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 PGSC0003DMP400026735
Organism
Solanum tuberosum
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; asterids; lamiids; Solanales; Solanaceae; Solanoideae; Solaneae; Solanum
Family Trihelix
Protein Properties Length: 363aa    MW: 40378.9 Da    PI: 7.9326
Description Trihelix family protein
Gene Model
Gene Model ID Type Source Coding Sequence
PGSC0003DMP400026735genomePGSCView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1trihelix667.8e-21270350186
              trihelix   1 rWtkqevlaLiearremeerlrrgklkkplWeevskkmrergferspkqCkekwenlnkrykkikegekkrtsessstcpyfdqle 86 
                           rW+++e+++Li++r e++++++  + +++lWee+s+++ + g+ rsp qCk+ w +l ++y++ k  ek++      ++py++++ 
  PGSC0003DMP400026735 270 RWKHDEIKKLITLRGELHSKFQVVRGRMALWEEISSNLLSIGVDRSPGQCKSLWASLVQKYEENKSDEKNQ-----DKWPYYEEMS 350
                           8**************************************************************99999983.....57******96 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS500907.828263327IPR017877Myb-like domain
Gene3DG3DSA:1.10.10.602.2E-4264329IPR009057Homeodomain-like
PfamPF138373.6E-17268351No hitNo description
CDDcd122036.02E-21269334No hitNo description
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0003677Molecular FunctionDNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 363 aa     Download sequence    Send to blast
MLGISHLRNR KVLSSGFISL GKEKLQLMFS DGDKAFGTAA ELCIDERLRI ASDGIIVVSM  60
EILRPQSTDG MTEKALKGKI RITTRCLWLD KGKLLDALHK AAHASLSSCP LNCPLSHMER  120
TVSEVLRKLV RKYSSKRPEV IAIAFENPAG VLADEINGKL SGKSHVGFGI SALRNVLDED  180
QKRRQASGAR AEEGNGHGYP IDDAAEQVKG DDMDIERLTH DGATTSSANS LDEYSTTEEE  240
SESSRKESIQ IDSGFPQSMM KSSKPLKRNR WKHDEIKKLI TLRGELHSKF QVVRGRMALW  300
EEISSNLLSI GVDRSPGQCK SLWASLVQKY EENKSDEKNQ DKWPYYEEMS KILSDLEATA  360
QK*
Functional Description ? help Back to Top
Source Description
UniProtEssential protein required during embryogenesis, especially in initiating and maintaining the organization of shoot apical meristems (SAMs), cotyledons, and hypocotyls (PubMed:15266054, PubMed:25871650). Involved in auxin-mediated pathways during embryogenesis (PubMed:25871650). RNase that has both endonuclease and 5'-3' exonuclease activities. Involved in RNA surveillance to prevent overaccumulation of antisense RNA (PubMed:22033332). Probably involved in maturation of rRNA and in some organisms also mRNA maturation and/or decay (By similarity). {ECO:0000250|UniProtKB:Q72JJ7, ECO:0000269|PubMed:15266054, ECO:0000269|PubMed:22033332, ECO:0000269|PubMed:25871650}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapPGSC0003DMP400026735
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: By light. {ECO:0000269|PubMed:25871650}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankHG9754420.0HG975442.1 Solanum pennellii chromosome ch03, complete genome.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_006351477.10.0PREDICTED: ribonuclease J
SwissprotQ84W561e-129RNJ_ARATH; Ribonuclease J
TrEMBLM1B8960.0M1B896_SOLTU; Uncharacterized protein
STRINGPGSC0003DMT4000394150.0(Solanum tuberosum)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
AsteridsOGEA58742331
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G63420.13e-68Trihelix family protein
Publications ? help Back to Top
  1. Bryant N,Lloyd J,Sweeney C,Myouga F,Meinke D
    Identification of nuclear genes encoding chloroplast-localized proteins required for embryo development in Arabidopsis.
    Plant Physiol., 2011. 155(4): p. 1678-89
    [PMID:21139083]
  2. Xu X, et al.
    Genome sequence and analysis of the tuber crop potato.
    Nature, 2011. 475(7355): p. 189-95
    [PMID:21743474]
  3. Halpert M,Liveanu V,Glaser F,Schuster G
    The Arabidopsis chloroplast RNase J displays both exo- and robust endonucleolytic activities.
    Plant Mol. Biol., 2019. 99(1-2): p. 17-29
    [PMID:30511330]