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

MLOC_4091.1

Organism

Hordeum vulgare

Taxonomic ID

4513

Taxonomic Lineage

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

Family

LSD

Protein Properties

Length: 84aa MW: 8688.85 Da PI: 7.1794

Description

LSD family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
MLOC_4091.1	genome	IBSC	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-LSD1	30.2	7.3e-10	1	17	9	25
zf-LSD1 9 sYPrGApsVRCalCdtV 25 +YP GApsV+Ca+Cd++ MLOC_4091.1 1 MYPHGAPSVKCAICDFI 17 9**************86 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
TIGRFAMs	TIGR01053	1.6E-5	1	18	IPR005735	Zinc finger, LSD1-type
Pfam	PF06943	6.5E-8	1	17	IPR005735	Zinc finger, LSD1-type

Sequence ? help Back to Top
Protein Sequence Length: 84 aa Download sequence Send to blast
MYPHGAPSVK CAICDFITNT GINAMSPAPC PRPTSNESAY NASSASVPTS QPQNVTVVVE 60 NPMTVDEKGK LVSNVVVGIT PGKN

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}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	MLOC_4091.1

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	EU545234	1e-140	EU545234.1 Hordeum vulgare subsp. vulgare clone SMEb0007a07 LSD1-like protein mRNA, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_020196161.1	2e-51	protein LOL3-like isoform X1
Refseq	XP_020196162.1	2e-51	protein LOL3-like isoform X2
Swissprot	Q6ASS2	2e-34	LOL3_ORYSJ; Protein LOL3
TrEMBL	A0A287SA53	8e-53	A0A287SA53_HORVV; Uncharacterized protein
TrEMBL	B2CR51	2e-52	B2CR51_HORVV; LSD1-like protein
STRING	MLOC_4091.1	5e-54	(Hordeum vulgare)

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	8e-18	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]