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 Sme2.5_00026.1_g00020.1
Organism
Solanum melongena
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: 878aa    MW: 97168.7 Da    PI: 9.1537
Description Trihelix family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Sme2.5_00026.1_g00020.1genomeEGDView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1trihelix64.62.2e-20786866186
                 trihelix   1 rWtkqevlaLiearremeerlrrgklkkplWeevskkmrergferspkqCkekwenlnkrykkikegekkrtsessstcpyfdqle 86 
                              rW+++e+++Li++r e+++r++  + +++lWee+s+++ + g++rs+ qCk+ w +l ++y++ k  +k+     ++++pyf+++ 
  Sme2.5_00026.1_g00020.1 786 RWKHDEIKKLITLRGELHSRFQVVRGRMALWEEISSNLLSSGVNRSAAQCKSLWASLVQKYEENKSDQKS-----QEKWPYFEEMS 866
                              8*************************************************************99999997.....578******96 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:3.60.15.108.6E-6878328IPR001279Metallo-beta-lactamase
SuperFamilySSF562815.03E-6679533IPR001279Metallo-beta-lactamase
SMARTSM008494.0E-2591288IPR001279Metallo-beta-lactamase
PfamPF127062.4E-10103238IPR001279Metallo-beta-lactamase
PROSITE profilePS500907.933779843IPR017877Myb-like domain
Gene3DG3DSA:1.10.10.602.7E-4780845IPR009057Homeodomain-like
PfamPF138371.6E-17784867No hitNo description
CDDcd122031.21E-21785850No hitNo description
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0009658Biological Processchloroplast organization
GO:0009942Biological Processlongitudinal axis specification
GO:0060918Biological Processauxin transport
GO:0009507Cellular Componentchloroplast
GO:0003677Molecular FunctionDNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 878 aa     Download sequence    Send to blast
MAAAFSAISL CPYKLCHQLN PRKHHISCYT PSSPSSIGVR GSKGPRKRHD KMEGAGRSID  60
DSVQRRMELF YEGSDGPPLR VLPIGGLGEI GMNCMLVGHY DRYILIDAGI MFPGYDEPGV  120
QKIIPDTTFI KKWSHKIEAV IITHGHEDHI GALPWVIPAL DSHTPIFASS FTMELIKKRL  180
KEYGIFVPSR LKVFKTRRKF TAGPFEVEPI TVTHSIPDCS GIVLRCSDGT IFHTGDWKID  240
ESPLDGKVFD REALEELSKE GVTLMMSDST NVLSPGRTLS ETVVADSLLR HISAAKGRVI  300
TTQFASNIHR LGSVKAAADL TGRKLVFVGM SLRTYLDAAW KDGKAPIDPS TLVKVEDIDS  360
YAPKDLLIVT TGSQAEPRAA LNLASYGSSH SLKLNKEDLV LYSAKVIPGN DTRVIQMLNR  420
ISDIGSTIVM GKNELLHTSG HAHREELLSD YPAVAVTGYV SINIVFLHSL SRVFIGNHLS  480
TCQGRSKEEV LRIVKPQHFL PVHGELLFLK EHELLGKSTG IRHTAVIKNG EMLGISHLRN  540
RKALSNGFVS LGKEKLQLMY SDGDKAFGTA AELCIDERLR IASDGIIVIS MEILRPQSTN  600
GMTEKALKGK IRITTRCLWL DKGKLLDALH KAAHAALSSC PLKSPLPHME RTVSEVLRKI  660
VRKYSSKRPE IIAIAFENPA GVLADEINGK LSGKSHLGFG ISALRNVLDE DQKRRQASGA  720
RAEEGNGLGY PIDDATEQVK GDDMDTERLM HDGATTSSSN PLESVQIDSG FPQSTMKSSK  780
PLKRNRWKHD EIKKLITLRG ELHSRFQVVR GRMALWEEIS SNLLSSGVNR SAAQCKSLWA  840
SLVQKYEENK SDQKSQEKWP YFEEMSKILS EMEETVQK
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5a0t_A5e-847967719560RIBONUCLEASE J
5a0t_B5e-847967719560RIBONUCLEASE J
5a0v_A5e-847967719560RIBONUCLEASE J
5a0v_B5e-847967719560RIBONUCLEASE J
Search in ModeBase
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}.
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
SwissprotQ84W560.0RNJ_ARATH; Ribonuclease J
TrEMBLA0A3Q7GE030.0A0A3Q7GE03_SOLLC; Uncharacterized protein
STRINGSolyc03g111260.2.10.0(Solanum lycopersicum)
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
AT5G63420.10.0Trihelix 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. 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]