LOCUS       NZ_MT507878             5055 bp    DNA     circular CON 08-MAR-2024
DEFINITION  Salmonella enterica subsp. enterica serovar Typhimurium plasmid
            pST1030-2A, complete sequence.
ACCESSION   NZ_MT507878
VERSION     NZ_MT507878.1
DBLINK      BioProject: PRJNA224116
KEYWORDS    RefSeq.
SOURCE      Salmonella enterica subsp. enterica serovar Typhimurium (Salmonella
            typhimurium)
  ORGANISM  Salmonella enterica subsp. enterica serovar Typhimurium
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Salmonella.
REFERENCE   1  (bases 1 to 5055)
  AUTHORS   Oliva,M., Calia,C., Ferrara,M., D'Addabbo,P., Scrascia,M., Mule,G.,
            Monno,R. and Pazzani,C.
  TITLE     Antimicrobial resistance gene shuffling and a three-element
            mobilisation system in the monophasic Salmonella typhimurium strain
            ST1030
  JOURNAL   Plasmid 111, 102532 (2020)
   PUBMED   32853586
REFERENCE   2  (bases 1 to 5055)
  AUTHORS   Oliva,M., Calia,C., Ferrara,M., D'Addabbo,P., Scrascia,M., Mule',G.,
            Monno,R. and Pazzani,C.
  TITLE     Direct Submission
  JOURNAL   Submitted (20-MAY-2020) Department of Biology, University of Bari,
            Via Edoardo Orabona, 4, Bari, Bari 70126, Italy
COMMENT     ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 03/08/2024 02:11:26
            Annotation Pipeline :: NCBI Prokaryotic Genome Annotation Pipeline
            (PGAP)
            Annotation Method :: Best-placed reference protein set; GeneMarkS-2+
            Annotation Software revision      :: 6.6
            Features Annotated                :: Gene; CDS; rRNA; tRNA; ncRNA
            Genes (total)                     :: 9
            CDSs (total)                      :: 9
            Genes (coding)                    :: 8
            CDSs (with protein)               :: 8
            Genes (RNA)                       :: 0
            tRNAs                             :: 0
            ncRNAs                            :: 0
            Pseudo Genes (total)              :: 1
            CDSs (without protein)            :: 1
            Pseudo Genes (ambiguous residues) :: 0 of 1
            Pseudo Genes (frameshifted)       :: 0 of 1
            Pseudo Genes (incomplete)         :: 1 of 1
            Pseudo Genes (internal stop)      :: 0 of 1
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            MT507878.1.
            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..5055
                     /organism="Salmonella enterica subsp. enterica serovar
                     Typhimurium"
                     /mol_type="genomic DNA"
                     /serovar="Typhimurium"
                     /sub_species="enterica"
                     /db_xref="taxon:90371"
                     /plasmid="pST1030-2A"
     gene            join(5048..5055,1..178)
                     /locus_tag="JYH15_RS00005"
     CDS             join(5048..5055,1..178)
                     /locus_tag="JYH15_RS00005"
                     /inference="COORDINATES: ab initio prediction:GeneMarkS-2+"
                     /note="Derived by automated computational analysis using
                     gene prediction method: GeneMarkS-2+."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_074518866.1"
                     /translation="MTEDNVKNISDYRKNNDAVDANSSAISGKSAPAKLSEKLRNTVPS
                     GLRAQMRQQMRNKHGF"
                     /name="hypothetical protein"
     gene            168..422
                     /locus_tag="JYH15_RS00010"
                     /old_locus_tag="OPLBNGGE_00001"
     CDS             168..422
                     /locus_tag="JYH15_RS00010"
                     /old_locus_tag="OPLBNGGE_00001"
                     /inference="COORDINATES: ab initio prediction:GeneMarkS-2+"
                     /note="Derived by automated computational analysis using
                     gene prediction method: GeneMarkS-2+."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_023259653.1"
                     /translation="MDSNNSQKNLQDKHADLLDKTYTLGWLDGYSEGYDDAIEDCQNAL
                     NKLENENELLNEIIENKDNVISEMASSVGRALQTVKKNK"
                     /name="hypothetical protein"
     gene            complement(452..1510)
                     /locus_tag="JYH15_RS00015"
                     /old_locus_tag="OPLBNGGE_00002"
     CDS             complement(452..1510)
                     /locus_tag="JYH15_RS00015"
                     /old_locus_tag="OPLBNGGE_00002"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_012508929.1"
                     /GO_function="GO:0005524 - ATP binding [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="ParA family protein"
                     /protein_id="WP_023259654.1"
                     /translation="MAIYAVWNNKGGVGKSYLTFQLASEYARQNPTKKVLVIDLCPQAN
                     SSSMLLGGMVNGENTLNQIHSATQRKTISGYIEDRIRSPYIPTNTGSNYVINVSTYNSR
                     IPDNLYLVTGDEQLELQASRVVGASFPGPHDAWRTVHLWINDLISDICNSWDNGDSCVF
                     IDCNPSFSIYTELALTAAERLLIPFSADGSSKRAVKAVLSLVYGERRHLNEPQSDFYLN
                     SNRYSMSLPQIYMYIGNRLTQMNNSSASAFKTVVTEIGDEIWKVWQTKPSLFCIHPNGS
                     STPNNKKSFRNMFQYEVNDANTASVVSGALGIPIATLTAGNKNVAGRTIKVNQTQLDKQ
                     VPNIVALAGMIE"
                     /name="ParA family protein"
     gene            complement(1875..2006)
                     /locus_tag="JYH15_RS00050"
     CDS             complement(1875..2006)
                     /locus_tag="JYH15_RS00050"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001422066.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="replication initiation protein"
                     /protein_id="WP_071787289.1"
                     /translation="MHEPPVQPDRCALSGNYRLESNPVRHDLTPLSAATGKGCTRYY"
                     /name="replication initiation protein"
     gene            complement(2675..2866)
                     /locus_tag="JYH15_RS00020"
                     /old_locus_tag="OPLBNGGE_00003"
     CDS             complement(2675..2866)
                     /locus_tag="JYH15_RS00020"
                     /old_locus_tag="OPLBNGGE_00003"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000165985.1"
                     /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_000165985.1"
                     /translation="MTKQEKTALNMARFIRSQTLTLLEKLNELDADEQADICESLHDHA
                     DELYRSCLARFGDDGENL"
                     /name="Rop family plasmid primer RNA-binding protein"
     gene            2931..3254
                     /locus_tag="JYH15_RS00025"
                     /old_locus_tag="OPLBNGGE_00004"
     CDS             2931..3254
                     /locus_tag="JYH15_RS00025"
                     /old_locus_tag="OPLBNGGE_00004"
                     /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_000955999.1"
                     /translation="MLTIRVTDDEHARLLERCEGKQLAVWMRRVCLGEPVARSGKLPTL
                     APPLLRQLAAIGNNLNQTARKVNSGQWSSGDRVQVVAALMAIGDELRRLRLAVREQGAR
                     DDS"
                     /name="MobC family plasmid mobilization relaxosome protein"
     gene            3463..>3894
                     /locus_tag="JYH15_RS00045"
                     /pseudo=""
     CDS             3463..>3894
                     /locus_tag="JYH15_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            3932..4450
                     /locus_tag="JYH15_RS00035"
     CDS             3932..4450
                     /locus_tag="JYH15_RS00035"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001447511.1"
                     /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_061672795.1"
                     /translation="MSNLLQTGAEFEKKLKERAESTEKMLNNEFRKLGESVSEAVTSNE
                     TKIRDAIALFTASTEKSLEKHREGVKEAMMQHRKDVLKLAGNTGMMLLGIVFLLFTASG
                     GTLWYLGGRIQANLEEIRIQEETLQKLNAKTWGVEFVQDGRRKFLVLPYGKSATVIPYQ
                     GKDWVQLTE"
                     /name="MbeB family mobilization protein"
     gene            4457..4690
                     /locus_tag="JYH15_RS00040"
     CDS             4457..4690
                     /locus_tag="JYH15_RS00040"
                     /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_061672798.1"
                     /translation="MTELERHLLNALEQLQQDYMQRLSEWESAFVELQKMFSLTQRDNA
                     MLNERVMQLSQQVQHLSEQTERLSQLYSENWR"
                     /name="MbeD family mobilization/exclusion protein"
     Typing          2505..2590
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="8.58e-38"
     Typing          complement(1935..2483)
                     /name="rep_cluster_2350"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="94.595"
                     /coverage="100.0"
                     /evalue="0.0"
     Typing          3245..4794
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="93.511"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 agataacgtt aagaatatta gcgactacag aaagaataat gatgctgttg atgctaatag
       61 tagtgctatt tcaggtaaaa gcgctccagc taagctgagt gagaaactta gaaatacagt
      121 tccttctgga ctgagggccc aaatgcgcca acaaatgagg aataaacatg gattctaata
      181 acagtcagaa aaaccttcaa gataagcatg ctgatcttct ggataaaact tatactctcg
      241 gctggttgga tgggtattca gaagggtatg atgatgccat tgaagattgt caaaatgcct
      301 tgaataaact ggaaaatgaa aacgaattgc tcaatgaaat tattgaaaac aaagataatg
      361 taatcagtga aatggcatct agtgtgggca gggcgttgca aacggtaaag aaaaataaat
      421 aaaaacaggc ccttgaaaaa gggcctgttt tttactcaat cataccggca agagcgacaa
      481 tgttgggcac ttgcttatca agctgtgtct gatttacctt tattgttctt cccgcaacat
      541 tcttatttcc tgcggttagt gtggcaattg gaataccaag tgctcctgat acgacagatg
      601 ctgtattggc atcatttact tcatactgga acatgttcct aaaggatttt ttattattcg
      661 gcgttgagct tccatttgga tgaatgcaga ataaacttgg ttttgtttgc cacactttcc
      721 aaatctcatc gccgatctct gttaccacag ttttgaatgc gctagctgat gagttgttca
      781 tttgagttaa tctgtttcca atatacatgt atatttgtgg taatgacata gaataacgat
      841 tgctgtttaa atagaaatct gactgtggtt cgttcagatg acgtcgctcg ccataaacta
      901 aagaaagaac tgctttaaca gctctttttg atgaaccatc agcagagaat ggaattaata
      961 ggcgttcagc tgcggttaat gctaactcgg tataaataga gaagctggga ttgcagtcga
     1021 tgaaaacgca gctgtcgcca ttatcccatg agttacaaat gtcactaatt agatcgttaa
     1081 tccaaagatg aacagttctc catgcgtcat gaggtccagg gaatgatgct ccaacaactc
     1141 ttgatgcttg aagttctaat tgctcatcgc cagtaacaag atatagatta tctgggattc
     1201 tgctattgta tgtagatacg ttgattacgt agttagaacc tgtatttgtc ggaatatatg
     1261 gacttctaat cctatcctca atatatccag aaatagtctt tctttgtgtt gcagaatgaa
     1321 tctgatttag cgtattttcg ccattaacca tcccgccaag taacattgag gatgagttag
     1381 cttgtgggca tagatcaatc accagaacct tttttgtcgg gttctgtctg gcgtactcag
     1441 aggctagttg aaaggtaaga taacttttcc ccactccgcc tttgttattc catacggcat
     1501 agatcgccat ctatcactcc taatatagtt ttgttgttag ctttaagtca gagtactaga
     1561 gattattgtt ctactgttag tttctttcag ctaactgact gtgtttcgag cggtatggtt
     1621 agatgagggt gtccgtattg gcatgacctc ttcagcatag taggaacgtg attgaaagga
     1681 tttcttgaga tctttattcg tgggatgtaa tcttctgcac tgtaaacgaa aaaaccacct
     1741 ggggaggtgg tttttcgaag gatcagtaag ttggggaact tctgaaccgt ggtaacaggg
     1801 tgtacaagac cactgccacc aaatctgtcc tttcagttta gctgtagtta ggcttcaact
     1861 tcaagaactc tgcgttagta atatcttgta catcccttac cagtggctgc tgacagtggc
     1921 gttaagtcgt gtcttaccgg gttggactca agacgatagt taccggataa ggcgcagcgg
     1981 tcgggctgaa cggggggttc gtgcacacag cccagcttgg agcgaacgac ctacaccgaa
     2041 ctgagatacc aacagcgtga gctatgagaa agcgccacgc ttcccgaagg gagaaaggcg
     2101 gacaggtatc cggtaagcgg cagggtcgga acaggagagc gcacgaggga gcttccaggg
     2161 ggaaacgcct ggtatcttta tagtcctgtc gggtttcgcc acctctgact tgagcgtcga
     2221 tttttgtgat gctcgtcagg ggggcggagc ctatggaaaa acgccaacag cgcagccttt
     2281 tccgggttct cgttttttgc tcacatgttt cttttggcgt tatcccctga ttctgtggat
     2341 aaccgcatct ccgcttttga gtgagccgac accgctcgcc gcagccgaac gaccgagcgt
     2401 agcgagtcag tgagcgagga agcggaagag cgccggaacg tgcattttct ccttacgcat
     2461 ctgtgcggca tttcacaccg catatggcgc tcttttctta caatctgcac tgatgccgca
     2521 tggttaagcc agtatacact ccgctatcgc tacgtgactg ggtcatggct gcgccccgac
     2581 acccgctaaa acctgctgac gcgccctgac gggcttgtct gctcccggca tccgctcaca
     2641 gacaagctgt gaccgtctcc gggagctgca tgtgtcagag gttttcaccg tcatccccga
     2701 aacgtgcgag gcagctgcgg taaagctcat cggcgtggtc gtgaagcgat tcacagatgt
     2761 ctgcctgttc atctgcgtcc agttcgttga gcttctccag cagcgttaat gtctggcttc
     2821 tgataaagcg ggccatgtta agggcggttt tttcctgttt agtcactgat gcctccgtgt
     2881 aagggggtat ttctgttcat ggggtaatga taccgatgaa acgcgagagg atgctcacga
     2941 tacgggttac tgatgatgaa catgccaggt tacttgaacg ctgtgagggt aaacaactgg
     3001 cagtatggat gcggcgggtc tgcctgggtg agccggttgc ccgttccggg aagctgccga
     3061 cactggcacc gccgttactg cgtcagctgg ccgccatcgg gaataacctg aatcagacag
     3121 cgaggaaggt gaacagcggg cagtggtctt ccggtgaccg ggttcaggtg gtggccgcac
     3181 tgatggccat cggggatgag ctgcgccggc tgcgtctggc cgtcagggaa cagggggcgc
     3241 gggatgatag ttaaatttca tgccagggga aaaggtggtg gcagtggtcc ggttgattac
     3301 ctgctgggga gggagcgtaa ccgcgaaggc gcaacggtgc ttcagggtaa tccggaagaa
     3361 gtccgggaac tcatcgatgc cacgccattt gcgaagaaat acacgtccgg tgttctgtcg
     3421 ttcgcggaga aggagctgcc gccgggagga cgtgaaaaag tgatggcgag ctttgagcgt
     3481 gtactgatgc ccggtctcga aaaaaatcag tacagcatcc tgtgggtgga gcaccaggac
     3541 aagggacggc ttgagctgaa ttttgtcatt ccgaacatgg agctacagac cggaaaacgc
     3601 ctccagccgt actacgaccg cgcagacagg cctagaattg atgcctggca gacgctggtt
     3661 aatcaccatt acgggctgca tgacccgaac gccccggaga accgcaggac gctgacactc
     3721 tctgataatc tgccggaaac gaaacaggcg attgctgagg gcgttacacg cgggatagac
     3781 gcgctttacc atgccggaga gataaaaggc cgtcaggatg tgattcaggc gctcacagag
     3841 gcggggcttg aagtggtcag ggtgacgcga agcagtatca gcattgcaga cccgaacggc
     3901 gggaggaata tcagactgaa aggagcgttt tatgagcaat cttttacaga cgggcgcgga
     3961 gttcgagaaa aagctgaaag agagagccga atctacagag aaaatgctga acaacgagtt
     4021 caggaagctc ggcgagtctg tcagcgaggc tgtgacctca aacgagacga aaatcagaga
     4081 cgctatagcc ctgttcacag cctcgacaga gaaatcgctg gaaaaacacc gggaaggggt
     4141 gaaagaggcg atgatgcagc acaggaagga cgtgttaaag ctggcaggga atacgggcat
     4201 gatgttactg gggatagtct ttctcctgtt taccgcgagt ggcgggacgc tctggtatct
     4261 tggcgggcgg atacaggcga acctggaaga aatcaggata caggaagaaa cattgcagaa
     4321 actgaacgcg aagacatggg gcgtggagtt tgtgcaggac gggagaagga aatttctggt
     4381 ccttccgtac gggaaatcgg caacggtgat tccctatcag gggaaggact gggtacaact
     4441 gacggagtga cacagagtga cggagctgga aagacatttg ctgaacgcat tagagcaact
     4501 gcaacaggac tatatgcagc ggctgagcga atgggagagc gccttcgtgg aattgcagaa
     4561 gatgttttcg cttacgcaac gggacaacgc gatgctgaac gagcgggtca tgcagttgag
     4621 tcagcaggtg cagcacttga gcgagcagac agaacgcttg agccagttat acagcgagaa
     4681 ctggagataa gagaggaacg gctgatacag gagcgcgaac atgcgttatc cctggaacgg
     4741 gagcgtcagc cggaaataca ggaacgcacg ctggatggtc cttcgctggg atggtgaaac
     4801 catgaaaaat ggcagcttca gtggattaag aggggttaat gtggcctgta ccatctggtt
     4861 gcataggtat tcatgcggtt aaaatttatc aggcgcgatc gcggcagttt ttcgggtggt
     4921 ttgttgccat ttttacctgt ctgctgccgt gatcgcgctg aacgcgtttt agcggtgcgc
     4981 gtaaggggag ttatgttcaa ttctccagcg tatattgggc tgtttacagc aataggtgta
     5041 atgttctatg actga
//
