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 FANhyb_rscf00000016.1.g00019.1
Organism
Fragaria x ananassa
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Rosales; Rosaceae; Rosoideae; Potentilleae; Fragariinae; Fragaria
Family Trihelix
Protein Properties Length: 620aa    MW: 69151.2 Da    PI: 6.866
Description Trihelix family protein
Gene Model
Gene Model ID Type Source Coding Sequence
FANhyb_rscf00000016.1.g00019.1genomekazusaView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1trihelix64.91.7e-20528608186
                        trihelix   1 rWtkqevlaLiearremeerlrrgklkkplWeevskkmrergferspkqCkekwenlnkrykkikegekkrtsessstc 79 
                                     +W+ +ev++ i++r ++++r++  k +++lWee+s+++ ++g++rsp qCk+ w +l ++y++ k g++++     +++
  FANhyb_rscf00000016.1.g00019.1 528 KWKPEEVKKFIKMRGKLHSRFQVVKGRMALWEEISRNLLAEGINRSPGQCKSLWASLVQKYEESKSGKRSQ-----KSW 601
                                     7******************************************************************9984.....56* PP

                        trihelix  80 pyfdqle 86 
                                     py+++++
  FANhyb_rscf00000016.1.g00019.1 602 PYYEEMD 608
                                     ******7 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:3.60.15.102.6E-6620268IPR001279Metallo-beta-lactamase
SuperFamilySSF562813.72E-6721450IPR001279Metallo-beta-lactamase
SMARTSM008498.7E-2533230IPR001279Metallo-beta-lactamase
PfamPF127065.7E-1144180IPR001279Metallo-beta-lactamase
PROSITE profilePS500908.06521585IPR017877Myb-like domain
Gene3DG3DSA:1.10.10.604.3E-5525586IPR009057Homeodomain-like
PfamPF138373.1E-18526608No hitNo description
CDDcd122031.98E-22527592No 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: 620 aa     Download sequence    Send to blast
MEDSVQRKME QFYEGRDGPP LRVLPIGGLG EIGMNCMLVG NYDRYILIDA GIMFPDFDEL  60
GVQKIIPDTT FIRKWKHKIE AIVITHGHED HIGALPWVIP ALDPSTPIFA SSFTMELIRK  120
RLKEHGIFVP SRLKMFKTKR KFMAGPFEIE PVRVTHSIPD CCGLVLRCAD GTILHTGDWK  180
IDESPLDGQG FDREGLEELS KEGVTLMMSD STNVLSPGRT TSESSVADAL MRHISAAQGR  240
VITTQFASNI HRLGSVKAAA DATGRKLEFV GMSLRTYLDA AWRDGKAPID PSTLVKVEDI  300
ESYAPKDLLI VTTGSQAEPR AALNLASFGG SHSVKLTKED IILYSAKVIP GNESRVMKML  360
NRISDMGSTI VMGKNEGLHT SGHGYRGELI SLNHLKIFTF DEEVLRIVKP QHFLPIHGEL  420
LFLKEHELLG RSTGIHHTTV SQHVPYDGVE VKAPLPVEVS TSSNVNPENV SSDTEEPNDI  480
WNAMVKLSAG DKLAEDKNDL VLQEENLKKD DPESTERTSP SKPVKRNKWK PEEVKKFIKM  540
RGKLHSRFQV VKGRMALWEE ISRNLLAEGI NRSPGQCKSL WASLVQKYEE SKSGKRSQKS  600
WPYYEEMDGA LSDSEAMATK
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5a0t_A1e-852145119431RIBONUCLEASE J
5a0t_B1e-852145119431RIBONUCLEASE J
5a0v_A1e-852145119431RIBONUCLEASE J
5a0v_B1e-852145119431RIBONUCLEASE 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}.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_004297533.10.0PREDICTED: uncharacterized protein LOC101299666
SwissprotQ84W560.0RNJ_ARATH; Ribonuclease J
TrEMBLA0A2P6P4Z10.0A0A2P6P4Z1_ROSCH; Putative beta-lactamase transcription factor MYB family
STRINGXP_004297533.10.0(Fragaria vesca)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
FabidsOGEF50993450
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]