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

Medtr2g047838.1

Common Name

MTR_2g047838

Organism

Medicago truncatula

Taxonomic ID

3880

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Fabales; Fabaceae; Papilionoideae; Trifolieae; Medicago

Family

LSD

Protein Properties

Length: 174aa MW: 18723.7 Da PI: 8.4429

Description

LSD family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Medtr2g047838.1	genome	Mt	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-LSD1	36.4	8.4e-12	7	31	1	25
zf-LSD1 1 CggCrtlLsYPrGApsVRCalCdtV 25 C gCr++L YPrGA++V+Ca+C t+ Medtr2g047838.1 7 CTGCRNILLYPRGASNVCCAVCSTI 31 9*********************997 PP
2	zf-LSD1	38.3	2.2e-12	49	73	1	25
zf-LSD1 1 CggCrtlLsYPrGApsVRCalCdtV 25 CggCrtlL+ rGA+ VRC++C+t+ Medtr2g047838.1 49 CGGCRTLLMHARGATTVRCSCCNTI 73 ***********************97 PP
3	zf-LSD1	45.4	1.4e-14	87	110	1	24
zf-LSD1 1 CggCrtlLsYPrGApsVRCalCdt 24 Cg+Crt+L+YP GApsV+Ca+C+ Medtr2g047838.1 87 CGNCRTTLMYPHGAPSVKCAVCHY 110 **********************96 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
TIGRFAMs	TIGR01053	1.4E-11	4	33	IPR005735	Zinc finger, LSD1-type
Pfam	PF06943	5.3E-10	7	31	IPR005735	Zinc finger, LSD1-type
TIGRFAMs	TIGR01053	9.4E-15	46	76	IPR005735	Zinc finger, LSD1-type
Pfam	PF06943	2.3E-11	49	73	IPR005735	Zinc finger, LSD1-type
TIGRFAMs	TIGR01053	4.1E-12	84	113	IPR005735	Zinc finger, LSD1-type
Pfam	PF06943	5.5E-14	87	111	IPR005735	Zinc finger, LSD1-type

Sequence ? help Back to Top
Protein Sequence Length: 174 aa Download sequence Send to blast
MRSHIMCTGC RNILLYPRGA SNVCCAVCST ITPVIPVLPP GMEMSQLYCG GCRTLLMHAR 60 GATTVRCSCC NTINLVPDSN QMNHIRCGNC RTTLMYPHGA PSVKCAVCHY ITNVDMTNGR 120 PPTPVRTPNE TTSSETSRPR FESQTVVVEN PMSVDSSGKL VSNVVVGVTT EKK*

Expression -- UniGene ? help Back to Top
UniGene ID	E-value	Expressed in
Mtr.19561	0.0	root

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	Medtr2g047838.1

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	BT136622	0.0	BT136622.1 Medicago truncatula clone JCVI-FLMt-13K12 unknown mRNA.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_013463754.1	1e-123	protein LSD1
Swissprot	Q2QMB3	2e-63	LOL2_ORYSJ; Protein LOL2
TrEMBL	A0A072V6U7	1e-121	A0A072V6U7_MEDTR; LSD1-type zinc finger protein
STRING	XP_004488206.1	1e-105	(Cicer arietinum)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Fabids	OGEF4027	33	61

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT4G20380.7	2e-65	LSD family protein

Link Out ? help Back to Top
Phytozome	Medtr2g047838.1
Entrez Gene	25486678

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] Young ND, et al. The Medicago genome provides insight into the evolution of rhizobial symbioses. Nature, 2011. 480(7378): p. 520-4 [PMID:22089132] Wu J, et al. OsLOL1, a C2C2-type zinc finger protein, interacts with OsbZIP58 to promote seed germination through the modulation of gibberellin biosynthesis in Oryza sativa. Plant J., 2014. 80(6): p. 1118-30 [PMID:25353370]