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 CCG033345.1
Organism
Populus euphratica
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Malpighiales; Salicaceae; Saliceae; Populus
Family Trihelix
Protein Properties Length: 888aa    MW: 98331.6 Da    PI: 8.0227
Description Trihelix family protein
Gene Model
Gene Model ID Type Source Coding Sequence
CCG033345.1genomeLZUView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1trihelix68.41.4e-21796876186
     trihelix   1 rWtkqevlaLiearremeerlrrgklkkplWeevskkmrergferspkqCkekwenlnkrykkikegekkrtsessstcpyfdqle 86 
                  +W+ +ev+ Li++r e+++r++  + +++lWee+s ++++ g++rsp qCk+ w +l ++y++ k+g+k++     + +pyf++++
  CCG033345.1 796 KWKPEEVKSLIKMRGELNSRFQVVRGRMALWEEISTNLMADGINRSPGQCKSLWTSLVQKYEESKNGKKGK-----KAWPYFEDMD 876
                  7*******************************************************************984.....67*******8 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:3.60.15.102.9E-6980330IPR001279Metallo-beta-lactamase
SuperFamilySSF562814.59E-7281495IPR001279Metallo-beta-lactamase
SMARTSM008492.4E-2693290IPR001279Metallo-beta-lactamase
PfamPF127069.5E-12105240IPR001279Metallo-beta-lactamase
PfamPF075211.0E-5438467IPR011108Zn-dependent metallo-hydrolase, RNA specificity domain
Gene3DG3DSA:1.10.10.601.2E-4788855IPR009057Homeodomain-like
PROSITE profilePS500908.304789853IPR017877Myb-like domain
PfamPF138375.6E-19794878No hitNo description
CDDcd122031.43E-20795860No 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
MAAAFSALSS CPYTFFCRPS STKLCVSCSA GSPTTTTIGS RRTKAPPRKR TGRMEGTGKS  60
MEDSVKRKME QFYEGPDGPP LRIVPIGGLG EIGMNCMLVG NYDRYILIDA GVMFPDYDEL  120
GFQKIIPDTT FIRRWKHKIE AVIITHGHED HIGALPWVVP ALDHNTPIYA SSFTMELIKK  180
RLKENGIFVP SRLKVFKTKR KFTAGPFEIE PIRVTHSIPD CCGLVLRCAD GTILHTGDWK  240
IDESPLDGKV FDRETLEELS KEGVTLMMSD STNVLSPGRT LSESVVADAL LRRISAAKGR  300
IITTQFASNI HRLGSVKAAA DLTGRKLVFV GMSLKTYLDA AWKDGKAPID PSTLVKVEDI  360
DSYAPKDLLI VTTGSQAEPR AALNLASYGS SHAFKLNKED VILYSAKVIP GNESRVMKMM  420
NRISEIGSTI VMGKNELLHT SGHGYRGELE EVLKIVKPQH FLPIHGELLF LKEHELLGKS  480
TGIHHTTVIK NGEMLGVSHL RNRRVLSNGF VSLGKENLQL MYNDGDKAFG TSTELCIDER  540
LKIATDGIVV VSMEILRPQN LDGQVEKSLK GKIKITTRCL WLDKGKLLDA LHKAAHAALS  600
SCPVNCPLTH MERTVSEMLR KMVRKYSGKR PEVIAIAVEN PAAVLSDELN ARLSGNSHVG  660
FGISALRKIV DGHPKGNQVD RKRPDGNGYA HLEKTSPQNL EVDDIEFERE LPEEEGTSSS  720
SNLAEGHSST SEDQDDFQKS SVPSSSPVNE LVESDESLVP PGEQMNKLKE DAVDSSDDEL  780
LENENSRLKR SKSRNKWKPE EVKSLIKMRG ELNSRFQVVR GRMALWEEIS TNLMADGINR  840
SPGQCKSLWT SLVQKYEESK NGKKGKKAWP YFEDMDNILS DSETMATK
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5a0t_A6e-868163919560RIBONUCLEASE J
5a0t_B6e-868163919560RIBONUCLEASE J
5a0v_A6e-868163919560RIBONUCLEASE J
5a0v_B6e-868163919560RIBONUCLEASE 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_011044175.10.0PREDICTED: uncharacterized protein LOC105139443 isoform X1
SwissprotQ84W560.0RNJ_ARATH; Ribonuclease J
TrEMBLB9I3P40.0B9I3P4_POPTR; Uncharacterized protein
STRINGPOPTR_0012s09780.10.0(Populus trichocarpa)
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]