PlantTFDB - Plant Transcription Factor Database @ CBI, PKU

PlantRegMap/PlantTFDB v5.0

Plant Transcription Factor Database

Transcription Factor Information

Basic Information | Signature Domain | Sequence |

Protein Features |

Publication

Basic Information? help Back to Top

TF ID

Niben101Scf01060g01010.1

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

LSD

Protein Properties

Length: 380aa MW: 40573.5 Da PI: 9.0977

Description

LSD family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Niben101Scf01060g01010.1	genome	BTI	-

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-LSD1	38.7	1.6e-12	7	30	1	24
zf-LSD1 1 CggCrtlLsYPrGApsVRCalCdt 24 C+gCrt+L YPrGA++V+CalC++ Niben101Scf01060g01010.1 7 CSGCRTILLYPRGASNVCCALCNA 30 **********************97 PP
2	zf-LSD1	44.2	3.1e-14	46	70	1	25
zf-LSD1 1 CggCrtlLsYPrGApsVRCalCdtV 25 CggCrtlL+ PrGA+sVRC++C+tV Niben101Scf01060g01010.1 46 CGGCRTLLMHPRGASSVRCSCCHTV 70 ************************9 PP
3	zf-LSD1	38.7	1.6e-12	84	107	1	24
zf-LSD1 1 CggCrtlLsYPrGApsVRCalCdt 24 Cg+Cr +L+YP GApsV+Ca+C+ Niben101Scf01060g01010.1 84 CGNCRMMLMYPCGAPSVKCAICHY 107 **********************96 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
TIGRFAMs	TIGR01053	2.9E-12	4	32	IPR005735	Zinc finger, LSD1-type
Pfam	PF06943	9.7E-11	7	30	IPR005735	Zinc finger, LSD1-type
TIGRFAMs	TIGR01053	7.0E-17	43	73	IPR005735	Zinc finger, LSD1-type
Pfam	PF06943	1.4E-12	46	70	IPR005735	Zinc finger, LSD1-type
TIGRFAMs	TIGR01053	3.1E-11	81	110	IPR005735	Zinc finger, LSD1-type
Pfam	PF06943	3.9E-12	84	108	IPR005735	Zinc finger, LSD1-type
Pfam	PF04535	6.0E-36	205	354	IPR006702	Domain of unknown function DUF588
TIGRFAMs	TIGR01569	3.6E-44	209	366	IPR006459	Casparian strip membrane protein

Sequence ? help Back to Top
Protein Sequence Length: 380 aa Download sequence Send to blast
MQSQLMCSGC RTILLYPRGA SNVCCALCNA LTPVPPPGME MAQLICGGCR TLLMHPRGAS 60 SVRCSCCHTV NLVPGPNQFA HVYCGNCRMM LMYPCGAPSV KCAICHYITN VNAGDGRVHV 120 PNGTATPASG SSSSTAKARS QNQTVVVQNP MSVDESGKLK LSKHKMAQEN GQQKPGMAAG 180 SNNQQLVGEN NNNSNYKPKD YYNWVIALLR LLTFGATISA TLVMALNKQK KTFVVATIGT 240 TPIQATLTAK FQHTPAFVFF VIANGLCSLH NLLMLAACFI GSKYDFKGLR FYVIGVLDMM 300 NVALVSGGAS AAAFMGQLGK DGNSHARWNK ICDKFDIYCS HGEGAIIVSF IGLLLMIITT 360 AITIIKLKTI QNSGSCAIIP

Sequence ? help Back to Top

Protein Sequence Length: 380 aa Download sequence Send to blast

MQSQLMCSGC RTILLYPRGA SNVCCALCNA LTPVPPPGME MAQLICGGCR TLLMHPRGAS  60
SVRCSCCHTV NLVPGPNQFA HVYCGNCRMM LMYPCGAPSV KCAICHYITN VNAGDGRVHV  120
PNGTATPASG SSSSTAKARS QNQTVVVQNP MSVDESGKLK LSKHKMAQEN GQQKPGMAAG  180
SNNQQLVGEN NNNSNYKPKD YYNWVIALLR LLTFGATISA TLVMALNKQK KTFVVATIGT  240
TPIQATLTAK FQHTPAFVFF VIANGLCSLH NLLMLAACFI GSKYDFKGLR FYVIGVLDMM  300
NVALVSGGAS AAAFMGQLGK DGNSHARWNK ICDKFDIYCS HGEGAIIVSF IGLLLMIITT  360
AITIIKLKTI QNSGSCAIIP

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_009624212.1	1e-146	PREDICTED: CASP-like protein 1B2
Refseq	XP_016481045.1	1e-146	PREDICTED: CASP-like protein 1B2
Swissprot	B9GIE4	9e-73	CSPL5_POPTR; CASP-like protein 1B2
TrEMBL	A0A1S4AWQ3	1e-144	A0A1S4AWQ3_TOBAC; CASP-like protein
STRING	XP_009624212.1	1e-145	(Nicotiana tomentosiformis)

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G32540.1	9e-52	lsd one like 1

Publications ? help Back to Top
Tuskan GA, et al. The genome of black cottonwood, Populus trichocarpa (Torr. & Gray). Science, 2006. 313(5793): p. 1596-604 [PMID:16973872] Roppolo D, et al. Functional and Evolutionary Analysis of the CASPARIAN STRIP MEMBRANE DOMAIN PROTEIN Family. Plant Physiol., 2014. 165(4): p. 1709-1722 [PMID:24920445]