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

Cotton_A_13122_BGI-A2_v1.0

Organism

Gossypium arboreum

Taxonomic ID

29729

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Malvales; Malvaceae; Malvoideae; Gossypium

Family

LSD

Protein Properties

Length: 74aa MW: 7904.33 Da PI: 8.1479

Description

LSD family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Cotton_A_13122_BGI-A2_v1.0	genome	BGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-LSD1	48.5	1.4e-15	6	30	1	25
zf-LSD1 1 CggCrtlLsYPrGApsVRCalCdtV 25 CggC+tlL+Y rGA+sV+C++C+tV Cotton_A_13122_BGI-A2_v1.0 6 CGGCHTLLMYIRGATSVQCSCCHTV 30 ************************9 PP
2	zf-LSD1	43.5	5e-14	44	68	1	25
zf-LSD1 1 CggCrtlLsYPrGApsVRCalCdtV 25 Cg+Cr lL+Y +GA+sV+Ca+C++V Cotton_A_13122_BGI-A2_v1.0 44 CGNCRMLLMYQYGARSVKCAVCNFV 68 ***********************98 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
TIGRFAMs	TIGR01053	2.4E-15	3	32	IPR005735	Zinc finger, LSD1-type
Gene3D	G3DSA:3.90.10.10	9.9E-4	5	66	No hit	No description
Pfam	PF06943	4.0E-13	6	30	IPR005735	Zinc finger, LSD1-type
TIGRFAMs	TIGR01053	1.1E-12	41	71	IPR005735	Zinc finger, LSD1-type
Pfam	PF06943	3.1E-13	44	68	IPR005735	Zinc finger, LSD1-type

Sequence ? help Back to Top
Protein Sequence Length: 74 aa Download sequence Send to blast
MAQLVCGGCH TLLMYIRGAT SVQCSCCHTV NLALEANQVA HVNCGNCRML LMYQYGARSV 60 KCAVCNFVTS VGVS

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}.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_004300252.1	2e-47	PREDICTED: protein LOL1
Swissprot	Q0J7V9	1e-46	LSD1_ORYSJ; Protein LSD1
TrEMBL	A0A371GF98	1e-46	A0A371GF98_MUCPR; Protein LOL1 (Fragment)
STRING	XP_004300252.1	7e-47	(Fragaria vesca)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM7293	26	43

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G32540.3	8e-48	lsd one like 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]