PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
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(e.g., LFY)
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID Sof005537
Organism
Saccharum officinarum
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; PACMAD clade; Panicoideae; Andropogonodae; Andropogoneae; Saccharinae; Saccharum; Saccharum officinarum complex
Family LSD
Protein Properties Length: 135aa    MW: 14173.2 Da    PI: 8.3211
Description LSD family protein
Gene Model
Gene Model ID Type Source Coding Sequence
gnl|UG|Sof#S17397088PU_unrefUnigeneView CDS
PUT-157a-Saccharum_officinarum-12103PU_refplantGDBView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-LSD139.68.7e-13630125
    zf-LSD1  1 CggCrtlLsYPrGApsVRCalCdtV 25
               CggC+tlL+Y+r A  VRC++C+tV
  Sof005537  6 CGGCQTLLMYTRSADTVRCSCCNTV 30
               ************************9 PP
2zf-LSD149.57.1e-164468125
    zf-LSD1  1 CggCrtlLsYPrGApsVRCalCdtV 25
               C +Crt+L+YP+GApsV+Ca+C+ V
  Sof005537 44 CDQCRTTLMYPYGAPSVKCAICNYV 68
               ***********************87 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
TIGRFAMsTIGR010536.7E-14333IPR005735Zinc finger, LSD1-type
PfamPF069431.4E-10630IPR005735Zinc finger, LSD1-type
TIGRFAMsTIGR010532.4E-124169IPR005735Zinc finger, LSD1-type
PfamPF069433.9E-144468IPR005735Zinc finger, LSD1-type
Sequence ? help Back to Top
Protein Sequence    Length: 135 aa     Download sequence    Send to blast
MAHLICGGCQ TLLMYTRSAD TVRCSCCNTV NLVRPVNNIA HVNCDQCRTT LMYPYGAPSV  60
KCAICNYVTT TGVNTVAPTP SARPTSNESS YSGPSTSAPK SQPQNVTVVV ENPMTVDDKG  120
KLVSSVVVGV TAGKV
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Sof.11520.0callus| crown| inflorescence| leaf| meristem| root| stem
Functional Description ? help Back to Top
Source Description
UniProtPutative 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
RefseqXP_002464188.12e-87protein LOL3
SwissprotQ6ASS26e-74LOL3_ORYSJ; Protein LOL3
TrEMBLC5WR974e-86C5WR97_SORBI; Uncharacterized protein
STRINGSb01g013820.16e-87(Sorghum bicolor)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT4G20380.72e-32LSD 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]