LOCUS       NC_014003               5698 bp    DNA     circular CON 14-MAR-2024
DEFINITION  Salmonella enterica subsp. enterica serovar Newport plasmid
            pSN11/00Kan, complete sequence.
ACCESSION   NC_014003
VERSION     NC_014003.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN14225385
KEYWORDS    RefSeq.
SOURCE      Salmonella enterica subsp. enterica serovar Newport
  ORGANISM  Salmonella enterica subsp. enterica serovar Newport
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Salmonella.
REFERENCE   1  (bases 1 to 5698)
  AUTHORS   Chen,C.Y., Strobaugh,T.P. Jr. and Frye,J.G.
  TITLE     Characterization of small ColE1-like plasmids conferring kanamycin
            resistance in Salmonella enterica subsp. enterica serovars
            Typhimurium and Newport
  JOURNAL   Plasmid 63 (3), 150-154 (2010)
   PUBMED   20100512
REFERENCE   2  (bases 1 to 5698)
  AUTHORS   Chen,C.-Y., Strobaugh,T.P. Jr. and Frye,J.G.
  TITLE     Direct Submission
  JOURNAL   Submitted (07-AUG-2009) Microbial Food Safety Research Unit, US
            Department of Agriculture, Agricultural Research Service, Eastern
            Regional Research Center, 600 E. Mermaid Ln., Wyndmoor, PA 19038,
            USA
COMMENT     ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_009953955.2-RS_2024_03_14
            Annotation Date                   :: 03/14/2024 02:51:30
            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)                     :: 9
            CDSs (total)                      :: 9
            Genes (coding)                    :: 6
            CDSs (with protein)               :: 6
            Genes (RNA)                       :: 0
            tRNAs                             :: 0
            ncRNAs                            :: 0
            Pseudo Genes (total)              :: 3
            CDSs (without protein)            :: 3
            Pseudo Genes (ambiguous residues) :: 0 of 3
            Pseudo Genes (frameshifted)       :: 0 of 3
            Pseudo Genes (incomplete)         :: 3 of 3
            Pseudo Genes (internal stop)      :: 0 of 3
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            GQ470395.1.
            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..5698
                     /organism="Salmonella enterica subsp. enterica serovar
                     Newport"
                     /mol_type="genomic DNA"
                     /strain="SN11/00"
                     /serovar="Newport"
                     /sub_species="enterica"
                     /db_xref="taxon:108619"
                     /plasmid="pSN11/00Kan"
     gene            complement(join(<5120..5698,1..>156))
                     /locus_tag="HS623_RS00005"
                     /pseudo=""
     CDS             complement(join(<5120..5698,1..>156))
                     /locus_tag="HS623_RS00005"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_021138877.1"
                     /note="incomplete; partial in the middle of a contig;
                     missing N-terminus and C-terminus; Derived by automated
                     computational analysis using gene prediction method:
                     Protein Homology."
                     /pseudo=""
                     /codon_start=1
                     /transl_table=11
                     /product="Tn3 family transposase"
                     /name="Tn3 family transposase"
     gene            complement(344..493)
                     /locus_tag="HS623_RS00050"
     CDS             complement(344..493)
                     /locus_tag="HS623_RS00050"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001326446.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_032194431.1"
                     /translation="MHEPPVQPDRCALSGNYRLESNPERHVKTPLAAAIGNRLEELVLK
                     LCAG"
                     /name="hypothetical protein"
     gene            complement(1163..1354)
                     /locus_tag="HS623_RS00010"
                     /old_locus_tag="pSN1100Kan_p1"
     CDS             complement(1163..1354)
                     /locus_tag="HS623_RS00010"
                     /old_locus_tag="pSN1100Kan_p1"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000165979.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="Rop family plasmid primer RNA-binding protein"
                     /protein_id="WP_000165986.1"
                     /translation="MTKQEKTALNMARFIRSQTLTLLEKLNELDADEQADICESLHDHA
                     DELYRSCLARFGDDGESN"
                     /name="Rop family plasmid primer RNA-binding protein"
     gene            1417..1740
                     /locus_tag="HS623_RS00015"
                     /old_locus_tag="pSN1100Kan_p2"
     CDS             1417..1740
                     /locus_tag="HS623_RS00015"
                     /old_locus_tag="pSN1100Kan_p2"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000956000.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MobC family plasmid mobilization relaxosome
                     protein"
                     /protein_id="WP_001677263.1"
                     /translation="MLTIRVSDEEHARLLERCEGKRLAEWMRRVCLGEPVARTGKLPTL
                     SPPLLRHLAAIGNNLNQTARKVNSGHWSSIDRVHVVAALMAIEGELRQLRQAVREQGGR
                     DDS"
                     /name="MobC family plasmid mobilization relaxosome protein"
     gene            1949..>2383
                     /locus_tag="HS623_RS00045"
                     /pseudo=""
     CDS             1949..>2383
                     /locus_tag="HS623_RS00045"
                     /inference="COORDINATES: protein motif:HMM:NF015397.4"
                     /note="incomplete; partial in the middle of a contig;
                     missing C-terminus; Derived by automated computational
                     analysis using gene prediction method: Protein Homology."
                     /pseudo=""
                     /codon_start=1
                     /transl_table=11
                     /product="relaxase/mobilization nuclease domain-containing
                     protein"
                     /name="relaxase/mobilization nuclease domain-containing
                     protein"
     gene            2418..2978
                     /locus_tag="HS623_RS00025"
                     /old_locus_tag="pSN1100Kan_p4"
     CDS             2418..2978
                     /locus_tag="HS623_RS00025"
                     /old_locus_tag="pSN1100Kan_p4"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000067488.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MbeB family mobilization protein"
                     /protein_id="WP_000067488.1"
                     /translation="MSNLLQMGTDFEKKLKERAASTENMLNSEFRKLEESVDKALSLNR
                     QKIRDAISEHTTSVKQQLDTLSTTVSTQLSTTEAELSRQQKNLLWQVIKGRVLFPALTA
                     LSVTGGIFLGCWGLIQWQESRIAKNILTIREQENTLAKLEAKTWGVTFVNGENGKFLVL
                     PDGVKGENTWTVGDKNAVRLVRE"
                     /name="MbeB family mobilization protein"
     gene            2985..3218
                     /locus_tag="HS623_RS00030"
                     /old_locus_tag="pSN1100Kan_p5"
     CDS             2985..3218
                     /locus_tag="HS623_RS00030"
                     /old_locus_tag="pSN1100Kan_p5"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000137438.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MbeD family mobilization/exclusion protein"
                     /protein_id="WP_000137388.1"
                     /translation="MTELEGHLLNALEHLQQDYMRRLNEWESAFAELQKMHAVTQQNNA
                     ILNERVVNLSQQVQLLAGQVDRLSRLFITNNR"
                     /name="MbeD family mobilization/exclusion protein"
     gene            <4051..>4149
                     /locus_tag="HS623_RS00035"
                     /pseudo=""
     CDS             <4051..>4149
                     /locus_tag="HS623_RS00035"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_013356662.1"
                     /note="incomplete; partial in the middle of a contig;
                     missing N-terminus and C-terminus; Derived by automated
                     computational analysis using gene prediction method:
                     Protein Homology."
                     /pseudo=""
                     /codon_start=1
                     /transl_table=11
                     /product="amino acid ABC transporter substrate-binding
                     protein"
                     /name="amino acid ABC transporter substrate-binding
                     protein"
     gene            4295..5110
                     /locus_tag="HS623_RS00040"
                     /old_locus_tag="pSN1100Kan_p6"
     CDS             4295..5110
                     /locus_tag="HS623_RS00040"
                     /old_locus_tag="pSN1100Kan_p6"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_032492145.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="aminoglycoside O-phosphotransferase APH(3')-Ia"
                     /protein_id="WP_000018330.1"
                     /translation="MSHIQRETSCSRQRLNSNLDADLYGYKWARDNVGQSGATIYRLYG
                     KPDAPELFLKHGKGSVANDVTDEMVRLNWLTEFMPLPTIKHFIRTPDDAWLLTTAIPGK
                     TAFQVLEEYPDSGENIVDALAAFLRRLHSIPVCNCPFNSDRVFRLAQAQSRMNNGLVDA
                     SDFDDERNGWPVEQVWKEMHKLLPFSPDSVVTHGDFSLDNLIFDEGKLIGCIDVGRVGI
                     ADRYQDLAILWNCLGEFSPSLQKRLFQKYGIDNPDMNKLQFHLMLDEFF"
                     /name="aminoglycoside O-phosphotransferase APH(3')-Ia"
     ARG             4296..5107
                     /name="aph(3')-Ia"
                     /gene="aph(3')-Ia"
                     /gene_name="aminoglycoside O-phosphotransferase APH(3')-Ia"
                     /tool="amrfinderplus"
                     /drug_class="AMINOGLYCOSIDE"
                     /identity="100.0"
                     /coverage="100.0"
     Typing          991..1075
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="3.03e-37"
     Typing          62..603
                     /name="ColRNAI_rep_cluster_1857"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="0.0"
     Typing          1731..3316
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 aacctgccgc tcgatgcctg cgggcagatc aagtgcttgc caggatttca ggcgctcaat
       61 atgttcgagc atgtggcgag agttcggttt ggcaggcgac tggcgcagcc atgccagcca
      121 cgtcacttta ctgccgtcct tgcgcttgag aagttcggct cctgtgtatg ctcactatgc
      181 atgattgtct tgagatctaa cgatcctgaa ggtagtcttg tccgtaaacg aaaaaaccgc
      241 ccagcaaggc ggcttttcga aggttctcag agcagcaact ctttgaacca aggtaactgg
      301 cttggaggag cacagccacc aaatctgtcc tttcagttta gccttaaccg gcgcataact
      361 tcaagactaa ctcctctaaa cggttaccaa tggctgctgc cagtggcgtt tttacgtgtc
      421 tttccgggtt ggactcaaga cgatagttac cggataaggc gcagcggtcg ggctgaacgg
      481 ggggttcgtg cacacagccc agcttggagc gaacgaccta caccgggccg agataccaac
      541 agcgtgagct atgagaaagc gccacgcttc ccgaagggag aaaggcggac aggtatccgg
      601 taagcggcag ggtcggaaca ggagagcgca cgagggagct tccaggggga aacgcctggt
      661 atctttatag tcctgtcggg tttcgccacc tctgacttga gcatctgttt ttgtgatgct
      721 cgtcaggggg gcggagccta tggaaaaacg ccagcggcgc ggccttcttc ctgttcctgg
      781 ccttttgctc acatgtttct tttggcgtta tcccctgatt ctgtggataa ccgcatcacc
      841 gtctttgagt gagctgatac cgctcgccgc agccgaacga ccgagcgtag cgagtcagtg
      901 agcgaggaag cggaagagcg cctgatgcgg cattttctcc ttacgcatct gtgcggtatt
      961 tcacaccgca tatggtgcac ttttcttata atccgcactg atgccacata gttaagccag
     1021 tatacactcc gctatcgcta cgtgactggg tcagggctgc gccccgacac ccgctaaaac
     1081 ccgctgacgc gccctgacgg gcttgtctgc tcccggcatc cgctcacagg caagctgtga
     1141 acgtctccgg gagctgcatg tttcagttgc tttcaccgtc atcgccgaag cgtgcgaggc
     1201 aactacggta gagttcgtcg gcgtggtcgt gaagtgattc gcagatgtct gcctgttcgt
     1261 ccgcgtccag ctcgttgagt ttttccagca gggtcagcgt ctggcttctg ataaagcggg
     1321 ccatgttaag ggctgttttt tcctgtttgg tcatggtctt aaggctcctt aataggggat
     1381 tttttagggg gaatgatacc gatgaaacgc gagaagatgc tcacgatacg ggttagcgat
     1441 gaggagcacg cccggttact ggaacgctgc gagggtaaac gactggcaga atggatgcgg
     1501 cgggtctgtc tgggggagcc ggttgcgcgc acaggaaaac tgccgacact atcgccgcca
     1561 ttgctgcggc atctggctgc catcgggaac aatctgaacc agacagcccg gaaggtgaac
     1621 agcggccact ggtcttcgat tgaccgggtt catgtggtgg ccgctctgat ggccatcgag
     1681 ggtgaattgc gccagttgcg gcaggctgtc agggaacagg ggggacggga tgatagttaa
     1741 atttcatgcc agggggaaag gcggtggaag tggcccggtc gattacctgc tggggcggga
     1801 gcgtaaccgc gaaggcgcaa cggtgctccg gggtaacccg gaagaaatcc gggaactcat
     1861 tgatgccacg ccattttcga agaaatacac gtcaggcgtt ctgtcgttcg cggagaagga
     1921 gttaccgccg ggtgaacgcg aaagagtgat gacgagcttt gagcgtgttc ttatgcccgg
     1981 tctcgaaaaa gaccagtaca gcattctctg ggtggaacac caggataagg ggcggctcga
     2041 actgaatttt gtcattccga acatggaact acagagcggt aagcgcctcc agccgtacta
     2101 cgaccgtgcg gacaggccga ggataaatgc ctggcagacg ctggttaatc atcattacgg
     2161 gctgcgtgac ccgaacgcac cggagaacag acggacgctt gtcacaccga ataatctgcc
     2221 aaaagcgaaa caggaggccg cagaagcgat tacacggggt cttgaggcgc tttaccgtgc
     2281 cggagcaata aaaacgcgtc aggatgtcac tgaggcgctc acagcggcag gttttgaggt
     2341 ggtgaggaca accagaagca gtatcagtat tgccgacccg gagggggggc ggaatctcag
     2401 gctaaagggg gcgctgtatg agcaatcttt tacaaatggg aacggacttc gagaagaaac
     2461 tgaaagagcg agccgcttct accgagaaca tgctgaacag cgagttcagg aagctagaag
     2521 agtctgtaga caaggcactg agcttaaaca ggcagaaaat cagagacgct atcagcgaac
     2581 atacaacatc cgtgaaacag caactggata cgctgagcac caccgtgagc acgcagctca
     2641 gcaccacaga ggccgaactg tcccggcagc agaaaaacct gctctggcag gtgatcaaag
     2701 ggcgggtact gtttccggcg ctgaccgcgc tcagcgtcac gggcggcatt ttcctggggt
     2761 gctgggggct gattcagtgg caggaaagca ggattgcgaa aaatatcttg accatcagag
     2821 agcaggaaaa cacgctggcg aaactcgagg caaaaacctg gggggtgacg ttcgtcaatg
     2881 gcgagaacgg gaaatttctg gtgctgccgg acggggtgaa aggggaaaac acctggacgg
     2941 tgggcgacaa gaacgccgtg aggctggtca gggagtaaac gagtatgacg gaactggaag
     3001 ggcatttgct gaacgcctta gagcatttgc aacaggacta tatgcggcgg ctgaacgagt
     3061 gggagagcgc cttcgcagaa ttgcagaaga tgcacgcggt tacgcaacag aacaacgcga
     3121 tactgaacga gcgtgtcgtg aacttgagtc agcaggtgca gctattagcc ggacaagtcg
     3181 accgcttgag tcggttattt atcacgaaca acagataagg gatgaacagg agcgtcaggc
     3241 gcaggagctt gcccggcgct ggcatgaaga gcaggaaccc gaagcgcgga tctggcgtgg
     3301 cccgtcaatg gggatgtgac cggggtaccc cctgaaatcg agccagtttg tggcacgccc
     3361 tacccggatg gcgccaatgt taatgtacgt acattagcat taacaatatc caaacctccc
     3421 cattttgccc cgttcgacgg ctggaacgtg cgaaactgat cgtcattcag tttcgcgcat
     3481 aactatgcat gaggttaaaa tttaccaggc gcgatcgcgg cagtttttcg ggtggtttgt
     3541 tgctgttttt acctgtctgc tgccgtgatc gcgctgaacg cgtttaagcg gtacgcgcaa
     3601 tgcgacgtta tggtaaatac ggagtatttt aattgcgggc ctttgttgta tatctctgtc
     3661 gtttgtcccc ggggggaagc attactgcta acaagtcccg tgagaaaact gcgcaatcgt
     3721 attgcgcacc atgaacctat tctcaaccgc aatctggagg atgattttgc tacgataaag
     3781 agaattatcg cgtatcggtg tcagcattca ttggagtgga tgctgaaaaa ccaggtgtta
     3841 ctccctctac ttacacttaa acctctctaa aaatataagt aagtactatc gagggctatc
     3901 atgaactatg gtgccctctg agcatagcta cccattactt cttctatgtc attgaataat
     3961 tcatttctta actctaagta ttctagtaac tccatttcta atgactctgt cgtgaactta
     4021 aatctagaag gatctttgat tgagtttact agtcttgatg ccatgttcct cgactacgaa
     4081 gcggccaaag attatgcgac ccgctccagg ctggtcacgg cggcgaatat cccttctttc
     4141 ggagcgccag aatgatgttg gtctggccgg attttcatat ggcgggaacc acgttgtgtc
     4201 tcaaaatctc tgatgttaca ttgcacaaga taaaaatata tcatcatgaa caataaaact
     4261 gtctgcttac ataaacagta atacaagggg tgttatgagc catattcaac gggaaacgtc
     4321 ttgctcgagg cagcgattaa attccaacct ggatgctgat ttatatgggt ataaatgggc
     4381 tcgcgataat gtcgggcaat caggtgcgac aatctatcga ttgtatggga agcccgatgc
     4441 gccagagttg tttctgaaac atggcaaagg tagcgttgcc aatgatgtta cagatgagat
     4501 ggtcagacta aactggctga cggaatttat gcctcttccg accatcaagc attttatccg
     4561 tactcctgat gatgcatggt tactcaccac tgcgatcccc gggaaaacag cattccaggt
     4621 attagaagaa tatcctgatt caggtgaaaa tattgttgat gcgctggcag cgttcctgcg
     4681 ccggttgcat tcgattcctg tttgtaattg tccttttaac agcgatcgcg tatttcgtct
     4741 cgctcaggcg caatcacgaa tgaataacgg tttggttgat gcgagtgatt ttgatgatga
     4801 gcgtaatggc tggcctgttg aacaagtctg gaaagaaatg cataagcttt tgccattctc
     4861 accggattca gtcgtcactc atggtgattt ctcacttgat aatcttattt ttgacgaggg
     4921 gaaattaata ggttgtattg atgttggacg agtcggaatc gcagaccgat accaggatct
     4981 tgccattcta tggaactgcc tcggtgaatt ttctccttca ttacagaaac ggctttttca
     5041 aaaatatggt attgataatc ctgatatgaa taaattgcag tttcatttga tgctcgatga
     5101 gtttttctga tagttagtct ttaatgaatg cggttggcgc atcggcgggc accttgcgcg
     5161 cgctgtcgct gttcatgccg cgcagcatgt cgatggcatc gagcacaccc ttggcggcgg
     5221 gcgcagcccg caatttgagc acgcccagga actgcggcgc gtagcggcgt agcgtggcat
     5281 agctttcacc gatgtggtgc aggaaatcaa agtcggcagg ccgcgccaat gtttgcgctt
     5341 cggtgacgct ggcggcgaag gtgtcccagg gcataacggc ctcgatggcg gcgaacggat
     5401 cgctgccgct ttgcttggcc tcaatcaacg cttgaccgat gcgcccatac atccgcacct
     5461 tgtcgttgat cgccttgccg gaagcctgga actgctgctg atgcttgttc ttggccgcgt
     5521 tgaacagctt gccgatgatg cgatcgtgaa ggtcgatgat ttcatcggtg acggtggcca
     5581 tgccttcgat ggccagcgct accagcgtgg catagcgtcg ttgcacctcg aactttgcca
     5641 gatcagcagg cgtcatctgg ccaccttcac gagcgatttt gagcaggcgg ttctggtg
//
