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

Solyc03g083880.2.1

Common Name

LOC101247411

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: 313aa MW: 36453.7 Da PI: 6.8364

Description

NAC family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Solyc03g083880.2.1	genome	ITAG	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	NAM	174.9	2.3e-54	8	135	2	128
NAM 2 ppGfrFhPtdeelvveyLkkkvegkkleleevikevdiykvePwdLpk..kvka.eekewyfFskrdkkyatgkrknratksgyWkatgkd 89 ppGfrFhPtdeelv++yLkkk+++++++l +vikev++y++ePwdL++ ++ ee+ewyfFs++dkky+tg+r+nrat++g+Wkatg+d Solyc03g083880.2.1 8 PPGFRFHPTDEELVDYYLKKKITSTRIDL-DVIKEVNLYNIEPWDLQElcRIGReEEDEWYFFSHKDKKYPTGTRTNRATTAGFWKATGRD 97 9**************************.9***********954544442555***************************** PP NAM 90 kevlskkgelvglkktLvfykgrapkgektdWvmheyrl 128 k+v+s ++ l+g++ktLvfykgrap+g k+dW+mheyrl Solyc03g083880.2.1 98 KAVYS-NHDLIGMRKTLVFYKGRAPHGLKSDWIMHEYRL 135 *.999**************************98 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF101941	5.23E-61	5	156	IPR003441	NAC domain
PROSITE profile	PS51005	58.991	7	156	IPR003441	NAC domain
Pfam	PF02365	3.6E-28	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: 313 aa Download sequence Send to blast
MNSFSQIPPG FRFHPTDEEL VDYYLKKKIT STRIDLDVIK EVNLYNIEPW DLQELCRIGR 60 EEEDEWYFFS HKDKKYPTGT RTNRATTAGF WKATGRDKAV YSNHDLIGMR KTLVFYKGRA 120 PHGLKSDWIM HEYRLHTDPN GAHQEEGWVV CRVFKKKMAS TRKESEKESP NNNDQVPFMP 180 NHIVSQHNYP CKKELIDNLN YQIQIPSHHH HHQQSPKLVP STSISVYNNL QQSVSLLTRE 240 QVVDQVTDWR VLHKFVASQL SQEEENDYYS NTLHGVTDES NLNKQETVTE NNSTASSCFQ 300 IDLGKYTSLF VD*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
3ulx_A	2e-50	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. {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}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Solyc03g083880.2.1

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

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_019068204.2	0.0	NAC domain-containing protein 7
Swissprot	Q9FWX2	1e-110	NAC7_ARATH; NAC domain-containing protein 7
TrEMBL	A0A3Q7GAJ0	0.0	A0A3Q7GAJ0_SOLLC; Uncharacterized protein
STRING	Solyc03g083880.2.1	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
AT1G62700.1	3e-97	Arabidopsis NAC domain containing protein 26

Link Out ? help Back to Top
Phytozome	Solyc03g083880.2.1
Entrez Gene	101247411

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]