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

XP_016490215.1

Common Name

lbm1

Organism

Nicotiana tabacum

Taxonomic ID

4097

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

MYB

Protein Properties

Length: 281aa MW: 31984.7 Da PI: 4.8528

Description

MYB family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
XP_016490215.1	genome	NCBI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	Myb_DNA-binding	54.3	3e-17	14	61	1	48
TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHHHT CS Myb_DNA-binding 1 rgrWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqkyl 48 +g+WT+eEd++lv +++ G g+W++ ++ g+ R++k+c++rw +yl XP_016490215.1 14 KGPWTPEEDQILVSYIQTNGHGNWRALPKLAGLLRCGKSCRLRWTNYL 61 79****************************99**********97 PP
2	Myb_DNA-binding	51	3.3e-16	67	112	1	48
TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHHHT CS Myb_DNA-binding 1 rgrWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqkyl 48 rg++T eE++ +++++++lG++ W++Ia++++ gRt++++k+ w+++l XP_016490215.1 67 RGNFTREEEDSIIQLHEMLGNR-WSAIAARLP-GRTDNEIKNVWHTHL 112 89******************.*****.**********986 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Gene3D	G3DSA:1.10.10.60	1.8E-24	5	64	IPR009057	Homeodomain-like
PROSITE profile	PS51294	16.528	9	61	IPR017930	Myb domain
SuperFamily	SSF46689	8.8E-31	10	108	IPR009057	Homeodomain-like
SMART	SM00717	1.0E-13	13	63	IPR001005	SANT/Myb domain
Pfam	PF00249	7.4E-16	14	61	IPR001005	SANT/Myb domain
CDD	cd00167	7.45E-11	16	61	No hit	No description
PROSITE profile	PS51294	25.108	62	116	IPR017930	Myb domain
Gene3D	G3DSA:1.10.10.60	2.6E-26	65	117	IPR009057	Homeodomain-like
SMART	SM00717	2.9E-14	66	114	IPR001005	SANT/Myb domain
Pfam	PF00249	3.0E-15	67	112	IPR001005	SANT/Myb domain
CDD	cd00167	1.00E-10	69	112	No hit	No description

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0003677	Molecular Function	DNA binding

Sequence ? help Back to Top
Protein Sequence Length: 281 aa Download sequence Send to blast
MVRAPCCEKM GLKKGPWTPE EDQILVSYIQ TNGHGNWRAL PKLAGLLRCG KSCRLRWTNY 60 LRPDIKRGNF TREEEDSIIQ LHEMLGNRWS AIAARLPGRT DNEIKNVWHT HLKKRLKNYQ 120 PPQNSKRHSK NNLDSKAPST SQTFNNSDNF SNIQEDINGP VTGPNSPQRS SSEMSTVTVD 180 STAMTTITID DQNMFKQLDE MDSSENFIPE IDESFWTDDL STSDNSTFGM EGTGGELQVQ 240 FPFSSVKQES MDMVGAKLED DMDFWYNVFI KSGDLLDLPE F

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
1gv2_A	6e-27	12	116	2	105	MYB PROTO-ONCOGENE PROTEIN
1h8a_C	6e-27	12	116	25	128	MYB TRANSFORMING PROTEIN
1mse_C	6e-27	12	116	2	105	C-Myb DNA-Binding Domain
1msf_C	6e-27	12	116	2	105	C-Myb DNA-Binding Domain
Search in ModeBase

Functional Description ? help Back to Top
Source	Description
UniProt	Transcription factor involved in cold-regulation of CBF genes and in the development of freezing tolerance. May be part of a complex network of transcription factors controlling the expression of CBF genes and other genes in response to cold stress. Binds to the MYB recognition sequences in the promoters of CBF1, CBF2 and CBF3 genes (PubMed:17015446). Involved in drought and salt tolerance. May enhance expression levels of genes involved in abscisic acid (ABA) biosynthesis and signaling, as well as those encoding stress-protective proteins (PubMed:19161942). {ECO:0000269\|PubMed:17015446, ECO:0000269\|PubMed:19161942}.

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: Induced by abscisic acid (ABA) and drought stress (PubMed:19161942). Induced by salt stress (PubMed:19161942). {ECO:0000269\|PubMed:19161942}.

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	AB028649	0.0	AB028649.1 Nicotiana tabacum gene for myb-related transcription factor LBM1, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_009629052.1	0.0	PREDICTED: myb-related protein Myb4-like
Refseq	XP_016490215.1	0.0	PREDICTED: myb-related protein Myb4-like
Swissprot	Q9LTC4	2e-91	MYB15_ARATH; Transcription factor MYB15
TrEMBL	Q9SLT2	0.0	Q9SLT2_TOBAC; Myb-related transcription factor LBM1
STRING	XP_009629052.1	0.0	(Nicotiana tomentosiformis)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Asterids	OGEA12	24	2154

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT3G23250.1	7e-94	myb domain protein 15

Link Out ? help Back to Top
Entrez Gene	107810011

Publications ? help Back to Top
Sugimoto K,Takeda S,Hirochika H MYB-related transcription factor NtMYB2 induced by wounding and elicitors is a regulator of the tobacco retrotransposon Tto1 and defense-related genes. Plant Cell, 2000. 12(12): p. 2511-2528 [PMID:11148294] Schnaubelt D, et al. Low glutathione regulates gene expression and the redox potentials of the nucleus and cytosol in Arabidopsis thaliana. Plant Cell Environ., 2015. 38(2): p. 266-79 [PMID:24329757] Ding Y, et al. Four distinct types of dehydration stress memory genes in Arabidopsis thaliana. BMC Plant Biol., 2013. 13: p. 229 [PMID:24377444] Ma X, et al. CYCLIN-DEPENDENT KINASE G2 regulates salinity stress response and salt mediated flowering in Arabidopsis thaliana. Plant Mol. Biol., 2015. 88(3): p. 287-99 [PMID:25948280] Kim SH, et al. Phosphorylation of the transcriptional repressor MYB15 by mitogen-activated protein kinase 6 is required for freezing tolerance in Arabidopsis. Nucleic Acids Res., 2017. 45(11): p. 6613-6627 [PMID:28510716] Chezem WR,Memon A,Li FS,Weng JK,Clay NK SG2-Type R2R3-MYB Transcription Factor MYB15 Controls Defense-Induced Lignification and Basal Immunity in Arabidopsis. Plant Cell, 2017. 29(8): p. 1907-1926 [PMID:28733420] Pal S, et al. TransDetect Identifies a New Regulatory Module Controlling Phosphate Accumulation. Plant Physiol., 2017. 175(2): p. 916-926 [PMID:28827455]