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 Spipo7G0051400
Organism
Spirodela polyrhiza
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Alismatales; Araceae; Lemnoideae; Spirodela
Family Trihelix
Protein Properties Length: 876aa    MW: 95954.8 Da    PI: 8.4617
Description Trihelix family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Spipo7G0051400genomeMIPS/IBISView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1trihelix67.23.4e-21782862186
        trihelix   1 rWtkqevlaLiearremeerlrrgklkkplWeevskkmrergferspkqCkekwenlnkrykkikegekkrtsessstcpyfdqle 86 
                     +W+ +e+++Li+ r+e+++r+r+ k+++ lWee+s+ + ++g+ rsp qCk+ w++l ++y++ +  ek r     +++pyfd++ 
  Spipo7G0051400 782 KWKPEEIKKLIKKRSELDDRFRAVKARMVLWEEISASLLQHGVDRSPGQCKSLWSSLVQKYEEARVDEKAR-----RSWPYFDSMS 862
                     7****************************************************************999986.....57******96 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:3.60.15.105.2E-6778328IPR001279Metallo-beta-lactamase
SuperFamilySSF562818.71E-7179493IPR001279Metallo-beta-lactamase
SMARTSM008493.9E-2491288IPR001279Metallo-beta-lactamase
PfamPF007532.9E-1092237IPR001279Metallo-beta-lactamase
PfamPF075212.2E-6434465IPR011108Zn-dependent metallo-hydrolase, RNA specificity domain
PROSITE profilePS500907.84775839IPR017877Myb-like domain
Gene3DG3DSA:1.10.10.608.7E-5777841IPR009057Homeodomain-like
SMARTSM007170.006779841IPR001005SANT/Myb domain
PfamPF138371.8E-15780863No hitNo description
CDDcd122031.08E-22781846No 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: 876 aa     Download sequence    Send to blast
MTSLCAPSSL CPCMVSQRRL VVKSSIVTAI ATTASGSGVR GSRPPRKRSG RLEGARKSME  60
DSVQRKLEKF YEGSEGPPLR VLPIGGLGEI GMNCMLVGNY DRYILIDAGV MFPDYDELGV  120
QKIIPDTTFI KKWSHKIEAV IITHGHEDHI GALPWVIPAL DASTPIFSSS FTMELIKKRL  180
KEFGIFVPSR LKVFKIRKRF QAGPFEIEPI RVTHSIPDCC GLVLRCSDGT ILHTGDWKID  240
ESPVDGKVFD REALEELSKE GVTLMMSDST NVLSPGRSVS ETVVADSLLR HISAAKGRVL  300
TTQFASNIHR LGSVKTAADL TGRKMVLVGM SLRTYLDAAF KDGKAPIDPS TLVKVEDIDA  360
YAPKDLLIVT TGSQAEPRAA LNLASFGSSH SLKLGKDDVI LYSAKVIPGN ETRVMKMLNR  420
ISDIGSTIIM GKNEGLHASG HAYQGELEEV LRIVKPQHFL PIHGELLFLK EHELLGKSTG  480
IRHTTVIKNG EMLGVSHLRN RRVLSNGFTS LGKEDFQFMY SDGDKAFGTS SDLCVDERLR  540
IASDGIIVVN MEIFRPQING SSQTVLKGKI RITTRCLWLD KGKLLDALYR SAHAALSSLP  600
INSPLNHIER IVSEVLRKMV RKYSSKRPEV IACAIENTAG TFVEEVRTQP SVRTHSSFEF  660
SFGNLSSLSG RRRPKESADE EDRVPAINLQ DQEPRGDDSE DGNDLPGEHK SVHSSLISSL  720
SQSLAESDVS SAGEALDDGG NGRVPLEAPM EALSEEVSTA AAASQATVTA AAAAKAAAKR  780
NKWKPEEIKK LIKKRSELDD RFRAVKARMV LWEEISASLL QHGVDRSPGQ CKSLWSSLVQ  840
KYEEARVDEK ARRSWPYFDS MSKVLATATE EAAAN*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
3bk1_A3e-86746379562Metal dependent hydrolase
3bk2_A3e-86746379562Metal dependent hydrolase
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 -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_008811801.10.0ribonuclease J
SwissprotQ84W560.0RNJ_ARATH; Ribonuclease J
TrEMBLA0A1D1YQF80.0A0A1D1YQF8_9ARAE; Ribonuclease J (Fragment)
STRINGXP_008811801.10.0(Phoenix dactylifera)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP49963542
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]