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

GSBRNA2T00046205001

Common Name

GSBRNA2T00046205001, LOC106356512

Organism

Brassica napus

Taxonomic ID

3708

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Brassiceae; Brassica

Family

NAC

Protein Properties

Length: 296aa MW: 34146.5 Da PI: 6.0797

Description

NAC family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
GSBRNA2T00046205001	genome	Genoscope	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	NAM	173	8.9e-54	12	138	2	127
NAM 2 ppGfrFhPtdeelvveyLkkkvegkkleleevikevdiykvePwdLpk...kvkaeekewyfFskrdkkyatgkrknratksgyWkatgk 88 ppGfrFhPtdeelv +yLkkkv++++++l +vi+e+d+yk+ePwdL++ ++e+kewyfFs++dkky+tg+r+nrat +g+Wkatg+ GSBRNA2T00046205001 12 PPGFRFHPTDEELVGYYLKKKVASQSIDL-DVIREIDLYKIEPWDLQErcrIGYEEQKEWYFFSHKDKKYPTGTRTNRATMAGFWKATGR 100 9**************************.9***********953432234677**************************** PP NAM 89 dkevlskkgelvglkktLvfykgrapkgektdWvmheyr 127 dk+v+ +++l+g++ktLvfy+grap+g+k+dW++hey GSBRNA2T00046205001 101 DKAVYL-NSKLIGMRKTLVFYRGRAPNGQKSDWIIHEYY 138 **.999*************************95 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF101941	1.7E-59	7	162	IPR003441	NAC domain
PROSITE profile	PS51005	57.406	11	162	IPR003441	NAC domain
Pfam	PF02365	9.7E-27	12	137	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:0048759	Biological Process	xylem vessel member cell differentiation
GO:1901348	Biological Process	positive regulation of secondary cell wall biogenesis
GO:0005634	Cellular Component	nucleus
GO:0003677	Molecular Function	DNA binding

Sequence ? help Back to Top
Protein Sequence Length: 296 aa Download sequence Send to blast
MMGPVDQESS IPPGFRFHPT DEELVGYYLK KKVASQSIDL DVIREIDLYK IEPWDLQERC 60 RIGYEEQKEW YFFSHKDKKY PTGTRTNRAT MAGFWKATGR DKAVYLNSKL IGMRKTLVFY 120 RGRAPNGQKS DWIIHEYYSL ESHQNAPQQQ EEGWVVCRAF KKRTTVPTKR RQIWDSNCFL 180 YDDATLLEPL DKNVLIKRAK HNTDGLAVTP FKQELPSEAN QIVDDGFFGS MYLKSMGDDE 240 LSQLPQLESP SLASDKLPET TSRTGEDDVG AEKRMTDWRA LDKFVASQFL MNGEE*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
1ut4_A	4e-50	10	166	16	169	NO APICAL MERISTEM PROTEIN
1ut4_B	4e-50	10	166	16	169	NO APICAL MERISTEM PROTEIN
1ut7_A	4e-50	10	166	16	169	NO APICAL MERISTEM PROTEIN
1ut7_B	4e-50	10	166	16	169	NO APICAL MERISTEM PROTEIN
3swm_A	4e-50	10	166	19	172	NAC domain-containing protein 19
3swm_B	4e-50	10	166	19	172	NAC domain-containing protein 19
3swm_C	4e-50	10	166	19	172	NAC domain-containing protein 19
3swm_D	4e-50	10	166	19	172	NAC domain-containing protein 19
3swp_A	4e-50	10	166	19	172	NAC domain-containing protein 19
3swp_B	4e-50	10	166	19	172	NAC domain-containing protein 19
3swp_C	4e-50	10	166	19	172	NAC domain-containing protein 19
3swp_D	4e-50	10	166	19	172	NAC domain-containing protein 19
4dul_A	4e-50	10	166	16	169	NAC domain-containing protein 19
4dul_B	4e-50	10	166	16	169	NAC domain-containing protein 19
Search in ModeBase

Expression -- Description ? help Back to Top
Source	Description
Uniprot	DEVELOPMENTAL STAGE: Up-regulated during xylem vessel element formation. Expressed preferentially in procambial cells adjacent to root meristem. {ECO:0000269\|PubMed:16103214, ECO:0000269\|PubMed:25148240}.
Uniprot	TISSUE SPECIFICITY: Detected in root protoxylem and metaxylem poles and in vessels of protoxylems, outermost metaxylems, inner metaxylems, shoots and hypocotyls. Expressed in roots, hypocotyls, cotyledons and leaves (PubMed:18445131). Present in developing xylems (PubMed:16103214, PubMed:17565617). Present in root developing xylems (PubMed:16103214). Specifically expressed in vessels but not in interfascicular fibers in stems (PubMed:25148240). {ECO:0000269\|PubMed:16103214, ECO:0000269\|PubMed:17565617, ECO:0000269\|PubMed:18445131, ECO:0000269\|PubMed:25148240}.

Functional Description ? help Back to Top
Source	Description
UniProt	Transcription activator that binds to the secondary wall NAC binding element (SNBE), 5'-(T/A)NN(C/T)(T/C/G)TNNNNNNNA(A/C)GN(A/C/T)(A/T)-3', in the promoter of target genes (By similarity). Involved in xylem formation by promoting the expression of secondary wall-associated transcription factors and of genes involved in secondary wall biosynthesis and programmed cell death, genes driven by the secondary wall NAC binding element (SNBE). Triggers thickening of secondary walls (PubMed:25148240). {ECO:0000250\|UniProtKB:Q9LVA1, ECO:0000269\|PubMed:25148240}.

Binding Motif ? help Back to Top
Motif ID	Method	Source	Motif file
MP00590	DAP	Transfer from AT5G66300	Download

Cis-element ? help Back to Top
Source	Link
PlantRegMap	GSBRNA2T00046205001

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

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	KF738278	0.0	KF738278.1 Brassica napus NAC transcription factor 105 (NAC105.1) mRNA, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_013651709.1	0.0	NAC domain-containing protein 105-like isoform X1
Swissprot	Q9FH59	1e-170	NC105_ARATH; NAC domain-containing protein 105
TrEMBL	A0A078H1T9	0.0	A0A078H1T9_BRANA; BnaC07g16780D protein
STRING	Bo7g065010.1	0.0	(Brassica oleracea)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM15134	16	19

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT5G66300.1	1e-160	NAC domain containing protein 105

Link Out ? help Back to Top
Entrez Gene	106356512

Publications ? help Back to Top
Chalhoub B, et al. Plant genetics. Early allopolyploid evolution in the post-Neolithic Brassica napus oilseed genome. Science, 2014. 345(6199): p. 950-3 [PMID:25146293] Tan TT, et al. Transcription Factors VND1-VND3 Contribute to Cotyledon Xylem Vessel Formation. Plant Physiol., 2018. 176(1): p. 773-789 [PMID:29133368]