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 Sof019394
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: 139aa    MW: 14511.9 Da    PI: 8.4906
Description LSD family protein
Gene Model
Gene Model ID Type Source Coding Sequence
PUT-157a-Saccharum_officinarum-122113PU_refplantGDBView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-LSD141.42.4e-13832125
    zf-LSD1  1 CggCrtlLsYPrGApsVRCalCdtV 25
               CggC+tlL+Y+r A+ VRC++CdtV
  Sof019394  8 CGGCQTLLMYTRSATTVRCSCCDTV 32
               ************************9 PP
2zf-LSD151.41.8e-164670125
    zf-LSD1  1 CggCrtlLsYPrGApsVRCalCdtV 25
               Cg+C+t+L+YP+GApsV+Ca+C+++
  Sof019394 46 CGQCQTVLMYPYGAPSVKCAICNFI 70
               ***********************86 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
TIGRFAMsTIGR010532.9E-13635IPR005735Zinc finger, LSD1-type
PfamPF069434.7E-11832IPR005735Zinc finger, LSD1-type
TIGRFAMsTIGR010536.7E-124372IPR005735Zinc finger, LSD1-type
PfamPF069431.6E-144670IPR005735Zinc finger, LSD1-type
Sequence ? help Back to Top
Protein Sequence    Length: 139 aa     Download sequence    Send to blast
MEMARLICGG CQTLLMYTRS ATTVRCSCCD TVNLVRPVSS IAHVNCGQCQ TVLMYPYGAP  60
SVKCAICNFI TNVGGVTPVR PLPPALPASS GNSYSIPSTS VPTNQSQNVT VVVENPMTVD  120
DKGKLVSNVV VGVTSGGKK
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Sof.43780.0callus| inflorescence| leaf| root| seed| 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_002443528.12e-93protein LOL2
SwissprotQ2QMB33e-73LOL2_ORYSJ; Protein LOL2
TrEMBLA0A1B6PE692e-91A0A1B6PE69_SORBI; Uncharacterized protein
TrEMBLH9B8F63e-92H9B8F6_MISSI; Putative zinc finger LOL2
STRINGSb08g021100.17e-93(Sorghum bicolor)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT4G20380.76e-35LSD 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. 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]