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

Cucsa.321740.1

Organism

Cucumis sativus

Taxonomic ID

3659

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Cucurbitales; Cucurbitaceae; Benincaseae; Cucumis

Family

LSD

Protein Properties

Length: 110aa MW: 11643.6 Da PI: 8.1648

Description

LSD family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Cucsa.321740.1	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-LSD1	41.2	2.8e-13	2	26	1	25
zf-LSD1 1 CggCrtlLsYPrGApsVRCalCdtV 25 C+gC++lL YP+GA+s++CalC++V Cucsa.321740.1 2 CSGCKNLLIYPAGATSICCALCHAV 26 ************************9 PP
2	zf-LSD1	36.8	6.2e-12	41	65	1	25
zf-LSD1 1 CggCrtlLsYPrGApsVRCalCdtV 25 C+gC tlL+Y rGA+sV+C++C t+ Cucsa.321740.1 41 CSGCYTLLMYSRGAKSVQCSCCRTI 65 ***********************97 PP
3	zf-LSD1	34.3	3.9e-11	79	103	1	25
zf-LSD1 1 CggCrtlLsYPrGApsVRCalCdtV 25 Cg+Cr+lL+Y A sV+C+lC++V Cucsa.321740.1 79 CGNCRVLLMYQCEAHSVKCTLCNFV 103 ***********************98 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
TIGRFAMs	TIGR01053	3.5E-11	2	28	IPR005735	Zinc finger, LSD1-type
Pfam	PF06943	1.6E-10	2	26	IPR005735	Zinc finger, LSD1-type
TIGRFAMs	TIGR01053	1.2E-12	39	66	IPR005735	Zinc finger, LSD1-type
Pfam	PF06943	1.1E-10	41	65	IPR005735	Zinc finger, LSD1-type
TIGRFAMs	TIGR01053	2.5E-8	76	106	IPR005735	Zinc finger, LSD1-type
Pfam	PF06943	1.9E-9	79	103	IPR005735	Zinc finger, LSD1-type

Sequence ? help Back to Top
Protein Sequence Length: 110 aa Download sequence Send to blast
MCSGCKNLLI YPAGATSICC ALCHAVTPVP TSGLTMARLV CSGCYTLLMY SRGAKSVQCS 60 CCRTINAASE ANQMAHINCG NCRVLLMYQC EAHSVKCTLC NFVTSVGILX

Functional Description ? help Back to Top
Source	Description
UniProt	Negative regulator of programmed cell death and hypersensitive response (HR). Positive regulator of callus differentiation. {ECO:0000269\|PubMed:15915636}.

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: By light. Down-regulated by dark. {ECO:0000269\|PubMed:15915636}.

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	LN681860	1e-52	LN681860.1 Cucumis melo genomic scaffold, anchoredscaffold00021.
GenBank	LN713260	1e-52	LN713260.1 Cucumis melo genomic chromosome, chr_6.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_011650347.1	2e-72	PREDICTED: protein LSD1-like isoform X1
Swissprot	Q0J7V9	6e-51	LSD1_ORYSJ; Protein LSD1
TrEMBL	A0A1S3BKC0	4e-69	A0A1S3BKC0_CUCME; protein LOL1 isoform X1
STRING	XP_004164419.1	3e-72	(Cucumis sativus)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Fabids	OGEF8187	33	46

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G32540.1	2e-52	lsd one like 1

Link Out ? help Back to Top
Phytozome	Cucsa.321740.1

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]