PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
Home  TFext  BLAST  Prediction  Download  Help  About  Links  PlantRegMap
(e.g., LFY)
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID GSMUA_Achr9P29430_001
Organism
Musa acuminata
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Zingiberales; Musaceae; Musa
Family Trihelix
Protein Properties Length: 888aa    MW: 97651 Da    PI: 8.6071
Description Trihelix family protein
Gene Model
Gene Model ID Type Source Coding Sequence
GSMUA_Achr9P29430_001genomeCIRADView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1trihelix62.78.2e-20797877186
               trihelix   1 rWtkqevlaLiearremeerlrrgklkkplWeevskkmrergferspkqCkekwenlnkrykkikegekkrtsessstcpyfdqle 86 
                            +W+ +ev+ Li +r  +++++r++k+++ lWee+s  m   g++rsp qCk+ w +l ++y++ +++ek+r     +t+p+f  ++
  GSMUA_Achr9P29430_001 797 KWKPEEVQRLIILRAGLDSKFRSAKARMVLWEEISTDMLNDGINRSPAQCKSLWASLVQKYEESRRNEKSR-----KTWPHFAAMD 877
                            7********************************************************************96.....78******98 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:3.60.15.101.8E-6778328IPR001279Metallo-beta-lactamase
SuperFamilySSF562813.64E-7179493IPR001279Metallo-beta-lactamase
SMARTSM008491.7E-2291288IPR001279Metallo-beta-lactamase
PfamPF127064.1E-11103238IPR001279Metallo-beta-lactamase
PfamPF075212.7E-6436465IPR011108Zn-dependent metallo-hydrolase, RNA specificity domain
Gene3DG3DSA:1.10.10.609.1E-5790856IPR009057Homeodomain-like
PROSITE profilePS500907.851790854IPR017877Myb-like domain
PfamPF138371.9E-16795878No hitNo description
CDDcd122037.32E-22796861No 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: 888 aa     Download sequence    Send to blast
MISLSAFPSL CPCGVSRLPK IPRTAVWCSL GSPPPVAGAR ESKAPRRRSR RTDGAGKSME  60
DSVQRKLEQF YEGLDGPPLR VLPIGGLGEI GMNCMLVGNF DRYILIDAGI MFPDYDEFGV  120
QKIVPDTTFI KRWSHKIEAL VITHGHEDHI GALPWVIPAL DSHTPIFASS FTMELIKRRL  180
KEFGIFVPSR LKEFKVRKKF QAGPFEVEPI RVTHSIPDCC GLVLRCSDGT IFHTGDWKID  240
ESPLDGKVFD RVALEQLSKE GVTLMMSDST NVLSPGRSVS EAAVADTLLR RISEAKGRVI  300
TTQFASNIHR LGSVKAAADL TGRKMVLVGM SLRTYLDAAF KDGKAPIDPS ILVKAEDIDA  360
YAPKDLLIVT TGSQAEPRAA LNLASFGSSH SLKLGKDDVV LYSAKVIPGN ETRVMKMLNR  420
ISELGPTIIM GKNAGLHTSG HAYRGELEEV LKIVKPQHFL PIHGELLFLK EHELLGRSTG  480
IRHTAVIKNG EMLGVSHLRN RRVLSNGFSS LGKEALELMY SDGDKAFGTS AELCIDERLR  540
IASDGIIVVS MEILRPQAVN GSSQACLKGK IRITTRCLWL DRGKLLDALY KAAYAALSSC  600
PVNCPLAHME RIVSEVLRKI VRKYSSKRPD VIAIAVENTT GVVTEELKTR LSGKSRGSFG  660
LSAAAQAFNM RATKHSSRQF NEYSDSLPSS RQLDEVGDSA IDVNNIEMDS SEGESFDADQ  720
TLPEVATKNS DQDELSSHAS QEPDDIVELV KASSSVQQTT ASDCGLEENM GVDKNVTPGS  780
KEPSRLLNAK KSAKRNKWKP EEVQRLIILR AGLDSKFRSA KARMVLWEEI STDMLNDGIN  840
RSPAQCKSLW ASLVQKYEES RRNEKSRKTW PHFAAMDEVL SAGDQAMK
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5a0t_A2e-857963719560RIBONUCLEASE J
5a0t_B2e-857963719560RIBONUCLEASE J
5a0v_A2e-857963719560RIBONUCLEASE J
5a0v_B2e-857963719560RIBONUCLEASE 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
GenBankAM4811714e-32AM481171.2 Vitis vinifera contig VV78X276913.12, whole genome shotgun sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_009419382.10.0PREDICTED: uncharacterized protein LOC103999362 isoform X1
SwissprotQ84W560.0RNJ_ARATH; Ribonuclease J
TrEMBLM0U4K00.0M0U4K0_MUSAM; Uncharacterized protein
STRINGGSMUA_Achr9P29430_0010.0(Musa acuminata)
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]