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

LOC_Os06g04090.1

Common Name

134P10.2, LOC4340011, Os06g0131700, OSNPB_060131700, P0493C11.25-1, P0679C08.7-1

Organism

Oryza sativa subsp. japonica

Taxonomic ID

39947

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; BOP clade; Oryzoideae; Oryzeae; Oryzinae; Oryza; Oryza sativa

Family

NAC

Protein Properties

Length: 396aa MW: 42026.9 Da PI: 7.0686

Description

NAC family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
LOC_Os06g04090.1	genome	MSU	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	NAM	169.8	8.8e-53	11	139	1	128
NAM 1 lppGfrFhPtdeelvveyLkkkvegkkleleevikevdiykvePwdLpk..kvka.eekewyfFskrdkkyatgkrknratksgyWkatgkdk 90 +ppGfrFhPt+eel+++yLkkkv++++++l +vi++vd++k+ePwd+++ ++ + +++wyfFs++dkky+tg+r+nrat++g+Wkatg+dk LOC_Os06g04090.1 11 VPPGFRFHPTEEELLTYYLKKKVASERIDL-DVIRDVDLNKLEPWDIQErcRIGSgPQNDWYFFSHKDKKYPTGTRTNRATAAGFWKATGRDK 102 69**************************.9***********953444443456****************************** PP NAM 91 evlskkgelvglkktLvfykgrapkgektdWvmheyrl 128 +++s +++ +g++ktLvfykgrap+g+k+dW+mheyrl LOC_Os06g04090.1 103 AIYS-SSNRIGMRKTLVFYKGRAPHGQKSDWIMHEYRL 139 .9999*************************98 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF101941	4.18E-57	7	149	IPR003441	NAC domain
PROSITE profile	PS51005	55.858	11	189	IPR003441	NAC domain
Pfam	PF02365	6.5E-28	12	139	IPR003441	NAC domain
SuperFamily	SSF101941	4.18E-57	177	189	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:0005634	Cellular Component	nucleus
GO:0003677	Molecular Function	DNA binding

Plant Ontology ? help Back to Top
PO Term	PO Category	PO Description
PO:0009047	anatomy	stem
PO:0007010	developmental stage	whole plant fruit ripening stage
PO:0007130	developmental stage	sporophyte reproductive stage

Sequence ? help Back to Top
Protein Sequence Length: 396 aa Download sequence Send to blast
MSISVNGQSV VPPGFRFHPT EEELLTYYLK KKVASERIDL DVIRDVDLNK LEPWDIQERC 60 RIGSGPQNDW YFFSHKDKKY PTGTRTNRAT AAGFWKATGR DKAIYSSSNR IGMRKTLVFY 120 KGRAPHGQKS DWIMHEYRLD DPSSASASVS VNLPSYYSSS SSSSSPMHGV AGDQGAQEEG 180 WVICRVFKKK NLVHHGGGAA AASHHAAAKL AAAAMEGSPS NCSTVTVSDH VKAQMLHSSA 240 SDDALDHILQ YMGRSGCKQE TKPAAMSASS AAAAAALEQH LSTPQYGKFM KLPPLEHVAG 300 GVGLLAAAGG GGEYCSAADA SGIADWDTLD RLAASYELNG ALSDVASGKN MAGFFDVVDQ 360 PAGAAAFSSG DGDLWSLARS VSSSLHADLT TMNNV*

Sequence ? help Back to Top

Protein Sequence Length: 396 aa Download sequence Send to blast

MSISVNGQSV VPPGFRFHPT EEELLTYYLK KKVASERIDL DVIRDVDLNK LEPWDIQERC  60
RIGSGPQNDW YFFSHKDKKY PTGTRTNRAT AAGFWKATGR DKAIYSSSNR IGMRKTLVFY  120
KGRAPHGQKS DWIMHEYRLD DPSSASASVS VNLPSYYSSS SSSSSPMHGV AGDQGAQEEG  180
WVICRVFKKK NLVHHGGGAA AASHHAAAKL AAAAMEGSPS NCSTVTVSDH VKAQMLHSSA  240
SDDALDHILQ YMGRSGCKQE TKPAAMSASS AAAAAALEQH LSTPQYGKFM KLPPLEHVAG  300
GVGLLAAAGG GGEYCSAADA SGIADWDTLD RLAASYELNG ALSDVASGKN MAGFFDVVDQ  360
PAGAAAFSSG DGDLWSLARS VSSSLHADLT TMNNV*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
1ut4_A	9e-48	8	191	14	167	NO APICAL MERISTEM PROTEIN
1ut4_B	9e-48	8	191	14	167	NO APICAL MERISTEM PROTEIN
1ut7_A	9e-48	8	191	14	167	NO APICAL MERISTEM PROTEIN
1ut7_B	9e-48	8	191	14	167	NO APICAL MERISTEM PROTEIN
3swm_A	1e-47	8	191	17	170	NAC domain-containing protein 19
3swm_B	1e-47	8	191	17	170	NAC domain-containing protein 19
3swm_C	1e-47	8	191	17	170	NAC domain-containing protein 19
3swm_D	1e-47	8	191	17	170	NAC domain-containing protein 19
3swp_A	1e-47	8	191	17	170	NAC domain-containing protein 19
3swp_B	1e-47	8	191	17	170	NAC domain-containing protein 19
3swp_C	1e-47	8	191	17	170	NAC domain-containing protein 19
3swp_D	1e-47	8	191	17	170	NAC domain-containing protein 19
4dul_A	9e-48	8	191	14	167	NAC domain-containing protein 19
4dul_B	9e-48	8	191	14	167	NAC domain-containing protein 19
Search in ModeBase

Expression -- UniGene ? help Back to Top
UniGene ID	E-value	Expressed in
Os.50054	0.0	leaf\| panicle\| stem

Expression -- Microarray ? help Back to Top
Source	ID	E-value
GEO	116633321	0.0
Expression Atlas	Q9SNM6	-

Expression -- Description ? help Back to Top
Source	Description
Uniprot	TISSUE SPECIFICITY: Expressed in various aboveground tissues undergoing thickening of the lignified secondary wall such as anthers, filaments of stamens, the base of carpels, styles, the boundaries between siliques and pedicels, the midrib of leaf veins, and inflorescence stems, specifically in interfascicular fibers (sclerenchyma), cells differentiating into vascular vessels, and xylary fibers (secondary xylem). {ECO:0000269\|PubMed:16214898, ECO:0000269\|PubMed:17237351}.

Functional Description ? help Back to Top
Source	Description
UniProt	Transcription activator of genes involved in biosynthesis of secondary walls. Together with NST2 and NST3, required for the secondary cell wall thickening of sclerenchymatous fibers, secondary xylem (tracheary elements), and of the anther endocethium, which is necessary for anther dehiscence. May also regulate the secondary cell wall lignification of other tissues. {ECO:0000269\|PubMed:16214898, ECO:0000269\|PubMed:17237351, ECO:0000269\|PubMed:17333250}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	LOC_Os06g04090.1

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

Phenotype -- Mutation ? help Back to Top
Source	ID
RiceGE	Os06g04090

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	AK119784	0.0	AK119784.1 Oryza sativa Japonica Group cDNA clone:002-173-F05, full insert sequence.
GenBank	JN634070	0.0	JN634070.1 Oryza sativa Japonica Group secondary wall NAC transcription factor 1 mRNA, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_015643041.1	0.0	NAC domain-containing protein 43
Swissprot	Q84WP6	1e-107	NAC43_ARATH; NAC domain-containing protein 43
TrEMBL	A0A0E0PT13	0.0	A0A0E0PT13_ORYRU; Uncharacterized protein
TrEMBL	A2Y8W5	0.0	A2Y8W5_ORYSI; Uncharacterized protein
TrEMBL	I1PZ86	0.0	I1PZ86_ORYGL; Uncharacterized protein
TrEMBL	Q9SNM6	0.0	Q9SNM6_ORYSJ; Os06g0131700 protein
STRING	ORUFI06G01950.1	0.0	(Oryza rufipogon)
STRING	OS06T0131700-01	0.0	(Oryza sativa)
STRING	ORGLA06G0019800.1	0.0	(Oryza glaberrima)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Monocots	OGMP1597	38	112
Representative plant	OGRP17	15	800

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT2G46770.1	2e-90	NAC family protein

Link Out ? help Back to Top
Phytozome	LOC_Os06g04090.1
Entrez Gene	4340011

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] Zhong R, et al. Transcriptional activation of secondary wall biosynthesis by rice and maize NAC and MYB transcription factors. Plant Cell Physiol., 2011. 52(10): p. 1856-71 [PMID:21908441] Gondolf VM, et al. A gene stacking approach leads to engineered plants with highly increased galactan levels in Arabidopsis. BMC Plant Biol., 2014. 14: p. 344 [PMID:25492673] Jaradat MR,Ruegger M,Bowling A,Butler H,Cutler AJ A comprehensive transcriptome analysis of silique development and dehiscence in Arabidopsis and Brassica integrating genotypic, interspecies and developmental comparisons. GM Crops Food, 2014. 5(4): p. 302-20 [PMID:25523176] Yuan Y,Teng Q,Zhong R,Ye ZH TBL3 and TBL31, Two Arabidopsis DUF231 Domain Proteins, are Required for 3-O-Monoacetylation of Xylan. Plant Cell Physiol., 2016. 57(1): p. 35-45 [PMID:26556650] Yang C, et al. Transcription Factor MYB26 Is Key to Spatial Specificity in Anther Secondary Thickening Formation. Plant Physiol., 2017. 175(1): p. 333-350 [PMID:28724622] Pascual MB, et al. PpNAC1, a main regulator of phenylalanine biosynthesis and utilization in maritime pine. Plant Biotechnol. J., 2018. 16(5): p. 1094-1104 [PMID:29055073] Liu C,Yu H,Li L SUMO modification of LBD30 by SIZ1 regulates secondary cell wall formation in Arabidopsis thaliana. PLoS Genet., 2019. 15(1): p. e1007928 [PMID:30657769]