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 Achn174411
Organism
Actinidia chinensis
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; asterids; Ericales; Actinidiaceae; Actinidia
Family Trihelix
Protein Properties Length: 808aa    MW: 90285.5 Da    PI: 7.6202
Description Trihelix family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Achn174411genomeIKGCView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1trihelix66.36.6e-21709795186
    trihelix   1 rWtkqevlaLiearremeerlrrgklkkplWeevskkmrergferspkqCkekwenlnkrykkikegekkr.tsessstcpyfdqle 86 
                 rW+ +ev++Li++r ++++r+   k++k+lWee+s+++ + g++rsp qC++ w+ l k+y+  +++++++  ++ ++++pyf +++
  Achn174411 709 RWKPDEVMKLINLRGQLHRRFLVVKRQKALWEEISANLLADGINRSPRQCQSQWSYLVKKYEGFATQQQSKsDKKGEKRWPYFAEMN 795
                 8***************************************************************999999944788899******97 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:3.60.15.102.8E-6776326IPR001279Metallo-beta-lactamase
SuperFamilySSF562813.01E-5977428IPR001279Metallo-beta-lactamase
SMARTSM008497.1E-2589286IPR001279Metallo-beta-lactamase
PfamPF127063.9E-11100236IPR001279Metallo-beta-lactamase
PROSITE profilePS500907.631702766IPR017877Myb-like domain
Gene3DG3DSA:1.10.10.607.7E-4706768IPR009057Homeodomain-like
SMARTSM007170.0017706768IPR001005SANT/Myb domain
PfamPF138371.1E-15708797No hitNo description
CDDcd122031.76E-19708771No 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: 808 aa     Download sequence    Send to blast
MAAFSALSTC PYSFSRRPNA KYCYISCSLK HPSSTGTHGL KIPQKIPERL EGAGKSMEDS  60
VKRKMEQFYE GSDGPPLRVI PIGGLGEIGM NCMLVGNYDR YILIDAGIMF PDYDMLGVQK  120
IIPDTTFIRK WSHKIEAVII THGHEDHIGA LPWVIPALDS HTPIFASSFT MELIKKRLIE  180
FGIFVPSRLK VFRTRKRFSA GPFEIEPITV THSIPDCCGL VLRCADGTIL HTGDWKIDES  240
PLDGKVFDRE ALEELSKEGV TLMMSDSTNV LSPGRTLSET VVADALLRHI SAAKGRVVTT  300
QFSSNIHRLG SIKAAADLTG RKLVFVGMSL RTYLDAAWKD GKAPIDPSTL AEPRAALNLA  360
SHGSSHLLKL SKEDIILYSA KVIPGNETRV MKMFNRISEI GSTIIMGKNE KLHSSGHGYR  420
DELETLSYQA LQTWCTIDNG YQEVYSVHCE RISADKGIAH FDYQRMSIFN LQLMYSDGDK  480
AFGTSTDLYL DERWKIALYG IIVVSMEILR PREAVGSAEK TLKGKIKITT RCLWLDEGRL  540
LDALHKAAHA TLSRCPLNCP LAHVERTVSE VLRKLVRKYS NKRPEVIAIA VENPEAVLLD  600
ELNARQSDHS VVEGKRLLSE EATTSGSELA AGSSLNSESV ETFSVNSESD DFWKSSIVSL  660
PIDELVKEST GSIPQEEHKE QLEKEIVFDD HVDIPISGLQ SSKPAKPNRW KPDEVMKLIN  720
LRGQLHRRFL VVKRQKALWE EISANLLADG INRSPRQCQS QWSYLVKKYE GFATQQQSKS  780
DKKGEKRWPY FAEMNKILSD LEATETK*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5a0t_A1e-637742319383RIBONUCLEASE J
5a0t_B1e-637742319383RIBONUCLEASE J
5a0v_A1e-637742319383RIBONUCLEASE J
5a0v_B1e-637742319383RIBONUCLEASE 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
GenBankAM4811719e-58AM481171.2 Vitis vinifera contig VV78X276913.12, whole genome shotgun sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_028058464.10.0ribonuclease J-like isoform X1
RefseqXP_028058465.10.0ribonuclease J-like isoform X2
SwissprotQ84W560.0RNJ_ARATH; Ribonuclease J
TrEMBLA0A2R6PEI40.0A0A2R6PEI4_ACTCH; Ribonuclease
STRINGVIT_17s0000g01640.t010.0(Vitis vinifera)
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]