From AureoWiki
Jump to navigation Jump to search

NCBI: 10-JUN-2013

⊟Summary[edit | edit source]

  • organism: Staphylococcus aureus COL
  • locus tag: SACOL2738 [new locus tag: SACOL_RS14310 ]
  • pan locus tag?: SAUPAN006489000
  • symbol: trmE
  • pan gene symbol?: trmE
  • synonym:
  • product: tRNA modification GTPase TrmE

⊟Genome View[edit | edit source]

⊟Gene[edit | edit source]

⊟General[edit | edit source]

  • type: CDS
  • locus tag: SACOL2738 [new locus tag: SACOL_RS14310 ]
  • symbol: trmE
  • product: tRNA modification GTPase TrmE
  • replicon: chromosome
  • strand: -
  • coordinates: 2807106..2808485
  • length: 1380
  • essential: unknown other strains

⊟Accession numbers[edit | edit source]

⊟Phenotype[edit | edit source]

Share your knowledge and add information here. [edit]

⊟DNA sequence[edit | edit source]

  • 1
    61
    121
    181
    241
    301
    361
    421
    481
    541
    601
    661
    721
    781
    841
    901
    961
    1021
    1081
    1141
    1201
    1261
    1321
    ATGGATTTAGATACAATTACGAGTATTTCAACACCAATGGGTGAAGGGGCAATTGGAATT
    GTTCGATTGTCTGGACCGCAAGCCGTTGAAATTGCTGACAAATTATATAAAGGAAAACAT
    CTTTTAAATGATGTTCCATCACATACGATTAATTACGGTCATATTATTGATCCAGAGTCT
    AAAGAAGTGATTGAAGAAGTTATGGTGTCTGTGTTAAGAGCGCCAAAAACATTTACACGC
    GAAGATATTATAGAAATTAATTGTCATGGTGGTATTTTAACGATTAATAGAGTGCTGGAA
    CTTACTATGACATATGGCGCTAGAATGGCTGAGCCAGGTGAATTTACAAAACGTGCCTTT
    TTAAATGGTCGTATTGATTTATCTCAAGCTGAAGCAGTTATGGACTTTATTCGCTCGAAG
    ACAGATAGAGCTTCTAAAGTTGCGATGAATCAAATTGAAGGTCGTCTAAGTGACTTAATC
    AAAAAACAACGTCAATCTATATTAGAGATACTCGCTCAAGTGGAAGTGAATATTGATTAT
    CCTGAATACGATGATGTTGAAGATGCGACTACTGAATTTCTTTTAGAGCAGTCTAAAGAA
    ATCAAACAGGAAATTAATCGTTTATTAGATACCGGTGCGCAGGGTAAAATTATGCGTGAA
    GGTTTATCTACAGTTATTGTTGGTAAACCAAACGTAGGTAAATCATCGATGTTAAATAAT
    TTAATACAAGATAATAAAGCGATTGTAACTGAGGTAGCAGGTACTACTAGAGATGTCTTA
    GAAGAGTACGTCAATGTTCGTGGCGTGCCATTAAGATTAGTTGATACTGCTGGTATACGT
    GAGACAGAAGATATAGTAGAGAAGATTGGTGTTGAACGCTCTAGAAAGGCTCTTAGCCAA
    GCAGACTTAATTTTATTTGTATTAAACAATAACGAAGCATTGACTCAAGAAGATTACACA
    TTATATGAAGTGGTTAAAAATGAAGATGTAATCGTAATTGTTAATAAAATGGATTTAGAG
    CAAAACATAGATATTAATGAAGTTAAAGATATGATAGGTGATACGCCATTAATTCAAACT
    TCAATGTTAAAACAAGAAGGTATTGATGAATTAGAAATACAAATTCGAGATTTGTTCTTT
    GGTGGAGAAGTACAAAATCAAGATATGACTTATGTTTCTAATTCAAGACATATTTCATTA
    TTAAAACAAGCAAGACAAACGATACAAGATGCGATTGATGCAGCAGAATCTGGTGTGCCT
    ATGGATATGGTACAAATTGATTTAACTAGAACTTGGGAAATATTAGGAGAAATTATTGGT
    GAGACTGCAAGTGATGAACTCATCGATCAGTTATTCAGTCAATTCTGCTTAGGTAAATAG
    60
    120
    180
    240
    300
    360
    420
    480
    540
    600
    660
    720
    780
    840
    900
    960
    1020
    1080
    1140
    1200
    1260
    1320
    1380

⊟Protein[edit | edit source]

⊟General[edit | edit source]

  • locus tag: SACOL2738 [new locus tag: SACOL_RS14310 ]
  • symbol: TrmE
  • description: tRNA modification GTPase TrmE
  • length: 459
  • theoretical pI: 4.30301
  • theoretical MW: 51355.2
  • GRAVY: -0.206536

⊟Function[edit | edit source]

  • reaction:
    EC 3.6.-.-?  ExPASy
  • TIGRFAM:
    Genetic information processing Protein synthesis tRNA and rRNA base modification tRNA modification GTPase TrmE (TIGR00450; EC 3.6.-.-; HMM-score: 434.5)
    and 13 more
    Genetic information processing Protein synthesis Other ribosome-associated GTPase EngA (TIGR03594; HMM-score: 115.9)
    Unknown function General small GTP-binding protein domain (TIGR00231; HMM-score: 91.5)
    Genetic information processing Protein fate Protein modification and repair [FeFe] hydrogenase H-cluster maturation GTPase HydF (TIGR03918; HMM-score: 90.6)
    Genetic information processing Protein synthesis Other GTP-binding protein Era (TIGR00436; HMM-score: 67.9)
    Metabolism Transport and binding proteins Cations and iron carrying compounds ferrous iron transport protein B (TIGR00437; HMM-score: 53.1)
    Genetic information processing Protein synthesis Other ribosome biogenesis GTP-binding protein YlqF (TIGR03596; HMM-score: 48.9)
    Genetic information processing Protein synthesis Other ribosome biogenesis GTPase YqeH (TIGR03597; HMM-score: 38)
    Genetic information processing Protein synthesis Other ribosome biogenesis GTP-binding protein YsxC (TIGR03598; HMM-score: 25.9)
    Genetic information processing Protein synthesis Other Obg family GTPase CgtA (TIGR02729; HMM-score: 22.7)
    Metabolism Transport and binding proteins Amino acids, peptides and amines chloroplast protein import component Toc86/159, G and M domains (TIGR00993; HMM-score: 20.7)
    Genetic information processing Protein synthesis Translation factors ribosome small subunit-dependent GTPase A (TIGR00157; EC 3.6.-.-; HMM-score: 19.3)
    Metabolism Purines, pyrimidines, nucleosides, and nucleotides Nucleotide and nucleoside interconversions guanylate kinase (TIGR03263; EC 2.7.4.8; HMM-score: 14.3)
    Metabolism Transport and binding proteins Nucleosides, purines and pyrimidines GTP-binding protein (TIGR00991; HMM-score: 14.1)
  • TheSEED  :
    • GTPase and tRNA-U34 5-formylation enzyme TrmE
    Protein Metabolism Protein biosynthesis Universal GTPases  GTPase and tRNA-U34 5-formylation enzyme TrmE
  • PFAM:
    no clan defined MnmE_helical; MnmE helical domain (PF12631; HMM-score: 195.8)
    and 14 more
    FBD (CL0289) TrmE_N; GTP-binding protein TrmE N-terminus (PF10396; HMM-score: 133.4)
    P-loop_NTPase (CL0023) MMR_HSR1; 50S ribosome-binding GTPase (PF01926; HMM-score: 86.5)
    FeoB_N; Ferrous iron transport protein B (PF02421; HMM-score: 44.7)
    Dynamin_N; Dynamin family (PF00350; HMM-score: 31.6)
    Ras; Ras family (PF00071; HMM-score: 30.5)
    AIG1; AIG1 family (PF04548; HMM-score: 29.5)
    RsgA_GTPase; RsgA GTPase (PF03193; HMM-score: 26.9)
    Roc; Ras of Complex, Roc, domain of DAPkinase (PF08477; HMM-score: 22.9)
    Gtr1_RagA; Gtr1/RagA G protein conserved region (PF04670; HMM-score: 21.6)
    GTP_EFTU; Elongation factor Tu GTP binding domain (PF00009; HMM-score: 21.1)
    SRPRB; Signal recognition particle receptor beta subunit (PF09439; HMM-score: 14.7)
    AAA_16; AAA ATPase domain (PF13191; HMM-score: 13.3)
    Arf; ADP-ribosylation factor family (PF00025; HMM-score: 11.4)
    GHD (CL0369) Cyc-maltodext_C; Cyclo-malto-dextrinase C-terminal domain (PF10438; HMM-score: 10.9)

⊟Structure, modifications & cofactors[edit | edit source]

  • domains:
  • modifications:
  • cofactors: K+
  • effectors:

⊟Localization[edit | edit source]

  • PSORTb: Cytoplasmic
    • Cytoplasmic Score: 9.97
    • Cytoplasmic Membrane Score: 0
    • Cellwall Score: 0.01
    • Extracellular Score: 0.02
    • Internal Helices: 0
  • LocateP: Intracellular
    • Prediction by SwissProt Classification: Cytoplasmic
    • Pathway Prediction: No pathway
    • Intracellular possibility: 1
    • Signal peptide possibility: -1
    • N-terminally Anchored Score: -1
    • Predicted Cleavage Site: No CleavageSite
  • SignalP: no predicted signal peptide
    • SP(Sec/SPI): 0.009151
    • TAT(Tat/SPI): 0.000938
    • LIPO(Sec/SPII): 0.001923
  • predicted transmembrane helices (TMHMM): 0

⊟Accession numbers[edit | edit source]

⊟Protein sequence[edit | edit source]

  • MDLDTITSISTPMGEGAIGIVRLSGPQAVEIADKLYKGKHLLNDVPSHTINYGHIIDPESKEVIEEVMVSVLRAPKTFTREDIIEINCHGGILTINRVLELTMTYGARMAEPGEFTKRAFLNGRIDLSQAEAVMDFIRSKTDRASKVAMNQIEGRLSDLIKKQRQSILEILAQVEVNIDYPEYDDVEDATTEFLLEQSKEIKQEINRLLDTGAQGKIMREGLSTVIVGKPNVGKSSMLNNLIQDNKAIVTEVAGTTRDVLEEYVNVRGVPLRLVDTAGIRETEDIVEKIGVERSRKALSQADLILFVLNNNEALTQEDYTLYEVVKNEDVIVIVNKMDLEQNIDINEVKDMIGDTPLIQTSMLKQEGIDELEIQIRDLFFGGEVQNQDMTYVSNSRHISLLKQARQTIQDAIDAAESGVPMDMVQIDLTRTWEILGEIIGETASDELIDQLFSQFCLGK

⊟Experimental data[edit | edit source]

  • experimentally validated: PeptideAtlas
  • protein localization: Cytoplasmic [1] [2] [3]
  • quantitative data / protein copy number per cell: 63 [4]
  • interaction partners:
    SACOL0033(mecA)penicillin-binding protein 2'  [5] (data from MRSA252)
    SACOL1274(rpsB)30S ribosomal protein S2  [5] (data from MRSA252)
    SACOL2222(rpsE)30S ribosomal protein S5  [5] (data from MRSA252)
    SACOL2173alkaline shock protein 23  [5] (data from MRSA252)

⊟Expression & Regulation[edit | edit source]

⊟Operon[edit | edit source]

⊟Regulation[edit | edit source]

  • regulator:

⊟Transcription pattern[edit | edit source]

⊟Protein synthesis (provided by Aureolib)[edit | edit source]

⊟Protein stability[edit | edit source]

  • half-life: no data available

⊟Biological Material[edit | edit source]

⊟Mutants[edit | edit source]

⊟Expression vector[edit | edit source]

⊟lacZ fusion[edit | edit source]

⊟GFP fusion[edit | edit source]

⊟two-hybrid system[edit | edit source]

⊟FLAG-tag construct[edit | edit source]

⊟Antibody[edit | edit source]

⊟Other Information[edit | edit source]

You are kindly invited to share additional interesting facts.

⊟Literature[edit | edit source]

⊟References[edit | edit source]

  1. ↑ Dörte Becher, Kristina Hempel, Susanne Sievers, Daniela Zühlke, Jan Pané-Farré, Andreas Otto, Stephan Fuchs, Dirk Albrecht, Jörg Bernhardt, Susanne Engelmann, Uwe Völker, Jan Maarten van Dijl, Michael Hecker
    A proteomic view of an important human pathogen--towards the quantification of the entire Staphylococcus aureus proteome.
    PLoS One: 2009, 4(12);e8176
    [PubMed:19997597] [WorldCat.org] [DOI] (I e)
  2. ↑ Kristina Hempel, Florian-Alexander Herbst, Martin Moche, Michael Hecker, Dörte Becher
    Quantitative proteomic view on secreted, cell surface-associated, and cytoplasmic proteins of the methicillin-resistant human pathogen Staphylococcus aureus under iron-limited conditions.
    J Proteome Res: 2011, 10(4);1657-66
    [PubMed:21323324] [WorldCat.org] [DOI] (I p)
  3. ↑ Andreas Otto, Jan Maarten van Dijl, Michael Hecker, Dörte Becher
    The Staphylococcus aureus proteome.
    Int J Med Microbiol: 2014, 304(2);110-20
    [PubMed:24439828] [WorldCat.org] [DOI] (I p)
  4. ↑ Daniela Zühlke, Kirsten Dörries, Jörg Bernhardt, Sandra Maaß, Jan Muntel, Volkmar Liebscher, Jan Pané-Farré, Katharina Riedel, Michael Lalk, Uwe Völker, Susanne Engelmann, Dörte Becher, Stephan Fuchs, Michael Hecker
    Costs of life - Dynamics of the protein inventory of Staphylococcus aureus during anaerobiosis.
    Sci Rep: 2016, 6;28172
    [PubMed:27344979] [WorldCat.org] [DOI] (I e)
  5. ↑ 5.0 5.1 5.2 5.3 Artem Cherkasov, Michael Hsing, Roya Zoraghi, Leonard J Foster, Raymond H See, Nikolay Stoynov, Jihong Jiang, Sukhbir Kaur, Tian Lian, Linda Jackson, Huansheng Gong, Rick Swayze, Emily Amandoron, Farhad Hormozdiari, Phuong Dao, Cenk Sahinalp, Osvaldo Santos-Filho, Peter Axerio-Cilies, Kendall Byler, William R McMaster, Robert C Brunham, B Brett Finlay, Neil E Reiner
    Mapping the protein interaction network in methicillin-resistant Staphylococcus aureus.
    J Proteome Res: 2011, 10(3);1139-50
    [PubMed:21166474] [WorldCat.org] [DOI] (I p)

⊟Relevant publications[edit | edit source]

Retrieved from "http://aureowiki.med.uni-greifswald.de/index.php?title=SACOL2738&oldid=95201"