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

cra_locus_6937_iso_3

Organism

Catharanthus roseus

Taxonomic ID

4058

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; asterids; lamiids; Gentianales; Apocynaceae; Rauvolfioideae; Vinceae; Catharanthinae; Catharanthus

Family

LSD

Protein Properties

Length: 115aa MW: 12110.3 Da PI: 8.3292

Description

LSD family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
cra_locus_6937_iso_3	genome	MPGR	-

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-LSD1	44.6	2.3e-14	7	31	1	25
zf-LSD1 1 CggCrtlLsYPrGApsVRCalCdtV 25 C gCr +L+YPrGA++V+CalC+t+ cra_locus_6937_iso_3_len_899_ver_3 7 CTGCRSVLMYPRGATNVCCALCNTI 31 9**********************97 PP
2	zf-LSD1	48.7	1.2e-15	50	74	1	25
zf-LSD1 1 CggCrtlLsYPrGApsVRCalCdtV 25 CggCrtlL+Y+rGA sVRC++C+tV cra_locus_6937_iso_3_len_899_ver_3 50 CGGCRTLLMYTRGAASVRCSCCHTV 74 ************************9 PP
3	zf-LSD1	52	1.2e-16	87	111	1	25
zf-LSD1 1 CggCrtlLsYPrGApsVRCalCdtV 25 Cg+Crt+L+YP+GApsV+Ca+C++V cra_locus_6937_iso_3_len_899_ver_3 87 CGNCRTTLMYPFGAPSVKCAVCHFV 111 ***********************98 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
TIGRFAMs	TIGR01053	1.2E-13	4	33	IPR005735	Zinc finger, LSD1-type
Pfam	PF06943	5.2E-12	7	31	IPR005735	Zinc finger, LSD1-type
SuperFamily	SSF48695	1.07E-5	19	109	IPR011031	Multihaem cytochrome
TIGRFAMs	TIGR01053	2.6E-17	47	76	IPR005735	Zinc finger, LSD1-type
Pfam	PF06943	3.6E-13	50	74	IPR005735	Zinc finger, LSD1-type
TIGRFAMs	TIGR01053	1.3E-12	84	114	IPR005735	Zinc finger, LSD1-type
Pfam	PF06943	1.1E-14	87	111	IPR005735	Zinc finger, LSD1-type

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0000303	Biological Process	response to superoxide
GO:0001666	Biological Process	response to hypoxia
GO:0002240	Biological Process	response to molecule of oomycetes origin
GO:0009626	Biological Process	plant-type hypersensitive response
GO:0009862	Biological Process	systemic acquired resistance, salicylic acid mediated signaling pathway
GO:0010104	Biological Process	regulation of ethylene-activated signaling pathway
GO:0010310	Biological Process	regulation of hydrogen peroxide metabolic process
GO:0010602	Biological Process	regulation of 1-aminocyclopropane-1-carboxylate metabolic process
GO:0010618	Biological Process	aerenchyma formation
GO:0043069	Biological Process	negative regulation of programmed cell death

Sequence ? help Back to Top
Protein Sequence Length: 115 aa Download sequence Send to blast
MQSQLVCTGC RSVLMYPRGA TNVCCALCNT ITPVPPQVPA PGMDMSQLIC GGCRTLLMYT 60 RGAASVRCSC CHTVNLAPGT GFAHISCGNC RTTLMYPFGA PSVKCAVCHF VTNVN

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 -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_028958841.1	1e-62	protein LSD1-like
Swissprot	Q6ASS2	2e-52	LOL3_ORYSJ; Protein LOL3
TrEMBL	I3S0N1	3e-63	I3S0N1_LOTJA; Uncharacterized protein
STRING	Lus10008066	1e-62	(Linum usitatissimum)

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]