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

GSBRNA2T00109854001

Common Name

GSBRNA2T00109854001

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: 261aa MW: 29847.5 Da PI: 5.993

Description

NAC family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
GSBRNA2T00109854001	genome	Genoscope	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	NAM	172.1	1.7e-53	8	136	2	129
NAM 2 ppGfrFhPtdeelvveyLkkkvegkkleleevikevdiykvePwdLpk...kvkaeekewyfFskrdkkyatgkrknratksgyWkatgk 88 ppG+rFhPtdeelv++yLkkkv+ +++ +vik+vd+yk+ePwd+++ + ++ee+ewyfFs+++kky+tg+r+nrat sg+Wkatg+ GSBRNA2T00109854001 8 PPGYRFHPTDEELVDYYLKKKVAFPGMQV-DVIKDVDLYKIEPWDIHElcgRGTGEEREWYFFSHKEKKYPTGTRTNRATGSGFWKATGR 96 9**************************.99**********854555555788**************************** PP NAM 89 dkevlskkgelvglkktLvfykgrapkgektdWvmheyrle 129 dk+++s k+elvg++ktLvfykgrap+g+k+dW++heyrle GSBRNA2T00109854001 97 DKAIYS-KQELVGMRKTLVFYKGRAPNGQKSDWILHEYRLE 136 **.999***************************85 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF101941	6.15E-59	6	156	IPR003441	NAC domain
PROSITE profile	PS51005	57.892	7	156	IPR003441	NAC domain
Pfam	PF02365	4.0E-27	8	135	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

Sequence ? help Back to Top
Protein Sequence Length: 261 aa Download sequence Send to blast
MEGLSLIPPG YRFHPTDEEL VDYYLKKKVA FPGMQVDVIK DVDLYKIEPW DIHELCGRGT 60 GEEREWYFFS HKEKKYPTGT RTNRATGSGF WKATGRDKAI YSKQELVGMR KTLVFYKGRA 120 PNGQKSDWIL HEYRLETDEN GPPHEEGWVV CRAFKKKLTT MMNYNNPRTM MGSSSSGQES 180 NWFVQEMDVA NGSYYHLPDL ESPRMFQASS SSLHHNDNDP YGGVLSTINA TPTTLMQGDD 240 QVDHGQVITN DDDHMIMMII *

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
3ulx_A	6e-49	7	157	15	169	Stress-induced transcription factor NAC1
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, especially newly proliferating cells derived presumably from pericycle. {ECO:0000269\|PubMed:16103214}.
Uniprot	TISSUE SPECIFICITY: Expressed in root inner metaxylem vessels and in hypocotyl vessels (PubMed:18445131, PubMed:18952777). Present in root developing xylems (PubMed:16103214). Accumulates in the xylem but not in interfascicular fibers or pith cells in inflorescence stems. Absent from secondary xylem in roots (PubMed:18952777). {ECO:0000269\|PubMed:16103214, ECO:0000269\|PubMed:18445131, ECO:0000269\|PubMed:18952777}.

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', and to the tracheary elements (TE) specific regulating cis-element (TERE), 5'-CTTNAAAGCNA-3', in the promoter of target genes (e.g. genes involved in secondary wall biosynthesis, cell wall modification such as xylan accumulation, and programmed cell death) (PubMed:20935069, PubMed:20952636, PubMed:20488898). Involved in xylem formation in roots and shoots, especially regulating metaxylem vessel differentiation by promoting immature xylem vessel-specific genes expression, especially genes regulating programmed cell death (PCD) and secondary wall formation in tracheary elements (TE) (PubMed:16103214, PubMed:20952636, PubMed:20488898). Can activate MYB25, MYB46, MYB58, MYB63, MYB83, MYB103, CESA4, LBD15, LBD30, ERF115, XCP1, XCP2, NAC010/SND3, KNAT7, ASL19 and ASL20 expression (PubMed:17890373, PubMed:18952777, PubMed:19088331, PubMed:19122102, PubMed:19808805, PubMed:20935069, PubMed:20952636). {ECO:0000269\|PubMed:16103214, ECO:0000269\|PubMed:17890373, ECO:0000269\|PubMed:18952777, ECO:0000269\|PubMed:19088331, ECO:0000269\|PubMed:19122102, ECO:0000269\|PubMed:19808805, ECO:0000269\|PubMed:20488898, ECO:0000269\|PubMed:20935069, ECO:0000269\|PubMed:20952636}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	GSBRNA2T00109854001

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: By brassinosteroids (e.g. brassinolide BL), auxin (e.g. 2,4-dichlorphenoxyacetic acid 2,4-D) and cytokinin (e.g. kinetin), with a synergistic effect (PubMed:16103214). Accumulates during infection by the soilborne fungal pathogen Verticillium longisporum, especially in tissues undergoing de novo xylem formation (PubMed:23023171). {ECO:0000269\|PubMed:16103214, ECO:0000269\|PubMed:23023171}.

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	BT026510	0.0	BT026510.1 Arabidopsis thaliana At5g62380 mRNA, complete cds.
GenBank	DQ056734	0.0	DQ056734.1 Arabidopsis thaliana no apical meristem family protein (At5g62380) mRNA, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_013710296.1	0.0	NAC domain-containing protein 101
Swissprot	Q9LVA1	1e-168	NC101_ARATH; NAC domain-containing protein 101
TrEMBL	A0A078J597	0.0	A0A078J597_BRANA; BnaC03g74980D protein
STRING	Bo3g107700.1	0.0	(Brassica oleracea)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM12248	17	32

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT5G62380.1	1e-171	NAC-domain protein 101

Publications ? help Back to Top
Heyndrickx KS,Vandepoele K Systematic identification of functional plant modules through the integration of complementary data sources. Plant Physiol., 2012. 159(3): p. 884-901 [PMID:22589469] 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]