PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
Previous version: v3.0 v4.0
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID Bradi3g13117.2.p
Common NameBRADI_3g13117
Organism
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; BOP clade; Pooideae; Brachypodieae; Brachypodium
Family NAC
Protein Properties Length: 360aa    MW: 38837.1 Da    PI: 7.9874
Description NAC family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Bradi3g13117.2.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1NAM152.51.9e-47211821128
               NAM   1 lppGfrFhPtdeelvveyLkkkvegkk..........leleevikevdiykvePwdLpk..............kvkaeekewyfFskrdkkya 69 
                       +ppGfrFhPt+eelv +yL++kv++++          +++ ++i+evd+y++ePwdL++              + +  ++e+yfFs +d+ky+
  Bradi3g13117.2.p  21 VPPGFRFHPTEEELVGYYLARKVQASSnsssqnkmnkMDVLDIIQEVDLYRIEPWDLQErcgkygggggggggQEDPAREEYYFFSYKDRKYP 113
                       69**********************9997777767666666669**************9557878777776543222255699*********** PP

               NAM  70 tgkrknratksgyWkatgkdkevlsk....kgel........vglkktLvfykgrapkgektdWvmheyrl 128
                       +g+r+nrat++g+Wkatg+dk+v+s+    +           +g++ktLvfy+grap+g+ktdW++heyrl
  Bradi3g13117.2.p 114 SGTRTNRATAAGFWKATGRDKPVMSSlsssS--SspatammmIGMRKTLVFYRGRAPNGRKTDWIIHEYRL 182
                       *************************976551..145666677***************************98 PP

Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF1019415.23E-4915203IPR003441NAC domain
PROSITE profilePS5100551.42921203IPR003441NAC domain
PfamPF023657.3E-2522182IPR003441NAC domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 360 aa     Download sequence    Send to blast
MLAVAMEEQS SSASWCNTAA VPPGFRFHPT EEELVGYYLA RKVQASSNSS SQNKMNKMDV  60
LDIIQEVDLY RIEPWDLQER CGKYGGGGGG GGGQEDPARE EYYFFSYKDR KYPSGTRTNR  120
ATAAGFWKAT GRDKPVMSSL SSSSSSPATA MMMIGMRKTL VFYRGRAPNG RKTDWIIHEY  180
RLQSNQHAPT QEEGWVVCRA FVKPLPNQQQ RFSSSSYGGS GYPMMNGGGG GYGFGSSYYY  240
SDNYSPSARL MVAGGGAPPH DEHHHGVASA AESKQQVQHF SSAISGDMPP PLRSPTTLNG  300
ACAAASTDEQ LAMAAGTPTT VDWNLWSSLL QPPSTPLPQL FHGQPPPAAA PTTSSSKNN*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
3ulx_A3e-392120315168Stress-induced transcription factor NAC1
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtTranscription 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 (e.g. genes involved in secondary wall biosynthesis, cell wall modification such as xylan accumulation, and programmed cell death) (PubMed:20935069, PubMed:20488898, PubMed:22037706, PubMed:21284754). Involved in xylem formation in roots and shoots, especially regulating protoxylem vessel differentiation by promoting immature xylem vessel-specific genes expression (PubMed:16103214, PubMed:18445131, PubMed:20488898, PubMed:21498679, PubMed:21284754). Can activate the expression of several genes including XCP1, MYB46, NAC010/SND3, MYB103, MYB58, MYB63, MYB83, KNAT7, ASL19 and ASL20 (PubMed:17890373, PubMed:19088331, PubMed:18952777, PubMed:19122102, PubMed:19808805, PubMed:20935069, PubMed:21284754). {ECO:0000269|PubMed:16103214, ECO:0000269|PubMed:17890373, ECO:0000269|PubMed:18445131, 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:21284754, ECO:0000269|PubMed:21498679, ECO:0000269|PubMed:22037706}.; FUNCTION: Required for the soilborne fungal pathogen Verticillium longisporum-induced transdifferentiation of chloroplast-containing bundle sheath cells to functional xylem elements leading to stunted growth, vein clearing, and leaf chloroses, as well as xylem hyperplasia within the vasculature of leaves, hypocotyls, and roots due to reinitiation of cambial activity and transdifferentiation of xylem parenchyma cells. This developmental reprogramming mediates also an increased drought stress tolerance. {ECO:0000269|PubMed:23023171}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapBradi3g13117.2.p
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: 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, PubMed:22345435). Up-regulated in a feed-back loop by ASL20 (PubMed:19088331). Levels are monitored by proteasome-mediated degradation (PubMed:18445131). Repressed by WEE1 upon replication stress to prevent premature tracheary element differentiation (PubMed:21498679). 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:18445131, ECO:0000269|PubMed:19088331, ECO:0000269|PubMed:21498679, ECO:0000269|PubMed:22345435, ECO:0000269|PubMed:23023171}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankJQ6934270.0JQ693427.1 Brachypodium distachyon SWN6 (SWN6) mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_014755377.10.0uncharacterized protein LOC100838301 isoform X2
SwissprotQ9C8W92e-75NAC30_ARATH; NAC domain-containing protein 30
TrEMBLA0A2K2CWU10.0A0A2K2CWU1_BRADI; Uncharacterized protein
STRINGBRADI3G13117.10.0(Brachypodium distachyon)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G71930.17e-75vascular related NAC-domain protein 7
Publications ? help Back to Top
  1. 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]
  2. Valdivia ER, et al.
    Regulation of secondary wall synthesis and cell death by NAC transcription factors in the monocot Brachypodium distachyon.
    J. Exp. Bot., 2013. 64(5): p. 1333-43
    [PMID:23386682]
  3. Kakehi J, et al.
    Mutations in ribosomal proteins, RPL4 and RACK1, suppress the phenotype of a thermospermine-deficient mutant of Arabidopsis thaliana.
    PLoS ONE, 2015. 10(1): p. e0117309
    [PMID:25625317]
  4. Li Z, et al.
    A Transcriptional and Metabolic Framework for Secondary Wall Formation in Arabidopsis.
    Plant Physiol., 2016. 172(2): p. 1334-1351
    [PMID:27566165]
  5. de Lucas M, et al.
    Transcriptional Regulation of Arabidopsis Polycomb Repressive Complex 2 Coordinates Cell-Type Proliferation and Differentiation.
    Plant Cell, 2016. 28(10): p. 2616-2631
    [PMID:27650334]
  6. Tan TT, et al.
    Transcription Factors VND1-VND3 Contribute to Cotyledon Xylem Vessel Formation.
    Plant Physiol., 2018. 176(1): p. 773-789
    [PMID:29133368]
  7. Ohashi-Ito K,Iwamoto K,Fukuda H
    LOB DOMAIN-CONTAINING PROTEIN 15 Positively Regulates Expression of VND7, a Master Regulator of Tracheary Elements.
    Plant Cell Physiol., 2018. 59(5): p. 989-996
    [PMID:29444288]