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PangenomeCOLN315NCTC8325NewmanUSA300_FPR375704-0298108BA0217611819-97685071193ECT-R 2ED133ED98HO 5096 0412JH1JH9JKD6008JKD6159JSNZLGA251M013MRSA252MSHR1132MSSA476MW2Mu3Mu50RF122ST398T0131TCH60TW20USA300_TCH1516VC40

NCBI: 26-AUG-2013

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⊟Summary[edit | edit source]

Contents

  • 1 Summary
  • 2 Genome View
  • 3 Gene
    • 3.1 General
    • 3.2 Accession numbers
    • 3.3 Phenotype
    • 3.4 DNA sequence
  • 4 Protein
    • 4.1 General
    • 4.2 Function
    • 4.3 Structure, modifications & cofactors
    • 4.4 Localization
    • 4.5 Accession numbers
    • 4.6 Protein sequence
    • 4.7 Experimental data
  • 5 Expression & Regulation
    • 5.1 Operon
    • 5.2 Regulation
    • 5.3 Transcription pattern
    • 5.4 Protein synthesis (provided by Aureolib)
    • 5.5 Protein stability
  • 6 Biological Material
    • 6.1 Mutants
    • 6.2 Expression vector
    • 6.3 lacZ fusion
    • 6.4 GFP fusion
    • 6.5 two-hybrid system
    • 6.6 FLAG-tag construct
    • 6.7 Antibody
  • 7 Other Information
  • 8 Literature
    • 8.1 References
    • 8.2 Relevant publications
  • organism: Staphylococcus aureus N315
  • locus tag: SA1061 [new locus tag: SA_RS06020 ]
  • pan locus tag?: SAUPAN003501000
  • symbol: SA1061
  • pan gene symbol?: rlmN
  • synonym:
  • product: ribosomal RNA large subunit methyltransferase N

⊟Genome View[edit | edit source]

⊟Gene[edit | edit source]

⊟General[edit | edit source]

  • type: CDS
  • locus tag: SA1061 [new locus tag: SA_RS06020 ]
  • symbol: SA1061
  • product: ribosomal RNA large subunit methyltransferase N
  • replicon: chromosome
  • strand: +
  • coordinates: 1200543..1201637
  • length: 1095
  • essential: no DEG other strains

⊟Accession numbers[edit | edit source]

  • Gene ID: 1123892 NCBI
  • RefSeq: NP_374334 NCBI
  • BioCyc: see SA_RS06020
  • MicrobesOnline: 103360 MicrobesOnline

⊟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
    ATGATAACTGCTGAAAAGAAAAAGAAGAATAAATTTCTTCCAAATTTTGACAAGCAATCA
    ATATATTCATTGCGATTTGACGAAATGCAAAACTGGCTCGTTGAACAAGGTCAACAAAAA
    TTTCGAGCGAAACAGATTTTTGAATGGTTATATCAAAAAAGAGTAGATTCGATTGATGAA
    ATGACGAACTTATCGAAAGACTTACGACAGCTTTTAAAAGATAACTTTACTGTTACAACT
    TTAACAACTGTAGTAAAACAAGAAAGTAAAGACGGTACAATTAAATTCTTATTTGAATTA
    CAAGATGGCTATACAATTGAAACTGTTTTAATGAGACATGATTATGGAAATTCAGTATGT
    GTAACGACACAAGTAGGTTGTCGTATCGGATGTACGTTTTGTGCTTCTACACTTGGCGGC
    TTAAAAAGAAACCTTGAAGCTGGCGAAATTGTTTCACAAGTTTTAACAGTTCAAAAAGCC
    CTTGATGCTACAGAAGAGCGCGTATCTCAAATTGTCATAATGGGTATCGGTGAACCATTT
    GAAAATTATGATGAAATGATGGACTTTTTAAGAATCGTCAATGATGATAACAGTTTAAAT
    ATTGGTGCACGTCACATTACAGTATCAACATCAGGTATCATTCCTAGAATATATGACTTT
    GCGGATGAAGATATCCAAATTAATTTTGCTGTAAGCTTACACGCCGCAAAAGATGAAGTG
    CGATCACGCTTGATGCCAATTAACCGTGCATATAATGTTGAGAAGTTAATCGAAGCAATT
    CAATATTATCAAGAAAAAACAAATCGTCGTGTTACTTTTGAATATGGTCTGTTTGGTGGT
    GTGAATGACCAACTAGAACATGCAAGAGAATTAGCACATTTAATAAAAGGCTTAAACTGC
    CATGTTAACTTAATTCCTGTCAACCATGTTCCAGAAAGAAATTATGTGAAAACGGCTAAA
    AATGATATCTTTAAATTTGAAAAAGAATTAAAGAGACTAGGAATTAATGCCACAATACGT
    CGTGAACAAGGTTCGGATATTGACGCAGCTTGTGGTCAATTAAGAGCAAAGGAACGACAA
    GTAGAAACGAGGTAA
    60
    120
    180
    240
    300
    360
    420
    480
    540
    600
    660
    720
    780
    840
    900
    960
    1020
    1080
    1095

⊟Protein[edit | edit source]

⊟General[edit | edit source]

  • locus tag: SA1061 [new locus tag: SA_RS06020 ]
  • symbol: SA1061
  • description: ribosomal RNA large subunit methyltransferase N
  • length: 364
  • theoretical pI: 7.15306
  • theoretical MW: 41904.6
  • GRAVY: -0.428022

⊟Function[edit | edit source]

  • ⊞reaction:
    EC 2.1.1.192?  ExPASy
    23S rRNA (adenine2503-C2)-methyltransferase 2 S-adenosyl-L-methionine + adenine2503 in 23S rRNA + 2 reduced [2Fe-2S] ferredoxin = S-adenosyl-L-homocysteine + L-methionine + 5'-deoxyadenosine + 2-methyladenine2503 in 23S rRNA + 2 oxidized [2Fe-2S] ferredoxin 2 S-adenosyl-L-methionine + adenine37 in tRNA + 2 reduced [2Fe-2S] ferredoxin = S-adenosyl-L-homocysteine + L-methionine + 5'-deoxyadenosine + 2-methyladenine37 in tRNA + 2 oxidized [2Fe-2S] ferredoxin
  • ⊞TIGRFAM:
    Genetic information processing Protein synthesis tRNA and rRNA base modification 23S rRNA (adenine(2503)-C(2))-methyltransferase (TIGR00048; EC 2.1.1.192; HMM-score: 510.6)
    and 9 more
    Genetic information processing Protein synthesis tRNA and rRNA base modification 23S rRNA (adenine(2503)-C(8))-methyltransferase Cfr (TIGR04432; EC 2.1.1.224; HMM-score: 251.5)
    hopanoid biosynthesis associated radical SAM protein HpnH (TIGR03470; HMM-score: 22.6)
    Genetic information processing Protein fate Protein modification and repair anaerobic ribonucleoside-triphosphate reductase activating protein (TIGR02495; EC 1.97.-.-; HMM-score: 19.3)
    Metabolism Purines, pyrimidines, nucleosides, and nucleotides 2'-Deoxyribonucleotide metabolism anaerobic ribonucleoside-triphosphate reductase activating protein (TIGR02495; EC 1.97.-.-; HMM-score: 19.3)
    radical SAM enzyme, TIGR04100 family (TIGR04100; HMM-score: 19.1)
    Cellular processes Cellular processes Adaptations to atypical conditions KamA family protein (TIGR00238; HMM-score: 17.3)
    Genetic information processing Protein synthesis tRNA and rRNA base modification MiaB-like tRNA modifying enzyme (TIGR01579; HMM-score: 17.3)
    Metabolism Purines, pyrimidines, nucleosides, and nucleotides 2'-Deoxyribonucleotide metabolism anaerobic ribonucleoside-triphosphate reductase activating protein (TIGR02826; EC 1.97.1.-; HMM-score: 15.1)
    Metabolism Transport and binding proteins Cations and iron carrying compounds magnesium transporter (TIGR00400; HMM-score: 10.5)
  • TheSEED  :
    • 23S rRNA (adenine(2503)-C(2))-methyltransferase
    • tRNA (adenine(37)-C(2))-methyltransferase (EC 2.1.1.192)
    Conserved gene cluster associated with Met-tRNA formyltransferase  Ribosomal RNA large subunit methyltransferase N (EC 2.1.1.-)
  • ⊞PFAM:
    TIM_barrel (CL0036) Radical_SAM; Radical SAM superfamily (PF04055; HMM-score: 67.4)
    HHH (CL0198) RlmN_N; Ribosomal RNA large subunit methyltransferase N-terminal domain (PF21016; HMM-score: 64.2)
    and 4 more
    4Fe-4S (CL0344) Fer4_12; 4Fe-4S single cluster domain (PF13353; HMM-score: 19.5)
    no clan defined Pox_RNA_Pol_22; Poxvirus RNA polymerase 22 kDa subunit (PF05273; HMM-score: 13.4)
    Peptidase_CA (CL0125) Peptidase_C23; Carlavirus endopeptidase (PF05379; HMM-score: 12.8)
    TIM_barrel (CL0036) Radical_SAM_2; Radical SAM-like domain (PF19238; HMM-score: 12.4)

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

  • domains:
  • modifications:
  • cofactors: [4Fe-4S] cluster
  • effectors:

⊟Localization[edit | edit source]

  • ⊞PSORTb: Cytoplasmic
    • Cytoplasmic Score: 7.5
    • Cytoplasmic Membrane Score: 1.15
    • Cellwall Score: 0.62
    • Extracellular Score: 0.73
    • Internal Helices: 0
  • ⊞DeepLocPro: Cytoplasmic
    • Cytoplasmic Score: 0.9838
    • Cytoplasmic Membrane Score: 0.0042
    • Cell wall & surface Score: 0.0001
    • Extracellular Score: 0.0119
  • ⊞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): 0.001615
    • TAT(Tat/SPI): 0.000149
    • LIPO(Sec/SPII): 0.000265
  • predicted transmembrane helices (TMHMM): 0

⊟Accession numbers[edit | edit source]

  • GI: 15926801 NCBI
  • RefSeq: NP_374334 NCBI
  • UniProt: Q7A600 UniProt

⊟Protein sequence[edit | edit source]

  • MITAEKKKKNKFLPNFDKQSIYSLRFDEMQNWLVEQGQQKFRAKQIFEWLYQKRVDSIDEMTNLSKDLRQLLKDNFTVTTLTTVVKQESKDGTIKFLFELQDGYTIETVLMRHDYGNSVCVTTQVGCRIGCTFCASTLGGLKRNLEAGEIVSQVLTVQKALDATEERVSQIVIMGIGEPFENYDEMMDFLRIVNDDNSLNIGARHITVSTSGIIPRIYDFADEDIQINFAVSLHAAKDEVRSRLMPINRAYNVEKLIEAIQYYQEKTNRRVTFEYGLFGGVNDQLEHARELAHLIKGLNCHVNLIPVNHVPERNYVKTAKNDIFKFEKELKRLGINATIRREQGSDIDAACGQLRAKERQVETR

⊟Experimental data[edit | edit source]

  • experimentally validated: data available for COL, NCTC8325
  • protein localization: data available for COL
  • quantitative data / protein copy number per cell:
  • interaction partners:

⊟Expression & Regulation[edit | edit source]

⊟Operon[edit | edit source]

  • MicrobesOnline: SA1058 > SA1059 > SA1060 > SA1061 > SA1062 > SA1063

⊟Regulation[edit | edit source]

  • regulator:

⊟Transcription pattern[edit | edit source]

  • S.aureus Expression Data Browser: data available for NCTC8325

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

  • Aureolib: no data available

⊟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]

⊟Relevant publications[edit | edit source]

Retrieved from "http://fungenwikiserver.biologie.uni-greifswald.de/aureowiki/index.php?title=SA1061&oldid=66898"
  • This page was last edited on 10 March 2016, at 18:49.
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