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_64962.1

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: 132aa MW: 14153.2 Da PI: 9.2659

Description

LSD family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
MLOC_64962.1	genome	IBSC	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-LSD1	21.7	3.3e-07	22	44	1	23
zf-LSD1 1 CggCrtlLsYPrGApsVRCalCd 23 C+gC l Y rGA +VRC+ C+ MLOC_64962.1 22 CNGCFSLVLYNRGAANVRCSRCN 44 **********************9 PP
2	zf-LSD1	40.2	5.5e-13	60	84	1	25
zf-LSD1 1 CggCrtlLsYPrGApsVRCalCdtV 25 CggCrt+L+YP+GA+ V Ca C++V MLOC_64962.1 60 CGGCRTTLMYPPGASTVGCATCHHV 84 ************************9 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
TIGRFAMs	TIGR01053	3.1E-7	20	47	IPR005735	Zinc finger, LSD1-type
Pfam	PF06943	7.1E-8	22	44	IPR005735	Zinc finger, LSD1-type
TIGRFAMs	TIGR01053	3.1E-13	57	86	IPR005735	Zinc finger, LSD1-type
Pfam	PF06943	2.8E-12	60	84	IPR005735	Zinc finger, LSD1-type

Sequence ? help Back to Top
Protein Sequence Length: 132 aa Download sequence Send to blast
MPRCTSSVNH QTETATMSEL ICNGCFSLVL YNRGAANVRC SRCNMLNSTR SASQYAHLKC 60 GGCRTTLMYP PGASTVGCAT CHHVNPVRAQ GSSAPPDAHA RPQTVLVENP RTMNDKGKLV 120 SNVAVGVTSW KR

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_64962.1

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	AK249896	0.0	AK249896.1 Hordeum vulgare subsp. vulgare cDNA clone: FLbaf55k22, mRNA sequence.
GenBank	AK353682	0.0	AK353682.1 Hordeum vulgare subsp. vulgare mRNA for predicted protein, partial cds, clone: NIASHv1002A12.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_020167616.1	3e-92	protein LOL4-like
Swissprot	Q84UR0	3e-52	LOL4_ORYSJ; Protein LOL4
TrEMBL	F2CPY0	4e-93	F2CPY0_HORVV; Predicted protein (Fragment)
STRING	MLOC_64962.3	1e-93	(Hordeum vulgare)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Monocots	OGMP12333	29	38

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT4G20380.7	3e-26	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]