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

Traes_5AL_4E653044F.1

Organism

Triticum aestivum

Taxonomic ID

4565

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; BOP clade; Pooideae; Triticodae; Triticeae; Triticinae; Triticum

Family

LSD

Protein Properties

Length: 172aa MW: 18711.5 Da PI: 8.3421

Description

LSD family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Traes_5AL_4E653044F.1	genome	IWGSC	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-LSD1	39.8	7.4e-13	40	64	1	25
zf-LSD1 1 CggCrtlLsYPrGApsVRCalCdtV 25 CggCrtlL+Y+r+A VRC++C tV Traes_5AL_4E653044F.1 40 CGGCRTLLMYTRNADTVRCSCCSTV 64 ***********************99 PP
2	zf-LSD1	44.9	1.8e-14	78	101	1	24
zf-LSD1 1 CggCrtlLsYPrGApsVRCalCdt 24 Cg Crt+L+YP GApsV+Ca+Cd Traes_5AL_4E653044F.1 78 CGRCRTTLMYPHGAPSVKCAICDY 101 **********************96 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
TIGRFAMs	TIGR01053	1.5E-14	37	67	IPR005735	Zinc finger, LSD1-type
Pfam	PF06943	1.5E-10	40	64	IPR005735	Zinc finger, LSD1-type
TIGRFAMs	TIGR01053	1.4E-12	75	103	IPR005735	Zinc finger, LSD1-type
Pfam	PF06943	4.9E-14	78	102	IPR005735	Zinc finger, LSD1-type

Sequence ? help Back to Top
Protein Sequence Length: 172 aa Download sequence Send to blast
MDYTLFKQYE HTYRSLICNK NAYTSYVFSI AAVEMAQLIC GGCRTLLMYT RNADTVRCSC 60 CSTVNLVRPV NNIAHVNCGR CRTTLMYPHG APSVKCAICD YITNITNTGI NTMSPAPCPR 120 PTSNESAYNA SSASVPTPQP QNVTVVVENP MTVDEKGKLV SNVVVGITPG KN

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}.

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	BT009620	0.0	BT009620.1 Triticum aestivum clone wre1n.pk0126.e11:fis, full insert mRNA sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_020196161.1	3e-93	protein LOL3-like isoform X1
Swissprot	Q6ASS2	1e-71	LOL3_ORYSJ; Protein LOL3
TrEMBL	A0A446TDS0	1e-122	A0A446TDS0_TRITD; Uncharacterized protein
STRING	Traes_5AL_4E653044F.1	1e-123	(Triticum aestivum)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Monocots	OGMP1347	38	124

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT4G20380.7	5e-33	LSD family protein

Publications ? help Back to Top
Kikuchi S, et al. Collection, mapping, and annotation of over 28,000 cDNA clones from japonica rice. Science, 2003. 301(5631): p. 376-9 [PMID:12869764] Brenchley R, et al. Analysis of the bread wheat genome using whole-genome shotgun sequencing. Nature, 2012. 491(7426): p. 705-10 [PMID:23192148]