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

PGSC0003DMP400021925

Organism

Solanum tuberosum

Taxonomic ID

4113

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; asterids; lamiids; Solanales; Solanaceae; Solanoideae; Solaneae; Solanum

Family

NAC

Protein Properties

Length: 288aa MW: 31984.7 Da PI: 9.5522

Description

NAC family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
PGSC0003DMP400021925	genome	PGSC	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	NAM	105.5	6.7e-33	2	77	54	128
NAM 54 eekewyfFskrdkkyatgkrknratksgyWkatgkdkevlsk.kgelvglkktLvfykgrapkgektdWvmheyrl 128 +ekewyfFs rd+ky+tg r+nrat++gyWkatgkd+e++s+ + +lvg+kktLvfy+grapkgek++Wvmheyrl PGSC0003DMP400021925 2 GEKEWYFFSLRDRKYPTGLRTNRATEAGYWKATGKDREIFSSkTCALVGMKKTLVFYRGRAPKGEKSNWVMHEYRL 77 578***********************************9745567*************************98 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS51005	41.13	1	102	IPR003441	NAC domain
SuperFamily	SSF101941	5.1E-37	2	102	IPR003441	NAC domain
Pfam	PF02365	1.7E-15	6	77	IPR003441	NAC domain

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0006355	Biological Process	regulation of transcription, DNA-templated
GO:0010072	Biological Process	primary shoot apical meristem specification
GO:0010160	Biological Process	formation of organ boundary
GO:0010223	Biological Process	secondary shoot formation
GO:0048366	Biological Process	leaf development
GO:0048504	Biological Process	regulation of timing of organ formation
GO:0005634	Cellular Component	nucleus
GO:0003677	Molecular Function	DNA binding

Sequence ? help Back to Top
Protein Sequence Length: 288 aa Download sequence Send to blast
MGEKEWYFFS LRDRKYPTGL RTNRATEAGY WKATGKDREI FSSKTCALVG MKKTLVFYRG 60 RAPKGEKSNW VMHEYRLDGK FAYHYISRSS KDEWVISRVF QKSTGSNGAA TSTGGGKKRL 120 SSSINMYQEV SSPSSVSHLP PLLDSSPYST TATSATAIVI GDRDHDHHSF KKEHVPCFST 180 TATATITTQS LTFDPSSVFD ISTNTLHALQ PTPSFSSILD STPTNFTNYT RNSTFPSLRS 240 LHENLQLPLF SGGSSSMHGG FSNPMGNWTV PETQKVQQSE LDCMWSY*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
1ut4_A	1e-29	1	107	68	170	NO APICAL MERISTEM PROTEIN
1ut4_B	1e-29	1	107	68	170	NO APICAL MERISTEM PROTEIN
1ut7_A	1e-29	1	107	68	170	NO APICAL MERISTEM PROTEIN
1ut7_B	1e-29	1	107	68	170	NO APICAL MERISTEM PROTEIN
3swm_A	1e-29	1	107	71	173	NAC domain-containing protein 19
3swm_B	1e-29	1	107	71	173	NAC domain-containing protein 19
3swm_C	1e-29	1	107	71	173	NAC domain-containing protein 19
3swm_D	1e-29	1	107	71	173	NAC domain-containing protein 19
3swp_A	1e-29	1	107	71	173	NAC domain-containing protein 19
3swp_B	1e-29	1	107	71	173	NAC domain-containing protein 19
3swp_C	1e-29	1	107	71	173	NAC domain-containing protein 19
3swp_D	1e-29	1	107	71	173	NAC domain-containing protein 19
4dul_A	1e-29	1	107	68	170	NAC domain-containing protein 19
4dul_B	1e-29	1	107	68	170	NAC domain-containing protein 19
Search in ModeBase

Functional Description ? help Back to Top
Source	Description
UniProt	Transcription activator of STM and KNAT6. Involved in molecular mechanisms regulating shoot apical meristem (SAM) formation during embryogenesis and organ separation. Required for the fusion of septa of gynoecia along the length of the ovaries. Activates the shoot formation in callus in a STM-dependent manner. Controls leaf margin development and required for leaf serration. Involved in axillary meristem initiation and separation of the meristem from the main stem. Regulates the phyllotaxy throughout the plant development. Seems to act as an inhibitor of cell division. {ECO:0000269\|PubMed:10079219, ECO:0000269\|PubMed:10750709, ECO:0000269\|PubMed:12163400, ECO:0000269\|PubMed:12492830, ECO:0000269\|PubMed:12610213, ECO:0000269\|PubMed:15202996, ECO:0000269\|PubMed:15294871, ECO:0000269\|PubMed:15500463, ECO:0000269\|PubMed:15723790, ECO:0000269\|PubMed:16798887, ECO:0000269\|PubMed:17098808, ECO:0000269\|PubMed:17122068, ECO:0000269\|PubMed:17251269, ECO:0000269\|PubMed:17287247, ECO:0000269\|PubMed:9212461}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	PGSC0003DMP400021925

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: By BRM and SYD, at the chromatin level, and conferring a very specific spatial expression pattern. Precise spatial regulation by post-transcriptional repression directed by the microRNA miR164. {ECO:0000269\|PubMed:15202996, ECO:0000269\|PubMed:15294871, ECO:0000269\|PubMed:15723790, ECO:0000269\|PubMed:16854978, ECO:0000269\|PubMed:17251269, ECO:0000269\|PubMed:17287247}.

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

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	FJ435166	0.0	FJ435166.1 Solanum tuberosum NO APICAL MERISTEM (NAM) mRNA, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_015081121.1	0.0	protein CUP-SHAPED COTYLEDON 2-like
Swissprot	O04017	3e-77	NAC98_ARATH; Protein CUP-SHAPED COTYLEDON 2
TrEMBL	M1AX54	0.0	M1AX54_SOLTU; Uncharacterized protein
STRING	PGSC0003DMT400032280	0.0	(Solanum tuberosum)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Asterids	OGEA152	24	279

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT5G53950.1	1e-67	NAC family protein

Link Out ? help Back to Top
Phytozome	PGSC0003DMP400021925

Publications ? help Back to Top
Xu X, et al. Genome sequence and analysis of the tuber crop potato. Nature, 2011. 475(7355): p. 189-95 [PMID:21743474] Wang YX Characterization of a novel Medicago sativa NAC transcription factor gene involved in response to drought stress. Mol. Biol. Rep., 2013. 40(11): p. 6451-8 [PMID:24057250] Kamiuchi Y,Yamamoto K,Furutani M,Tasaka M,Aida M The CUC1 and CUC2 genes promote carpel margin meristem formation during Arabidopsis gynoecium development. Front Plant Sci, 2014. 5: p. 165 [PMID:24817871] Gonçalves B, et al. A conserved role for CUP-SHAPED COTYLEDON genes during ovule development. Plant J., 2015. 83(4): p. 732-42 [PMID:26119568] Du Q,Wang H The role of HD-ZIP III transcription factors and miR165/166 in vascular development and secondary cell wall formation. Plant Signal Behav, 2015. 10(10): p. e1078955 [PMID:26340415] Vialette-Guiraud AC, et al. A Conserved Role for the NAM/miR164 Developmental Module Reveals a Common Mechanism Underlying Carpel Margin Fusion in Monocarpous and Syncarpous Eurosids. Front Plant Sci, 2015. 6: p. 1239 [PMID:26793217] Cui X, et al. REF6 recognizes a specific DNA sequence to demethylate H3K27me3 and regulate organ boundary formation in Arabidopsis. Nat. Genet., 2016. 48(6): p. 694-9 [PMID:27111035] Blein T,Pautot V,Laufs P Combinations of Mutations Sufficient to Alter Arabidopsis Leaf Dissection. Plants (Basel), 2013. 2(2): p. 230-47 [PMID:27137374] Biot E, et al. Multiscale quantification of morphodynamics: MorphoLeaf software for 2D shape analysis. Development, 2016. 143(18): p. 3417-28 [PMID:27387872] Zheng M, et al. Chloroplast Translation Initiation Factors Regulate Leaf Variegation and Development. Plant Physiol., 2016. 172(2): p. 1117-1130 [PMID:27535792] Balkunde R,Kitagawa M,Xu XM,Wang J,Jackson D SHOOT MERISTEMLESS trafficking controls axillary meristem formation, meristem size and organ boundaries in Arabidopsis. Plant J., 2017. 90(3): p. 435-446 [PMID:28161901] Koyama T,Sato F,Ohme-Takagi M Roles of miR319 and TCP Transcription Factors in Leaf Development. Plant Physiol., 2017. 175(2): p. 874-885 [PMID:28842549] González-Carranza ZH, et al. HAWAIIAN SKIRT controls size and floral organ number by modulating CUC1 and CUC2 expression. PLoS ONE, 2017. 12(9): p. e0185106 [PMID:28934292] Wilson-Sánchez D,Martínez-López S,Navarro-Cartagena S,Jover-Gil S,Micol JL Members of the DEAL subfamily of the DUF1218 gene family are required for bilateral symmetry but not for dorsoventrality in Arabidopsis leaves. New Phytol., 2018. 217(3): p. 1307-1321 [PMID:29139551] Gonçalves B, et al. GDP-L-fucose is required for boundary definition in plants. J. Exp. Bot., 2017. 68(21-22): p. 5801-5811 [PMID:29186469] Sha S, et al. To be serrate or pinnate: diverse leaf forms of yarrows (Achillea) are linked to differential expression patterns of NAM genes. Ann. Bot., 2018. 121(2): p. 255-266 [PMID:29267935] Maugarny-Calès A, et al. Dissecting the pathways coordinating patterning and growth by plant boundary domains. PLoS Genet., 2019. 15(1): p. e1007913 [PMID:30677017]