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

Niben101Scf08672g02003.1

Organism

Nicotiana benthamiana

Taxonomic ID

4100

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; asterids; lamiids; Solanales; Solanaceae; Nicotianoideae; Nicotianeae; Nicotiana

Family

bHLH

Protein Properties

Length: 1009aa MW: 110230 Da PI: 5.6226

Description

bHLH family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Niben101Scf08672g02003.1	genome	BTI	-

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	HLH	38.4	2.2e-12	500	545	4	54
HHHHHHHHHHHHHHHHHHHHHCTSCCC...TTS-STCHHHHHHHHHHHHHH CS HLH 4 ahnerErrRRdriNsafeeLrellPkaskapskKlsKaeiLekAveYIksL 54 +h e+Er+RR+++N++f Lr ++P+ K++Ka+ L A+ YI++L Niben101Scf08672g02003.1 500 NHVEAERQRREKLNQRFYALRAVVPNV-----SKMDKASLLGDAISYINEL 545 799*********************6.....5*************998 PP
2	HLH	38.4	2.2e-12	829	874	4	54
HHHHHHHHHHHHHHHHHHHHHCTSCCC...TTS-STCHHHHHHHHHHHHHH CS HLH 4 ahnerErrRRdriNsafeeLrellPkaskapskKlsKaeiLekAveYIksL 54 +h e+Er+RR+++N++f Lr ++P+ K++Ka+ L A+ YI++L Niben101Scf08672g02003.1 829 NHVEAERQRREKLNQRFYALRAVVPNV-----SKMDKASLLGDAISYINEL 874 799*********************6.....5*************998 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Pfam	PF14215	1.0E-54	90	273	IPR025610	Transcription factor MYC/MYB N-terminal
PROSITE profile	PS50888	17.39	496	545	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
SuperFamily	SSF47459	2.22E-17	499	564	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
CDD	cd00083	1.08E-14	499	550	No hit	No description
Pfam	PF00010	6.9E-10	500	545	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
Gene3D	G3DSA:4.10.280.10	1.2E-17	500	565	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
SMART	SM00353	4.5E-16	502	551	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
PROSITE profile	PS50888	17.39	825	874	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
SuperFamily	SSF47459	1.7E-17	828	896	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
CDD	cd00083	1.08E-14	828	879	No hit	No description
Pfam	PF00010	6.9E-10	829	874	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
Gene3D	G3DSA:4.10.280.10	2.1E-17	829	895	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
SMART	SM00353	4.5E-16	831	880	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0046983	Molecular Function	protein dimerization activity

Sequence ? help Back to Top
Protein Sequence Length: 1009 aa Download sequence Send to blast
MTDYRLPTMN LWNASGSTDD NVSMMEALIS SDLTSFCATS NSSAAAITAN SNHIPVNTRT 60 VLLPSSCAST VTAVPVDASK SMSYFNQETL QQRLQTLIDG ARETWTYAIF WQSSVVDLTS 120 PILLVWGDGY YKGEEDKANR KLAVSSPAYI AEQEHRKKVL RELNSLISGT QTGTNDAVDE 180 EVTDTEWFFL ISMTPSFVNG SGLPGQALYN SSPIWVFGAE KLAASHCERA RQAQGFGLQT 240 MVCIPSANGV VELGSTELII QSSDIINKVR VLFNFNNDLG SGSWAVQPES DPSALWLTDP 300 SPAAVPVKDL NTVEANSVPP SNSSKQLVFD NENNGQSCDN QQQHHSQQQT QGFFTRELNF 360 SEFGFDGCNN IRNGNSSVSC KPESGEILNF CDSPKKSANG NLFSCQSHFG AGEENKNKKR 420 SAASRGSNEE GMLSFVSGTI LPAASGAMKS IGCVAEGSSD HSDLEASLVK EAESSRVVEP 480 EKRPKKRGRK PANGREEPLN HVEAERQRRE KLNQRFYALR AVVPNVSKMD KASLLGDAIS 540 YINELKLKLQ NTETDRENLK SQIEDXGPGI RASDNANGVV ELGSTELIIQ SSDIINKVRV 600 LFNFNNDLGS GSWAVQPESD PSALWLTDPS PAAVPVKDLN TVEANSVPPS NSSKQLVFDN 660 ENNGQSCDNQ QQHHSQQQTQ GFFTRELNFS EFGFDGCNNI RNGNSSVSCK PESGEILNFC 720 DSPKKSANGN LFSCQSHFGA GEENKNKKRS AASRGSNEEG MLSFVSGTIL PAASGAMKSI 780 GCVAEGSSDH SDLEASLVKE AESSRVVEPE KRPKKRGRKP ANGREEPLNH VEAERQRREK 840 LNQRFYALRA VVPNVSKMDK ASLLGDAISY INELKLKLQN TETDRENLKS QIEDLKKELA 900 SKDSRRPGPP PPNQDHKMSS HTGSKVVDVD IDVKVIGWDA MISVQCNKNN HPAARLMVAL 960 KELDLDVHHA SVSVVNDLMI QQATVKMGSR LYTEEQLRIA LTSRVAETR

Sequence ? help Back to Top

Protein Sequence Length: 1009 aa Download sequence Send to blast

MTDYRLPTMN LWNASGSTDD NVSMMEALIS SDLTSFCATS NSSAAAITAN SNHIPVNTRT  60
VLLPSSCAST VTAVPVDASK SMSYFNQETL QQRLQTLIDG ARETWTYAIF WQSSVVDLTS  120
PILLVWGDGY YKGEEDKANR KLAVSSPAYI AEQEHRKKVL RELNSLISGT QTGTNDAVDE  180
EVTDTEWFFL ISMTPSFVNG SGLPGQALYN SSPIWVFGAE KLAASHCERA RQAQGFGLQT  240
MVCIPSANGV VELGSTELII QSSDIINKVR VLFNFNNDLG SGSWAVQPES DPSALWLTDP  300
SPAAVPVKDL NTVEANSVPP SNSSKQLVFD NENNGQSCDN QQQHHSQQQT QGFFTRELNF  360
SEFGFDGCNN IRNGNSSVSC KPESGEILNF CDSPKKSANG NLFSCQSHFG AGEENKNKKR  420
SAASRGSNEE GMLSFVSGTI LPAASGAMKS IGCVAEGSSD HSDLEASLVK EAESSRVVEP  480
EKRPKKRGRK PANGREEPLN HVEAERQRRE KLNQRFYALR AVVPNVSKMD KASLLGDAIS  540
YINELKLKLQ NTETDRENLK SQIEDXGPGI RASDNANGVV ELGSTELIIQ SSDIINKVRV  600
LFNFNNDLGS GSWAVQPESD PSALWLTDPS PAAVPVKDLN TVEANSVPPS NSSKQLVFDN  660
ENNGQSCDNQ QQHHSQQQTQ GFFTRELNFS EFGFDGCNNI RNGNSSVSCK PESGEILNFC  720
DSPKKSANGN LFSCQSHFGA GEENKNKKRS AASRGSNEEG MLSFVSGTIL PAASGAMKSI  780
GCVAEGSSDH SDLEASLVKE AESSRVVEPE KRPKKRGRKP ANGREEPLNH VEAERQRREK  840
LNQRFYALRA VVPNVSKMDK ASLLGDAISY INELKLKLQN TETDRENLKS QIEDLKKELA  900
SKDSRRPGPP PPNQDHKMSS HTGSKVVDVD IDVKVIGWDA MISVQCNKNN HPAARLMVAL  960
KELDLDVHHA SVSVVNDLMI QQATVKMGSR LYTEEQLRIA LTSRVAETR

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
4rqw_A	8e-65	85	276	4	195	Transcription factor MYC3
4rqw_B	8e-65	85	276	4	195	Transcription factor MYC3
4rs9_A	8e-65	85	276	4	195	Transcription factor MYC3
4yz6_A	8e-65	85	276	4	195	Transcription factor MYC3
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Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	810	818	KRPKKRGRK

Functional Description ? help Back to Top
Source	Description
UniProt	Transcriptional activator that binds to the G-box motif (5'-AACGTG-3') found in the promoter of the jasmonate-induced gene LAPA1 (PubMed:15231736). Acts as negative regulator of blue light-mediated photomorphogenesis and positively regulates root growth (PubMed:24483714). Promotes growth in response to the phytohormones abscisic acid (ABA) and jasmonate (JA) (PubMed:24483714). Binds to the G-box motif (5'-CACGTG-3') of the RBCS-3A gene promoter (PubMed:24483714). Acts downstream of the jasmonate (JA) receptor to orchestrate JA-mediated activation of plant responses (PubMed:28733419). Positively regulates both wound-responsive and pathogen-responsive genes through MYC2-targeted transcription factors (MTFs) involved in early response to JA (PubMed:28733419). With JA2L forms a transcription module that regulates wounding-responsive genes (PubMed:28733419). With ERF.C3 forms a transcription module that regulates pathogen-responsive genes (PubMed:28733419). Plays a critical role in orchestrating JA-mediated defense gene expression during Botrytis cinerea infection (PubMed:28733419). Regulates negatively defense responses to root-knot nematodes, potentially by mediating crosstalk among the hormones strigolactones, abscisic acid (ABA) and jasmonate (JA) (PubMed:30576511). Regulates the termination of JA-mediated defense responses by specifically binding the G-box (5'-CACATG-3') motifs in the promoters of MTB1, MTB2 and MTB3, which are transcription factors that negatively regulates JA signaling (PubMed:30610166). May be involved in JA-induced chilling tolerance, possibly by ameliorating the antioxidant enzyme system of fruit and increasing proline and lycopene levels (PubMed:29528226). {ECO:0000269\|PubMed:15231736, ECO:0000269\|PubMed:24483714, ECO:0000269\|PubMed:28733419, ECO:0000269\|PubMed:29528226, ECO:0000269\|PubMed:30576511, ECO:0000269\|PubMed:30610166}.

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: Induced by methyl jasmonate (PubMed:15231736, PubMed:28733419). Induced by wounding (PubMed:15231736). Induced by infection with the fungal pathogen Botrytis cinerea (PubMed:28733419). Induced in fruit by storage in cold (PubMed:29528226). Induced by hydrogen peroxide and infection with root-knot nematodes (PubMed:30576511). {ECO:0000269\|PubMed:15231736, ECO:0000269\|PubMed:28733419, ECO:0000269\|PubMed:29528226, ECO:0000269\|PubMed:30576511}.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	NP_001312960.1	0.0	transcription factor MYC2-like
Swissprot	A0A3Q7HRZ6	0.0	MYC2_SOLLC; Transcription factor MYC2
TrEMBL	D7P228	0.0	D7P228_NICBE; BHLH1 transcription factor
STRING	XP_009780487.1	0.0	(Nicotiana sylvestris)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Asterids	OGEA3300	24	49

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G32640.1	1e-146	bHLH family protein

Publications ? help Back to Top
Todd AT,Liu E,Polvi SL,Pammett RT,Page JE A functional genomics screen identifies diverse transcription factors that regulate alkaloid biosynthesis in Nicotiana benthamiana. Plant J., 2010. 62(4): p. 589-600 [PMID:20202168] Tomato Genome Consortium The tomato genome sequence provides insights into fleshy fruit evolution. Nature, 2012. 485(7400): p. 635-41 [PMID:22660326] Gupta N,Prasad VB,Chattopadhyay S LeMYC2 acts as a negative regulator of blue light mediated photomorphogenic growth, and promotes the growth of adult tomato plants. BMC Plant Biol., 2014. 14: p. 38 [PMID:24483714] Sun H,Fan HJ,Ling HQ Genome-wide identification and characterization of the bHLH gene family in tomato. BMC Genomics, 2015. 16: p. 9 [PMID:25612924] Du M, et al. MYC2 Orchestrates a Hierarchical Transcriptional Cascade That Regulates Jasmonate-Mediated Plant Immunity in Tomato. Plant Cell, 2017. 29(8): p. 1883-1906 [PMID:28733419] Min D, et al. SlMYC2 Involved in Methyl Jasmonate-Induced Tomato Fruit Chilling Tolerance. J. Agric. Food Chem., 2018. 66(12): p. 3110-3117 [PMID:29528226] Xu X, et al. Strigolactones positively regulate defense against root-knot nematodes in tomato. J. Exp. Bot., 2019. 70(4): p. 1325-1337 [PMID:30576511] Liu Y, et al. MYC2 Regulates the Termination of Jasmonate Signaling via an Autoregulatory Negative Feedback Loop. Plant Cell, 2019. 31(1): p. 106-127 [PMID:30610166]