LOCUS       NZ_CP010404             2473 bp    DNA     circular CON 21-MAR-2024
DEFINITION  Staphylococcus aureus strain GR2 plasmid pGR2B, complete sequence.
ACCESSION   NZ_CP010404
VERSION     NZ_CP010404.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN03267304
            Assembly: GCF_001296985.1
KEYWORDS    RefSeq.
SOURCE      Staphylococcus aureus
  ORGANISM  Staphylococcus aureus
            Bacteria; Bacillota; Bacilli; Bacillales; Staphylococcaceae;
            Staphylococcus.
REFERENCE   1  (bases 1 to 2473)
  AUTHORS   Sabat,A.J., Pournaras,S., Akkerboom,V., Tsakris,A., Grundmann,H. and
            Friedrich,A.W.
  TITLE     Whole-genome analysis of an oxacillin-susceptible CC80 mecA-positive
            Staphylococcus aureus clinical isolate: insights into the mechanisms
            of cryptic methicillin resistance
  JOURNAL   J Antimicrob Chemother 70 (11), 2956-2964 (2015)
   PUBMED   26198147
REFERENCE   2  (bases 1 to 2473)
  AUTHORS   Sabat,A.J., Pournaras,S., Akkerboom,V., Tsakris,A. and
            Friedrich,A.W.
  TITLE     Direct Submission
  JOURNAL   Submitted (17-DEC-2014) Medical Microbiology, University of
            Groningen, University Medical Center Groningen, Hanzeplein 1,
            Groningen 9700 RB, The Netherlands
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: SeqManNGen v. 12.1.0
            Genome Coverage                   :: 50x; 133x
            Sequencing Technology             :: 454; Illumina
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_001296985.1-RS_2024_03_21
            Annotation Date                   :: 03/21/2024 04:56:14
            Annotation Pipeline :: NCBI Prokaryotic Genome Annotation Pipeline
            (PGAP)
            Annotation Method :: Best-placed reference protein set; GeneMarkS-2+
            Annotation Software revision      :: 6.7
            Features Annotated                :: Gene; CDS; rRNA; tRNA; ncRNA
            Genes (total)                     :: 2,802
            CDSs (total)                      :: 2,724
            Genes (coding)                    :: 2,649
            CDSs (with protein)               :: 2,649
            Genes (RNA)                       :: 78
            rRNAs                             :: 6, 5, 5 (5S, 16S, 23S)
            complete rRNAs                    :: 6, 5, 5 (5S, 16S, 23S)
            tRNAs                             :: 58
            ncRNAs                            :: 4
            Pseudo Genes (total)              :: 75
            CDSs (without protein)            :: 75
            Pseudo Genes (ambiguous residues) :: 0 of 75
            Pseudo Genes (frameshifted)       :: 30 of 75
            Pseudo Genes (incomplete)         :: 37 of 75
            Pseudo Genes (internal stop)      :: 17 of 75
            Pseudo Genes (multiple problems)  :: 9 of 75
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP010404.1.
            The annotation was added by the NCBI Prokaryotic Genome Annotation
            Pipeline (PGAP). Information about PGAP can be found here:
            https://www.ncbi.nlm.nih.gov/genome/annotation_prok/
            COMPLETENESS: full length.
FEATURES             Location/Qualifiers
     source          1..2473
                     /organism="Staphylococcus aureus"
                     /mol_type="genomic DNA"
                     /strain="GR2"
                     /isolation_source="Swab"
                     /host="Homo sapiens"
                     /db_xref="taxon:1280"
                     /plasmid="pGR2B"
                     /geo_loc_name="Greece"
                     /lat_lon="39.63 N 22.41 E"
                     /collection_date="2006"
                     /collected_by="Prof. Dr. Spyros Pournaras"
     gene            389..865
                     /locus_tag="RT44_RS14260"
                     /old_locus_tag="RT44_14290"
     CDS             389..865
                     /locus_tag="RT44_RS14260"
                     /old_locus_tag="RT44_14290"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000664727.1"
                     /GO_process="GO:0006260 - DNA replication [Evidence IEA];
                     GO:0006276 - plasmid maintenance [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="replication/maintenance protein RepL"
                     /protein_id="WP_000664727.1"
                     /translation="MKERYGTVYKGSQRLIDEESGEVIEVDKLYRKQTSGNFVKAYIVQ
                     LISMLDMIGGKKLKIVNYILDNVHLSNNTMIATTREIAKATGTSLQTVITTLKILEEGN
                     IIKRKTGVLMLNPELLMRGDDQKQKYLLLEFGNFEQEANEKQENALSDYYSFKD"
                     /name="replication/maintenance protein RepL"
     gene            1560..1619
                     /gene="ermCL"
                     /locus_tag="RT44_RS15175"
     CDS             1560..1619
                     /gene="ermCL"
                     /locus_tag="RT44_RS15175"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_002497446.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="23S rRNA methylase leader peptide ErmCL"
                     /protein_id="WP_002497446.1"
                     /translation="MGIFSIFVISTVHYQPNKK"
                     /name="ermCL"
     gene            1680..2414
                     /gene="erm(C)"
                     /locus_tag="RT44_RS14265"
                     /old_locus_tag="RT44_14295"
     ARG             1681..2411
                     /name="erm(C)"
                     /gene="erm(C)"
                     /gene_name="23S rRNA (adenine(2058)-N(6))-methyltransferase
                     Erm(C)"
                     /tool="amrfinderplus"
                     /drug_class="LINCOSAMIDE/MACROLIDE/STREPTOGRAMIN"
                     /identity="100.0"
                     /coverage="100.0"
     ARG             1681..2414
                     /name="ErmC"
                     /gene="ErmC"
                     /gene_name="Erm 23S ribosomal RNA methyltransferase"
                     /tool="rgi"
                     /drug_class="macrolide antibiotic; lincosamide antibiotic;
                     streptogramin antibiotic; streptogramin A antibiotic;
                     streptogramin B antibiotic"
                     /identity="99.59"
                     /coverage="100.0"
     Typing          390..875
                     /name="rep_cluster_1947"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="99.591"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 atcgattatg tcttttgcgc attcacttct tttctatata aatatgagcg aagcgaataa
       61 gcgtcggaaa agcagcaaaa agtttccttt ttgctgttgg agcatggggg ttcagggggt
      121 gcagtatctg acgtcaatgc cgagcgaaag cgagccgaag ggtagcattt acgttagata
      181 accccctgat atgctccgac gctttatata gaaaagaaga ttcaactagg taaaatctta
      241 atataggttg agatgataag gtttataagg aatttgtttg ttctaatttt tcactcattt
      301 tgttctaatt tcttttaaca aatgttcttt tttttttaga acagttatga tatagttaga
      361 atagtttaaa ataaggagtg agaaaaagat gaaagaaaga tatggaacag tctataaagg
      421 ctctcagagg ctcatagacg aagaaagtgg agaagtcata gaggtagaca agttataccg
      481 taaacaaacg tctggtaact tcgtaaaggc atatatagtg caattaataa gtatgttaga
      541 tatgattggc ggaaaaaaac ttaaaatcgt taactatatc ctagataatg tccacttaag
      601 taacaataca atgatagcta caacaagaga aatagcaaaa gctacaggaa caagtctaca
      661 aacagtaata acaacactta aaatcttaga agaaggaaat attataaaaa gaaaaactgg
      721 agtattaatg ttaaaccctg aactactaat gagaggcgac gaccaaaaac aaaaatacct
      781 cttactcgaa tttgggaact ttgagcaaga ggcaaatgaa aaacaagaaa atgcattatc
      841 tgattattat tctttcaagg actagtataa cataaaatcg tctacaaata gacaaaaaac
      901 ctgcacgctt aatgtagatc aaaagcttaa cgcaaatgaa atagattgac ctcccaataa
      961 ctacgtggtg ttattgggag gtcaatctat gaaatgcgat taagcttttt ctaattcaca
     1021 taagcgtgca ggtttaaagt acataaaaaa tataatgaaa aaaagcatca ttatactaac
     1081 gttataccaa cattatactc tcattatact aattgcttat tccaatttcc tattggttgg
     1141 aaccaacagg cgttagtgtg ttgttgagtt ggtactttca tgggattaat cccatgaaac
     1201 ccccaaccaa ctcgccaaag ctttggctaa cacacacgcc attccaacca atagttttct
     1261 cggcataaag ccatgctctg acgcttaaat gcactaatgc cttaaaaaaa cattaaagtc
     1321 taacacacta gacttattta cttcgtaatt aagtcgttaa accgtgtgct ctacgaccaa
     1381 aagtataaaa cctttaagaa ctttcttttt tcttgtaaaa aaagaaacta gataaatctc
     1441 tcatatcttt tattcaataa tcgcatcaga ttgcagtata aatttaacga tcactcatca
     1501 tgttcatatt tatcagagct cgtgctataa ttatactaat tttataagga ggaaaaaata
     1561 tgggcatttt tagtattttt gtaatcagca cagttcatta tcaaccaaac aaaaaataag
     1621 tggttataat gaatcgttaa taagcaaaat tcattataac caaattaaag agggttataa
     1681 tgaacgagaa aaatataaaa cacagtcaaa actttattac ttcaaaacat aatatagata
     1741 aaataatgac aaatataaga ttaaatgaac atgataatat ctttgaaatc ggctcaggaa
     1801 aagggcattt tacccttgaa ttagtacaga ggtgtaattt cgtaactgcc attgaaatag
     1861 accataaatt atgcaaaact acagaaaata aacttgttga tcacgataat ttccaagttt
     1921 taaacaagga tatattgcag tttaaatttc ctaaaaacca atcctataaa atatttggta
     1981 atatacctta taacataagt acggatataa tacgcaaaat tgtttttgat agtatagctg
     2041 atgagattta tttaatcgtg gaatacgggt ttgctaaaag attattaaat acaaaacgct
     2101 cattggcatt atttttaatg gcagaagttg atatttctat attaagtatg gttccaagag
     2161 aatattttca tcctaaacct aaagtgaata gctcacttat cagattaaat agaaaaaaat
     2221 caagaatatc acacaaagat aaacagaagt ataattattt cgttatgaaa tgggttaaca
     2281 aagaatacaa gaaaatattt acaaaaaatc aatttaacaa ttccttaaaa catgcaggaa
     2341 ttgacgattt aaacaatatt agctttgaac aattcttatc tcttttcaat agctataaat
     2401 tatttaataa gtaagttaag ggatgcataa actgcatccc ttaacttgtt tttcgtgtac
     2461 ctattttttg tga
//
