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_61247_iso_1

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: 170aa MW: 17890.6 Da PI: 9.8418

Description

LSD family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
cra_locus_61247_iso_1	genome	MPGR	-

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-LSD1	47	4.2e-15	6	30	1	25
zf-LSD1 1 CggCrtlLsYPrGApsVRCalCdtV 25 CggCrtlL+ PrGA+sVRC++C+tV cra_locus_61247_iso_1_len_721_ver_3 6 CGGCRTLLMHPRGATSVRCSCCHTV 30 ************************9 PP
2	zf-LSD1	39.2	1.2e-12	44	67	1	24
zf-LSD1 1 CggCrtlLsYPrGApsVRCalCdt 24 Cg+Cr +L+YP GApsV+Ca+C+ cra_locus_61247_iso_1_len_721_ver_3 44 CGNCRMMLMYPCGAPSVKCAVCHY 67 **********************96 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
TIGRFAMs	TIGR01053	3.0E-17	3	33	IPR005735	Zinc finger, LSD1-type
Pfam	PF06943	3.8E-13	6	30	IPR005735	Zinc finger, LSD1-type
TIGRFAMs	TIGR01053	2.4E-11	41	70	IPR005735	Zinc finger, LSD1-type
Pfam	PF06943	2.9E-12	44	68	IPR005735	Zinc finger, LSD1-type

Sequence ? help Back to Top
Protein Sequence Length: 170 aa Download sequence Send to blast
MAQLICGGCR TLLMHPRGAT SVRCSCCHTV NLVPGPNQFA HVYCGNCRMM LMYPCGAPSV 60 KCAVCHYITN VNAGDGRTHV PVNTPNGTAT PASGSSSTAK ARSQNQTVVV QNPMSVDESG 120 KLVNNVVVGV TTTSSLSVKL VHGRRLRVFP ASIGKMSIKM AAAYKYGSVX

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_015065909.1	7e-89	protein LSD1
Refseq	XP_015065910.1	7e-89	protein LSD1
Refseq	XP_015065911.1	7e-89	protein LSD1
Swissprot	Q6ASS2	4e-46	LOL3_ORYSJ; Protein LOL3
TrEMBL	M1BWM1	3e-86	M1BWM1_SOLTU; LSD1-like protein
STRING	PGSC0003DMT400054616	4e-87	(Solanum tuberosum)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Asterids	OGEA1679	24	67

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]