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

RrC1907_p1

Organism

Raphanus raphanistrum

Taxonomic ID

109996

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Brassiceae; Raphanus

Family

LSD

Protein Properties

Length: 91aa MW: 10114.9 Da PI: 9.0117

Description

LSD family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
RrC1907_p1	genome	MSU	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-LSD1	37.4	4.2e-12	3	26	1	24
zf-LSD1 1 CggCrtlLsYPrGApsVRCalCdt 24 Cg+Cr lLsYPrG ++V+C++C t RrC1907_p1 3 CGSCRRLLSYPRGTKHVKCSCCLT 26 **********************87 PP
2	zf-LSD1	44.8	2e-14	41	65	1	25
zf-LSD1 1 CggCrtlLsYPrGApsVRCalCdtV 25 C++C lL+YP+GApsVRC++C V RrC1907_p1 41 CSSCELLLMYPYGAPSVRCSSCKSV 65 **********************987 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
TIGRFAMs	TIGR01053	3.9E-15	1	30	IPR005735	Zinc finger, LSD1-type
Pfam	PF06943	1.1E-9	3	25	IPR005735	Zinc finger, LSD1-type
TIGRFAMs	TIGR01053	2.2E-12	38	66	IPR005735	Zinc finger, LSD1-type
Pfam	PF06943	9.1E-12	41	65	IPR005735	Zinc finger, LSD1-type

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0009617	Biological Process	response to bacterium

Sequence ? help Back to Top
Protein Sequence Length: 91 aa Download sequence Send to blast
MVCGSCRRLL SYPRGTKHVK CSCCLTLNLV LEAYQVGQVK CSSCELLLMY PYGAPSVRCS 60 SCKSVTDIRE DNKRPPWSVQ QGPLKTLSSV R

Functional Description ? help Back to Top
Source	Description
UniProt	Putative zinc finger that may be involved in programmed cell death and defense response. {ECO:0000250}.

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_018450880.1	2e-60	PREDICTED: protein LOL2-like isoform X1
Refseq	XP_018450881.1	1e-60	PREDICTED: protein LOL2-like isoform X2
Swissprot	O65426	4e-49	LOL2_ARATH; Protein LOL2
TrEMBL	A0A397YBR3	2e-56	A0A397YBR3_BRACM; Uncharacterized protein
STRING	Bra020902.1-P	9e-57	(Brassica rapa)
STRING	Bo3g162470.1	3e-56	(Brassica oleracea)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM13611	22	26

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT4G21610.1	2e-51	lsd one like 2