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 Achn114091
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: 1161aa    MW: 129106 Da    PI: 6.6373
Description Trihelix family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Achn114091genomeIKGCView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1trihelix58.91.3e-18711784174
    trihelix   1 rWtkqevlaLiearremeerlrrgklkkplWeevskkmrergferspkqCkekwenlnkrykkikegekkrtse 74 
                 rW  +ev++Li++r +++ r++ +k++k lWee+s+++ + g++rsp qCk+ w  l k+y+   ++++++++e
  Achn114091 711 RWNPDEVMKLINLRGQLHIRFQVAKQQKVLWEEISSNLLADGVNRSPRQCKSQWTYLVKKYEGFSTQQESKSDE 784
                 8*************************************************************999999887654 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:3.60.15.107.2E-5776307IPR001279Metallo-beta-lactamase
SuperFamilySSF562815.2E-5777429IPR001279Metallo-beta-lactamase
SMARTSM008497.7E-2089267IPR001279Metallo-beta-lactamase
PfamPF007531.9E-890157IPR001279Metallo-beta-lactamase
PROSITE profilePS500907.712704768IPR017877Myb-like domain
Gene3DG3DSA:1.10.10.603.2E-4707770IPR009057Homeodomain-like
SMARTSM007171.5E-4708770IPR001005SANT/Myb domain
PfamPF138372.3E-12710779No hitNo description
CDDcd122038.20E-19710773No hitNo description
SuperFamilySSF476161.9E-8763855IPR010987Glutathione S-transferase, C-terminal-like
PROSITE patternPS008240897905IPR001326Translation elongation factor EF1B, beta/delta chains, conserved site
SuperFamilySSF549844.19E-309531044IPR014038Translation elongation factor EF1B, beta/delta subunit, guanine nucleotide exchange domain
CDDcd002926.01E-389531044No hitNo description
Gene3DG3DSA:3.30.70.608.4E-389531044IPR014717Translation elongation factor EF1B/ribosomal protein S6
SMARTSM008885.5E-399551044IPR014038Translation elongation factor EF1B, beta/delta subunit, guanine nucleotide exchange domain
PfamPF007361.2E-319571044IPR014038Translation elongation factor EF1B, beta/delta subunit, guanine nucleotide exchange domain
PROSITE patternPS00825010331044IPR001326Translation elongation factor EF1B, beta/delta chains, conserved site
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006414Biological Processtranslational elongation
GO:0005853Cellular Componenteukaryotic translation elongation factor 1 complex
GO:0003677Molecular FunctionDNA binding
GO:0003746Molecular Functiontranslation elongation factor activity
Sequence ? help Back to Top
Protein Sequence    Length: 1161 aa     Download sequence    Send to blast
MSAFSALSTC PYSFSRRLNP KYCYISCSLA PPSSTGTHGL KIPQKISGRL EGAGKSMEDS  60
VKRKMEQFYE GSDGPPLRVL PIGGLGEIGM NCMLVGNYDR YILIDAGIMF PDYDMLGVQK  120
IIPDTTFIRK WSHKIEAVII THGHEDHIGA LPWLIKKRLI EFGIFVPSRL KVFRTRRRFS  180
AGPFEIEPIT VTHSIPDCCG LVLRCADGTI LHTGDWKIDE SPLDGKVFDR EALEELSKEG  240
VTLMMSDSTN VLSPGRTLSE TVVADALLRH ISAAKGRVIT TQFSSNIHRL GSIKAAADLT  300
GRKLVFVGMS LRTYLDAAWK DGKAPIDPST LVKVEDIDTY APKDLLIVTT GSQAEPRAAL  360
NLASHGSSHL LKLSKEDIIL YSAKVIPGNE TRVMKMFNRI SEIGSTMIMG KNEKLHSSGH  420
GYRDELLMYS DGDKAFGTST DLYLDERWKI ALNGIVMVSM EILRRQEAVG SAEKTLKGKI  480
KITTRCLWLD EGKLLDALHK AAHATLSSCP VNCPLAHIER TVSEVLRKLV RKYSNKRPEV  540
IVIAVENPET VLSDELNARL SGEPRGGFRI SALRNVADGH PKKRRPTKIQ EEEGRNGIHS  600
MRNTQHELED HSGVEGERLV SEEATISGSE LAARFSLNSE SAERFSVNSE SDEFWKSSIV  660
SSPIDELVKD STGSIPQEED REKLKKEIVF DDSVEIPISR LQSSKPVKLN RWNPDEVMKL  720
INLRGQLHIR FQVAKQQKVL WEEISSNLLA DGVNRSPRQC KSQWTYLVKK YEGFSTQQES  780
KSDEKGLVMA VTCFDVNSQS GLKKLYEYLL TRSYITGYQA SKDDITVHAA LSKPPSSEYV  840
NVSRWYNHIE ALLRISGVSG EGCGVTVEGS ATADAVATPP PADSKASSYA SAADDDDDDD  900
VDLFGEETEE EKKAAEERAA AVKASGKKKE YHFVLYLFLF LTSDKIFLIL MTAGKSSVLL  960
DVKPWDDETD MKKLEEAVRS VQMEGLFWGA SKLVPVGYGI KKLQIMLTIV DDLVSVDDMI  1020
EDYLTAEPVN EYVQSCDIVA FNKISILAYC ILYVSLSSFL LLNDSCDRIS TIRLASSGCR  1080
RCFAAKLSYF AVFIFPCIDQ CHLNFCINAD EFKNGYAVAM TVLFFICICN DDHKSGKILQ  1140
SSMNEKNWRN KRTAMKELLA *
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5a0t_A1e-697742919386RIBONUCLEASE J
5a0t_B1e-697742919386RIBONUCLEASE J
5a0v_A1e-697742919386RIBONUCLEASE J
5a0v_B1e-697742919386RIBONUCLEASE 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 -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_028058465.10.0ribonuclease J-like isoform X2
SwissprotQ84W560.0RNJ_ARATH; Ribonuclease J
TrEMBLA5C3R90.0A5C3R9_VITVI; Uncharacterized protein
STRINGXP_002511207.10.0(Ricinus communis)
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]