PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
Previous version: v3.0 v4.0
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID Medtr2g047838.1
Common NameMTR_2g047838
Organism
Taxonomic ID
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
Medtr2g047838.1genomeMtView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-LSD136.48.4e-12731125
          zf-LSD1  1 CggCrtlLsYPrGApsVRCalCdtV 25
                     C gCr++L YPrGA++V+Ca+C t+
  Medtr2g047838.1  7 CTGCRNILLYPRGASNVCCAVCSTI 31
                     9*********************997 PP

2zf-LSD138.32.2e-124973125
          zf-LSD1  1 CggCrtlLsYPrGApsVRCalCdtV 25
                     CggCrtlL+  rGA+ VRC++C+t+
  Medtr2g047838.1 49 CGGCRTLLMHARGATTVRCSCCNTI 73
                     ***********************97 PP

3zf-LSD145.41.4e-1487110124
          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
3D Structure
Database Entry ID E-value Start End InterPro ID Description
TIGRFAMsTIGR010531.4E-11433IPR005735Zinc finger, LSD1-type
PfamPF069435.3E-10731IPR005735Zinc finger, LSD1-type
TIGRFAMsTIGR010539.4E-154676IPR005735Zinc finger, LSD1-type
PfamPF069432.3E-114973IPR005735Zinc finger, LSD1-type
TIGRFAMsTIGR010534.1E-1284113IPR005735Zinc finger, LSD1-type
PfamPF069435.5E-1487111IPR005735Zinc 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.195610.0root
Functional Description ? help Back to Top
Source Description
UniProtPutative zinc finger that may be involved in programmed cell death and defense response. {ECO:0000250}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapMedtr2g047838.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankBT1366220.0BT136622.1 Medicago truncatula clone JCVI-FLMt-13K12 unknown mRNA.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_013463754.11e-123protein LSD1
SwissprotQ2QMB32e-63LOL2_ORYSJ; Protein LOL2
TrEMBLA0A072V6U71e-121A0A072V6U7_MEDTR; LSD1-type zinc finger protein
STRINGXP_004488206.11e-105(Cicer arietinum)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
FabidsOGEF40273361
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT4G20380.72e-65LSD family protein
Publications ? help Back to Top
  1. 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]
  2. Young ND, et al.
    The Medicago genome provides insight into the evolution of rhizobial symbioses.
    Nature, 2011. 480(7378): p. 520-4
    [PMID:22089132]
  3. 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]