002. 129(18): p. 4281-9 [PMID:12183380] Gaiser JC,Robinson-Beers K,Gasser CS The Arabidopsis SUPERMAN Gene Mediates Asymmetric Growth of the Outer Integument of Ovules. Plant Cell, 1995. 7(3): p. 333-345 [PMID:12242374] Wilkinson MD,Haughn GW UNUSUAL FLORAL ORGANS Controls Meristem Identity and Organ Primordia Fate in Arabidopsis. Plant Cell, 1995. 7(9): p. 1485-1499 [PMID:12242408] Schultz EA,Pickett FB,Haughn GW The FLO10 Gene Product Regulates the Expression Domain of Homeotic Genes AP3 and PI in Arabidopsis Flowers. Plant Cell, 1991. 3(11): p. 1221-1237 [PMID:12324589] Dathan N, et al. The Arabidopsis SUPERMAN protein is able to specifically bind DNA through its single Cys2-His2 zinc finger motif. Nucleic Acids Res., 2002. 30(22): p. 4945-51 [PMID:12433998] Zilberman D,Cao X,Jacobsen SE ARGONAUTE4 control of locus-specific siRNA accumulation and DNA and histone methylation. Science, 2003. 299(5607): p. 716-9 [PMID:12522258] Isernia C, et al. NMR structure of the single QALGGH zinc finger domain from the Arabidopsis thaliana SUPERMAN protein. Chembiochem, 2003. 4(2-3): p. 171-80 [PMID:12616630] Bowman JL, et al. SUPERMAN, a regulator of floral homeotic genes in Arabidopsis. Development, 1992. 114(3): p. 599-615 [PMID:1352237] Meister RJ, et al. Definition and interactions of a positive regulatory element of the Arabidopsis INNER NO OUTER promoter. Plant J., 2004. 37(3): p. 426-38 [PMID:14731261] Skinner DJ,Hill TA,Gasser CS Regulation of ovule development. Plant Cell, 2004. 16 Suppl: p. S32-45 [PMID:15131247] Sieber P,Petrascheck M,Barberis A,Schneitz K Organ polarity in Arabidopsis. NOZZLE physically interacts with members of the YABBY family. Plant Physiol., 2004. 135(4): p. 2172-85 [PMID:15299139] Suzaki T, et al. The gene FLORAL ORGAN NUMBER1 regulates floral meristem size in rice and encodes a leucine-rich repeat receptor kinase orthologous to Arabidopsis CLAVATA1. Development, 2004. 131(22): p. 5649-57 [PMID:15509765] Meister RJ,Oldenhof H,Bowman JL,Gasser CS Multiple protein regions contribute to differential activities of YABBY proteins in reproductive development. Plant Physiol., 2005. 137(2): p. 651-62 [PMID:15665244] Alvarez-Venegas R,Avramova Z Methylation patterns of histone H3 Lys 4, Lys 9 and Lys 27 in transcriptionally active and inactive Arabidopsis genes and in atx1 mutants. Nucleic Acids Res., 2005. 33(16): p. 5199-207 [PMID:16157865] Krizek BA,Lewis MW,Fletcher JC RABBIT EARS is a second-whorl repressor of AGAMOUS that maintains spatial boundaries in Arabidopsis flowers. Plant J., 2006. 45(3): p. 369-83 [PMID:16412084] Jiang CJ, et al. SAZ, a new SUPERMAN-like protein, negatively regulates a subset of ABA-responsive genes in Arabidopsis. Mol. Genet. Genomics, 2008. 279(2): p. 183-92 [PMID:18030492] Gallagher TL,Gasser CS Independence and interaction of regions of the INNER NO OUTER protein in growth control during ovule development. Plant Physiol., 2008. 147(1): p. 306-15 [PMID:18326791] Peiffer JA, et al. A spatial dissection of the Arabidopsis floral transcriptome by MPSS. BMC Plant Biol., 2008. 8: p. 43 [PMID:18426585] Prunet N, et al. REBELOTE, SQUINT, and ULTRAPETALA1 function redundantly in the temporal regulation of floral meristem termination in Arabidopsis thaliana. Plant Cell, 2008. 20(4): p. 901-19 [PMID:18441215] Suzaki T,Yoshida A,Hirano HY Functional diversification of CLAVATA3-related CLE proteins in meristem maintenance in rice. Plant Cell, 2008. 20(8): p. 2049-58 [PMID:18676878] Kazama Y, et al. A SUPERMAN-like gene is exclusively expressed in female flowers of the dioecious plant Silene latifolia. Plant Cell Physiol., 2009. 50(6): p. 1127-41 [PMID:19406862] Devaiah BN,Madhuvanthi R,Karthikeyan AS,Raghothama KG Phosphate starvation responses and gibberellic acid biosynthesis are regulated by the MYB62 transcription factor in Arabidopsis. Mol Plant, 2009. 2(1): p. 43-58 [PMID:19529828] Kagale S,Links MG,Rozwadowski K Genome-wide analysis of ethylene-responsive element binding factor-associated amphiphilic repression motif-containing transcriptional regulators in Arabidopsis. Plant Physiol., 2010. 152(3): p. 1109-34 [PMID:20097792] Irish VF The flowering of Arabidopsis flower development. Plant J., 2010. 61(6): p. 1014-28 [PMID:20409275] Nibau C,Di Stilio VS,Wu HM,Cheung AY Arabidopsis and Tobacco superman regulate hormone signalling and mediate cell proliferation and differentiation. J. Exp. Bot., 2011. 62(3): p. 949-61 [PMID:20980362] Ronse De Craene L,Tr Carpeloidy in flower evolution and diversification: a comparative study in Carica papaya and Arabidopsis thaliana. Ann. Bot., 2011. 107(9): p. 1453-63 [PMID:21504912] Malgieri G, et al. Zinc to cadmium replacement in the A. thaliana SUPERMAN Cys₂ His₂ zinc finger induces structural rearrangements of typical DNA base determinant positions. Biopolymers, 2011. 95(11): p. 801-10 [PMID:21618209] Yumul RE, et al. POWERDRESS and diversified expression of the MIR172 gene family bolster the floral stem cell network. PLoS Genet., 2013. 9(1): p. e1003218 [PMID:23349639] Jin J, et al. An Arabidopsis Transcriptional Regulatory Map Reveals Distinct Functional and Evolutionary Features of Novel Transcription Factors. Mol. Biol. Evol., 2015. 32(7): p. 1767-73 [PMID:25750178] Breuil-Broyer S, et al. Analysis of the Arabidopsis superman allelic series and the interactions with other genes demonstrate developmental robustness and joint specification of male-female boundary, flower meristem termination and carpel compartmentalization. Ann. Bot., 2016. 117(5): p. 905-23 [PMID:27098089] Prunet N,Yang W,Das P,Meyerowitz EM,Jack TP SUPERMAN prevents class B gene expression and promotes stem cell termination in the fourth whorl of Arabidopsis thaliana flowers. Proc. Natl. Acad. Sci. U.S.A., 2017. 114(27): p. 7166-7171 [PMID:28634297] Uemura A, et al. Regulation of floral meristem activity through the interaction of AGAMOUS, SUPERMAN, and CLAVATA3 in Arabidopsis. Plant Reprod, 2018. 31(1): p. 89-105 [PMID:29218596] Xu Y, et al. SUPERMAN regulates floral whorl boundaries through control of auxin biosynthesis. EMBO J., 2019. [PMID:29764982] Sakai H,Medrano LJ,Meyerowitz EM Role of SUPERMAN in maintaining Arabidopsis floral whorl boundaries. Nature, 1995. 378(6553): p. 199-203 [PMID:7477325] Jack T,Fox GL,Meyerowitz EM Arabidopsis homeotic gene APETALA3 ectopic expression: transcriptional and posttranscriptional regulation determine floral organ identity. Cell, 1994. 76(4): p. 703-16 [PMID:7907276] Goto K,Meyerowitz EM Function and regulation of the Arabidopsis floral homeotic gene PISTILLATA. Genes Dev., 1994. 8(13): p. 1548-60 [PMID:7958839] Laux T,Mayer KF,Berger J,Jürgens G The WUSCHEL gene is required for shoot and floral meristem integrity in Arabidopsis. Development, 1996. 122(1): p. 87-96 [PMID:8565856] Huang H,Ma H FON1, an Arabidopsis gene that terminates floral meristem activity and controls flower organ number. Plant Cell, 1997. 9(2): p. 115-34 [PMID:9061945] Jack T,Sieburth L,Meyerowitz E Targeted misexpression of AGAMOUS in whorl 2 of Arabidopsis flowers. Plant J., 1997. 11(4): p. 825-39 [PMID:9161038] Jacobsen SE,Meyerowitz EM Hypermethylated SUPERMAN epigenetic alleles in arabidopsis. Science, 1997. 277(5329): p. 1100-3 [PMID:9262479] Huang H,Ma H The nature of the Arabidopsis fon1 mutations. Plant Cell, 1998. 10(1): p. 3-4 [PMID:9477568]