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

Solyc06g034340.1.1

Common Name

LOC101246350

Organism

Solanum lycopersicum

Taxonomic ID

4081

Taxonomic Lineage

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

Family

NAC

Protein Properties

Length: 341aa MW: 39497.3 Da PI: 6.7048

Description

NAC family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Solyc06g034340.1.1	genome	ITAG	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	NAM	170.7	4.5e-53	7	136	1	129
NAM 1 lppGfrFhPtdeelvveyLkkkvegkkleleevikevdiykvePwdLpk..kvkaeek.ewyfFskrdkkyatgkrknratksgyWkatgk 88 +ppGfrFhPtdeelv++yL+kk+++++++l +vik++d+yk+ePwdL++ ++ +ee+ +wyfFs++dkky+tg+r+nrat++g+Wkatg+ Solyc06g034340.1.1 7 VPPGFRFHPTDEELVDYYLRKKITSRRIDL-DVIKDIDLYKIEPWDLQElcRMGTEEQsDWYFFSHKDKKYPTGTRTNRATAAGFWKATGR 96 69**************************.9***********954555554445**************************** PP NAM 89 dkevlskkgelvglkktLvfykgrapkgektdWvmheyrle 129 dk+++s k+ l+g++ktLv+ykgrap+g+k+d +mheyrle Solyc06g034340.1.1 97 DKAIYS-KHDLIGMRKTLVYYKGRAPNGQKSDFIMHEYRLE 136 **.8899**************************85 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF101941	1.57E-58	5	156	IPR003441	NAC domain
PROSITE profile	PS51005	56.866	7	156	IPR003441	NAC domain
Pfam	PF02365	3.7E-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: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: 341 aa Download sequence Send to blast
MNSLSHVPPG FRFHPTDEEL VDYYLRKKIT SRRIDLDVIK DIDLYKIEPW DLQELCRMGT 60 EEQSDWYFFS HKDKKYPTGT RTNRATAAGF WKATGRDKAI YSKHDLIGMR KTLVYYKGRA 120 PNGQKSDFIM HEYRLETDPN GAPQEEGWVI CRVFKKKIAA GMRMDTSEHG SPIWYDDQLS 180 FMQDMDSPKP IHPQMNYINH YPNNYPNCKK EFDNLQYQTP PQNHQFLHQL PLLETNKLVA 240 APPGCSSIPI FGNIRPALVT QDPHVHPTFE NQQVADQVTD WRVLHKLVAS QLSQEDENNN 300 YSSPNTFQAK RDDEVNLNKQ EMAPENTSTA SSTSQIDLWK *

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
3ulx_A	1e-47	6	157	14	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. {ECO:0000269\|PubMed:16103214, ECO:0000269\|PubMed:25148240}.
Uniprot	TISSUE SPECIFICITY: Expressed in root, shoot and hypocotyl vascular elements, columella root caps, epidermal and cortex root cells and root-hypocotyl junctions. Observed predominantly in root imature xylem vessels (PubMed:18445131). Present in root developing xylems (PubMed:16103214, PubMed:17565617). Specifically expressed in vessels in the secondary xylem of the root-hypocotyl region, and 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:16103214, PubMed:25148240). {ECO:0000250\|UniProtKB:Q9LVA1, ECO:0000269\|PubMed:16103214, ECO:0000269\|PubMed:25148240}.

Binding Motif ? help Back to Top
Motif ID	Method	Source	Motif file
MP00136	DAP	Transfer from AT1G12260	Download

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Solyc06g034340.1.1

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

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_004240802.1	0.0	NAC domain-containing protein 7-like
Swissprot	Q9FWX2	1e-130	NAC7_ARATH; NAC domain-containing protein 7
TrEMBL	A0A3Q7GTR0	0.0	A0A3Q7GTR0_SOLLC; Uncharacterized protein
STRING	Solyc06g034340.1.1	0.0	(Solanum lycopersicum)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Asterids	OGEA134	24	297
Representative plant	OGRP17	15	800

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G12260.1	1e-120	NAC 007

Link Out ? help Back to Top
Phytozome	Solyc06g034340.1.1
Entrez Gene	101246350

Publications ? help Back to Top
Wang Y,van der Hoeven RS,Nielsen R,Mueller LA,Tanksley SD Characteristics of the tomato nuclear genome as determined by sequencing undermethylated EcoRI digested fragments. Theor. Appl. Genet., 2005. 112(1): p. 72-84 [PMID:16208505] 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] 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]