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PangenomeTIGR4
serotype 4
D39
serotype 2
D39V
serotype 2
Hungary19A-6
serotype 19A
EF3030
serotype 19F
670-6B
serotype 6B
6A-10
serotype 6A
70585
serotype 5
A026
serotype 19F
A66
serotype 3
AP200
serotype 11A
ASP0581
serotype 12F
ATCC 49619
serotype 19F
ATCC 700669
serotype 23F
BM6001
serotype 19F
BVJ1JL
serotype 1
CGSP14
serotype 14
G54
serotype 19F
HU-OH
serotype 3
Hu15
serotype 19A
Hu17
serotype 19A
INV104
serotype 1
INV200
serotype 14
JJA
serotype 14
MDRSPN001
serotype 19F
NCTC7465
serotype 1
NCTC7466
serotype 2
NU83127
serotype 4
OXC141
serotype 3
P1031
serotype 1
R6
serotype 2
SP49
serotype 19A
SPN032672
serotype 1
SPN034156
serotype 3
SPN034183
serotype 3
SPN994038
serotype 3
SPN994039
serotype 3
SPNA45
serotype 3
ST556
serotype 19F
TCH8431/19A
serotype 19A
Taiwan19F-14
serotype 19F
Xen35
serotype 4
gamPNI0373
serotype 1

NCBI: 05-APR-2025

⊟Summary[edit | edit source]

  • organism: Streptococcus pneumoniae OXC141
  • locus tag: SPNOXC_RS06520 [old locus tags: SPNOXC12120 SPNOXC_12120 ]
  • pan locus tag?: PNEUPAN002654000
  • symbol: SPNOXC_RS06520
  • pan gene symbol?: ywbD
  • synonym:
  • product: class I SAM-dependent rRNA methyltransferase

⊟Genome View[edit | edit source]

⊟Gene[edit | edit source]

⊟General[edit | edit source]

  • type: CDS
  • locus tag: SPNOXC_RS06520 [old locus tags: SPNOXC12120 SPNOXC_12120 ]
  • symbol: SPNOXC_RS06520
  • product: class I SAM-dependent rRNA methyltransferase
  • replicon: chromosome
  • strand: -
  • coordinates: 1232116..1233279
  • length: 1164
  • essential: unknown

⊟Accession numbers[edit | edit source]

  • Location: NC_017592 (1232116..1233279) NCBI
  • BioCyc: SPNOXC_RS06520 BioCyc
  • MicrobesOnline:
  • PneumoBrowse for strain D39V: SPV_1212 PneumoBrowse

⊟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
    ATGAATAGAATAAGAGTCAGCAAAAGGGTTGAAAAGAAGCTTGCTAAGGGGCTAGTTTTA
    CTAGAAGCCAGTGATCTTGAGAATGTCAATCTTAAGGATCAGGAAGTAGAGGTGCAGGGT
    CAGGAAGGAAACTTTCTTGGGACTGCCTACCTTTCTCAGCAAAACAAGGGCTTGGGCTGG
    TTTGTCAGCAAAGACAAGGTGGCCTTCAATCAAACTTTCTTTGAAACGTTGTTTAGAAAA
    GCCAAAGAAAAGAGAAACGCCTACTATCAAGATGATTTGACAACTGCCTTTCGTCTCTTT
    AATCAAGAGGGAGATGGCTTTGGGGGTCTGACAGTGGACCTTTATGGCGACTACGCCGTC
    TTTTCTTGGTATAACTCTTATGTTTATCAGATTCGTCAGACTATATCAGAAGCCTTTAGA
    CAGGTTTTCCCTGAGGTTTTAGGAGCTTATGAGAAAATCCGCTTTAAGGGTTTTGACTAT
    GAATCTGCCCATGTTTATGGTCAAGAAGCACCTGACTTTTTCACTGTTTTAGAAAATGGT
    GTCCTGTATCAAGTCTTTATGAATGATGGCTTGATGACAGGAATTTTCCTAGACCAGCAT
    GAGGTTCGCGGTAGTTTAGTTGACGGCTTGGCTATGGGTAAATCCTTGCTCAATATGTTT
    TCCTACACAGCGGCTTTTTCAGTAGCTGCGGCCATGGGAGGAGCTAGCCAGACAACTTCT
    GTTGATCTAGCCAAACGTTCACGAGAATTGTCTCAAGCGCATTTTCAGGCAAATGGGCTC
    AGCACAGACGAGCATCGTTTTATAGTCATGGATGTCTTTGAGTATTTCAAATATGCCAAA
    CGCAAAGACTTGACCTACGATGTGATTGTCCTAGATCCGCCTAGCTTTGCTCGGAATAAA
    AAACAAACTTTCTCTGTGGCCAAGGATTATCACAAGTTGATTTCCCAGAGTCTTGAGATT
    TTAAATCCGGGAGGGATTATCATTGCCAGTACTAATGCTGCCAATGTTTCCCGTCAGAAA
    TTTACAGAACAAATTGATAAAGGCTTTGCAGGAAGAAGTTACCAGATTTTAAACAAATAT
    GGTCTTCCAGCAGATTTTGCCTATAATAAAAAAGATGAAAGTAGTAATTACCTCAAGGTG
    ATTAGTATGAAGGTTAGTAAATGA
    60
    120
    180
    240
    300
    360
    420
    480
    540
    600
    660
    720
    780
    840
    900
    960
    1020
    1080
    1140
    1164

⊟Protein[edit | edit source]

⊟General[edit | edit source]

  • locus tag: SPNOXC_RS06520 [old locus tags: SPNOXC12120 SPNOXC_12120 ]
  • symbol: SPNOXC_RS06520
  • description: class I SAM-dependent rRNA methyltransferase
  • length: 387
  • theoretical pI: 8.83068
  • theoretical MW: 43869.3
  • GRAVY: -0.329457

⊟Function[edit | edit source]

  • reaction:
    EC 2.1.1.-?  ExPASy
  • TIGRFAM:
    Genetic information processing Protein synthesis tRNA and rRNA base modification 16S rRNA (guanine(966)-N(2))-methyltransferase RsmD (TIGR00095; EC 2.1.1.171; HMM-score: 23.9)
    and 1 more
    Genetic information processing Protein fate Protein modification and repair protein-(glutamine-N5) methyltransferase, release factor-specific (TIGR03534; EC 2.1.1.-; HMM-score: 15.4)
  • TheSEED: see SPNOXC12120
  • PFAM:
    NADP_Rossmann (CL0063) Methyltrans_SAM; S-adenosylmethionine-dependent methyltransferase (PF10672; HMM-score: 102.4)
    and 5 more
    PUA (CL0178) PUA_3; PUA-like domain (PF17785; HMM-score: 39.7)
    NADP_Rossmann (CL0063) Cons_hypoth95; Conserved hypothetical protein 95 (PF03602; HMM-score: 29.7)
    MTS; Methyltransferase small domain (PF05175; HMM-score: 24.3)
    Methyltransf_25; Methyltransferase domain (PF13649; HMM-score: 16.9)
    Methyltransf_11; Methyltransferase domain (PF08241; HMM-score: 13.1)

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

  • domains:
  • modifications:
  • cofactors:
  • effectors:

⊟Localization[edit | edit source]

  • PSORTb: unknown (no significant prediction)
    • Cytoplasmic Score: 2.5
    • Cytoplasmic Membrane Score: 2.5
    • Cellwall Score: 2.5
    • Extracellular Score: 2.5
    • Internal Helices: 0
  • DeepLocPro: Cytoplasmic
    • Cytoplasmic Score: 0.9844
    • Cytoplasmic Membrane Score: 0.0026
    • Cell wall & surface Score: 0.0015
    • Extracellular Score: 0.0114
  • SignalP: no predicted signal peptide
    • SP(Sec/SPI): 0.019022
    • TAT(Tat/SPI): 0.000362
    • LIPO(Sec/SPII): 0.002006
  • predicted transmembrane helices (TMHMM): 0

⊟Accession numbers[edit | edit source]

  • GI:
  • RefSeq: WP_001079973 NCBI
  • UniProt:

⊟Protein sequence[edit | edit source]

  • MNRIRVSKRVEKKLAKGLVLLEASDLENVNLKDQEVEVQGQEGNFLGTAYLSQQNKGLGWFVSKDKVAFNQTFFETLFRKAKEKRNAYYQDDLTTAFRLFNQEGDGFGGLTVDLYGDYAVFSWYNSYVYQIRQTISEAFRQVFPEVLGAYEKIRFKGFDYESAHVYGQEAPDFFTVLENGVLYQVFMNDGLMTGIFLDQHEVRGSLVDGLAMGKSLLNMFSYTAAFSVAAAMGGASQTTSVDLAKRSRELSQAHFQANGLSTDEHRFIVMDVFEYFKYAKRKDLTYDVIVLDPPSFARNKKQTFSVAKDYHKLISQSLEILNPGGIIIASTNAANVSRQKFTEQIDKGFAGRSYQILNKYGLPADFAYNKKDESSNYLKVISMKVSK

⊟Experimental data[edit | edit source]

  • protein localization:
  • interaction partners:

⊟Expression & Regulation[edit | edit source]

⊟Operon[edit | edit source]

⊟Regulation[edit | edit source]

  • regulator:

⊟Transcription[edit | edit source]

  • transcription start site:

⊟Expression data[edit | edit source]

⊟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 can add further information about the gene and protein here. [edit]

⊟Literature[edit | edit source]

⊟References[edit | edit source]

⊟Relevant publications[edit | edit source]

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