LOCUS       NZ_MT507881             6760 bp    DNA     circular CON 08-MAR-2024
DEFINITION  Salmonella enterica subsp. enterica serovar Typhimurium plasmid
            pST1030-3, complete sequence.
ACCESSION   NZ_MT507881
VERSION     NZ_MT507881.1
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 6760)
  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 6760)
  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 02:12:34
            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)                :: 4
            CDSs (total)                 :: 4
            Genes (coding)               :: 4
            CDSs (with protein)          :: 4
            Genes (RNA)                  :: 0
            tRNAs                        :: 0
            ncRNAs                       :: 0
            Pseudo Genes (total)         :: 0
            CDSs (without protein)       :: 0
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            MT507881.1.
            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..6760
                     /organism="Salmonella enterica subsp. enterica serovar
                     Typhimurium"
                     /mol_type="genomic DNA"
                     /serovar="Typhimurium"
                     /sub_species="enterica"
                     /db_xref="taxon:90371"
                     /plasmid="pST1030-3"
     gene            108..1973
                     /locus_tag="JYH14_RS00005"
                     /old_locus_tag="BEGLBODK_00001"
     CDS             108..1973
                     /locus_tag="JYH14_RS00005"
                     /old_locus_tag="BEGLBODK_00001"
                     /EC_number="2.1.1.-"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_006816428.1"
                     /GO_function="GO:0003677 - DNA binding [Evidence IEA];
                     GO:0008168 - methyltransferase activity [Evidence IEA];
                     GO:1904047 - S-adenosyl-L-methionine binding [Evidence
                     IEA]"
                     /GO_process="GO:0006306 - DNA methylation [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="site-specific DNA-methyltransferase"
                     /protein_id="WP_021558993.1"
                     /translation="MQTELIKELNKVLKAFPQFWNGEELQRSMVSDAISQKQPDLIKAL
                     VDNEKVRSVYGVDIDGIFIFDFDKLCGLLKYKEYWANSFTKYRNKVGLTSEGKYLDYSS
                     DVVLDFPFKDCILEGGMTKENQGKDEIYYNEIIAMDEVDSLLSPKAFTNAKRYTKEGVK
                     ENITKFNDDENLIIKGNNLIALHSIKKLYAGKVKLIYIDPPYNTGSDSFKYNDRFNRST
                     WLTFMKNRLEVAKEMLSDDGFIFIQCDDNESAYLKVLCDSIFGEENYRNSIYWHRTYAG
                     KTVKSKLPWNTDTILFYSKKESSLLEPYTAELSAADIKSYNKDDFDGRGKYNTVSLQKT
                     SSPGPQTTYDYIDNTGKKWSCPEKGWRMTKEKLKALENDNRLYITDKTIREKYYLKERK
                     EIGKQIDNFWHDIGNLNRVSDVAFIDGQKTEKLMQRIISLASKENDIVLDFHLGSGTSA
                     AAAHKMGRRYIGIEQMDYINEITVPRLQKVIEGEQGGISKDVNWQGSGSFVYVELVELN
                     AYFIHEIQKAQSTEELEKLFAVMKTEAYLNYQVALENVLSAEYEVDGILHKVAFSELEL
                     HEQKQLLIEILDKNQLYVNVSDMEDSDLNISESDKAFTRSFYGME"
                     /name="site-specific DNA-methyltransferase"
     gene            1978..4614
                     /locus_tag="JYH14_RS00010"
                     /old_locus_tag="BEGLBODK_00002"
     CDS             1978..4614
                     /locus_tag="JYH14_RS00010"
                     /old_locus_tag="BEGLBODK_00002"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_012443154.1"
                     /GO_function="GO:0005524 - ATP binding [Evidence IEA];
                     GO:0003677 - DNA binding [Evidence IEA]; GO:0016787 -
                     hydrolase activity [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="DEAD/DEAH box helicase family protein"
                     /protein_id="WP_052512605.1"
                     /translation="MAKKPKSAGREKLLFNKLKQFDEPGLFHDNYQTPDYIQANLKDIL
                     RPYQHSALRYLHYTQRKRDDALLHYRHLLFHMATGAGKTMVMAGTILYLFKEFGYQNFI
                     FFVHTDAIIQKTRENLLNPQSPKYLFSHELEIDGEKITIAPVDIFPSVPERNTIYLKLS
                     TIHKMHDELNSYRENSITYEDLKEIPLVLLGDEAHHFNAGTKARGKSKTSPENEEQTWE
                     RTIENILDLRPDNRLFEFTATIDLANKDIGQKYRDKVVYQYDLKQFMSDGYSKKVMLLE
                     ANQNDSDKMLDAVLLSQYRKLTAADHGITGFKPVILFKSNKIAISKAKQEEFSQLIAAM
                     TPESIRRHLANKKLQLSSDTSIWHKVIQRYADSDLVTVTGQIQEDFNDFNLLNVNKSDL
                     LEENPVLLNTLEEVDNPVRAVFAVAKVNEGWDVLNLYDIVRISEQASSSKTSTDSEAQL
                     IGRGARYYPFIYDGQRSFTRRFDNSTKDLSVLEQLHYHTINEPAYIKTLHASLEQADID
                     VHQDGGGTVEHARLKEDFKKSAVYQAGKLYFNEVEEIERSSRNWETYSLETRFEIQYQI
                     ACEESLDNLTGTKGGIIKPEPLVLDERFYRKAMQRISFYALDNLKRFFPKLTGIREFIR
                     SDAYLGKLKITVSVPQSLDFTTVPAKDKLHLLENVLLRISENVRRNDQKVKGTYRFISQ
                     PVKEVIKDYSLHIDPSVAINQKITAAPTIGKKWYVYDNAILNQLEHRLIKMLEAFMPKL
                     KARYDDIYVLRNDEQSTRFKLTEFGGVRGFMPDFIMILTRHSDNTYWQVFLEPKGDDRL
                     LDDAWKERMLETLNDRERIVIDENEHVRLVGIKFFANSQMDVFVSDMQNKLNDGESLET
                     SSLSLPL"
                     /name="DEAD/DEAH box helicase family protein"
     gene            complement(5015..5128)
                     /locus_tag="JYH14_RS00020"
     CDS             complement(5015..5128)
                     /locus_tag="JYH14_RS00020"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_005761324.1"
                     /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_071588254.1"
                     /translation="MHEPPVQPDRCALSGNYRLESNPVRHDLSPLAAATGN"
                     /name="replication initiation protein"
     gene            complement(5794..5988)
                     /locus_tag="JYH14_RS00015"
                     /old_locus_tag="BEGLBODK_00003"
     CDS             complement(5794..5988)
                     /locus_tag="JYH14_RS00015"
                     /old_locus_tag="BEGLBODK_00003"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001041627.1"
                     /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_001041631.1"
                     /translation="MNKQQQTALNMARFIKSQSLTLLEKLDALDADEQAAMCERLHELA
                     EELQNSIQIRFEAESETGT"
                     /name="Rop family plasmid primer RNA-binding protein"
     Typing          5534..5707
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="96.571"
                     /coverage="100.0"
                     /evalue="2.6e-76"
     Typing          6025..6123
                     /name="MOB_unknown"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="98.0"
                     /coverage="100.0"
                     /evalue="1.35e-41"
     Typing          6248..6503
                     /name="MOBF"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="92.248"
                     /coverage="89.0"
                     /evalue="2.69e-98"
     Typing          complement(5057..5580)
                     /name="rep_cluster_2350"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="93.548"
                     /coverage="94.0"
                     /evalue="0.0"
ORIGIN
        1 tctggtgcat tttcccgcaa ctgaatccaa ctcatcgctg ttgggttcca gcgccgaacg
       61 ctatacctta caatcattcc aatatttaac agtcataagg ccatgacatg cagaccgaat
      121 taataaaaga acttaacaag gttttaaaag cgttcccgca attctggaat ggagaggaat
      181 tacaacgttc aatggtgagt gacgctatca gtcaaaagca gccagatctt atcaaggcat
      241 tagtcgataa tgaaaaagtc cgctctgttt atggtgtgga tattgatggc atttttatct
      301 ttgattttga caaattatgt ggtcttctaa aatacaaaga atattgggct aatagcttta
      361 ctaaataccg gaacaaagtg ggattaacta gcgaaggtaa ataccttgat tacagttctg
      421 atgtggtgct ggattttcct ttcaaggatt gtattcttga aggtggaatg accaaagaaa
      481 atcagggaaa agatgagatt tattataatg aaatcatagc aatggatgaa gttgactctt
      541 tgctttctcc caaggcgttc actaatgcta agcgatatac caaagagggg gtaaaagaaa
      601 atatcactaa atttaacgat gatgaaaatt taataattaa gggaaacaat ctcattgcac
      661 tacattcaat aaaaaaactt tacgcaggaa aagtaaagtt aatttatata gacccgcctt
      721 acaatacagg gagtgatagc tttaagtata atgatcgatt caatcgctca acatggttga
      781 cattcatgaa aaataggctt gaggtggcta aagaaatgct ttccgatgat ggctttattt
      841 ttattcaatg cgatgataat gaatcagcat atcttaaagt tttatgtgat tcaatttttg
      901 gagaagagaa ttatagaaac tcaatctatt ggcatagaac ctacgcaggg aaaactgtaa
      961 aaagtaagtt gccatggaat acagatacaa tattgtttta ttctaaaaaa gaaagttcat
     1021 tattagagcc atatacagca gaacttagtg ctgctgacat taaatcctat aacaaggatg
     1081 attttgatgg aaggggtaaa tacaacactg ttagcttgca aaaaacaagc tctccagggc
     1141 cgcaaacaac ttatgattat atagataata caggtaagaa atggagttgc cctgaaaaag
     1201 ggtggagaat gacaaaggaa aagttaaagg ctttggaaaa cgacaatagg ctatatatca
     1261 ctgacaaaac aatacgagaa aaatattatc ttaaagaaag aaaagagatc gggaaacaaa
     1321 tagataattt ttggcatgac attgggaatt taaatagggt ttccgatgtt gcttttattg
     1381 atggacaaaa aactgaaaaa ttaatgcaac ggataattag ccttgcttcc aaagaaaatg
     1441 atatcgtctt ggactttcat ctcggcagcg gaactagcgc agcagcagcc cataaaatgg
     1501 gacgtcgcta tatcggtatt gagcagatgg attacatcaa tgagatcacc gtgccacgtt
     1561 tgcaaaaagt cattgagggt gagcagggag gtatctcaaa agacgtcaac tggcagggga
     1621 gcggcagctt tgtctacgtt gaactagtgg aactgaacgc ttacttcata catgaaatcc
     1681 agaaagcgca gtccacggaa gaactcgaaa aactctttgc cgtgatgaag acagaggcat
     1741 atctcaacta tcaggtggct ctggaaaatg tgctgtccgc tgagtacgaa gtggatggga
     1801 tcctccataa ggtagcattc agtgaactgg aactgcatga gcagaagcag cttttgattg
     1861 aaatcctaga taagaaccag ctctacgtga atgtctctga tatggaggac agcgacctga
     1921 acatttcaga gagtgataaa gcctttaccc gcagcttcta cggaatggag tgacggcatg
     1981 gcgaagaaac cgaagtcagc aggtagagag aagctgctgt ttaacaagct gaagcagttc
     2041 gatgaaccag gactgttcca cgataactat cagacgccgg actatattca ggcaaacctg
     2101 aaagatatcc tgcgtcccta tcagcacagc gcactgcgtt acctgcatta cacgcaacgt
     2161 aaacgtgatg acgcgcttct gcattaccgt cacctgctgt ttcacatggc aaccggtgca
     2221 gggaaaacga tggttatggc aggaacgata ctctatctat ttaaagagtt cgggtatcag
     2281 aacttcatct ttttcgtaca taccgacgcg attatccaga aaacgcgaga gaacctactt
     2341 aacccgcaat cgccgaagta cctgttcagt catgagctgg aaatcgacgg ggaaaaaatc
     2401 accatcgcac cggtagatat attcccgtcc gtaccggaac gcaacacgat ttacctcaag
     2461 ctctcgacta tccataagat gcacgatgag ctgaacagct atcgagagaa cagcattacc
     2521 tacgaggatt taaaagaaat cccgcttgtg ctactcggtg acgaggcgca tcacttcaac
     2581 gccggcacca aagctagagg caagtcgaaa acctcaccgg agaacgagga gcagacttgg
     2641 gagcgtacga ttgagaacat cctcgacctg cgaccggata accgcctgtt cgagttcacc
     2701 gctaccattg accttgcaaa caaagatatc ggacagaaat accgtgacaa ggtggtatat
     2761 cagtatgatc tgaagcagtt catgtcagac ggttactcga aaaaggtcat gctgttggaa
     2821 gcaaaccaga acgacagcga caagatgctc gatgcggtac tgttaagcca gtaccgtaaa
     2881 ctgacggcag cagatcacgg catcaccggc tttaaaccgg tcattctgtt caagtcgaat
     2941 aagattgcga tatcaaaggc gaagcaggag gagttttcgc aactgattgc cgccatgaca
     3001 cctgagagca tcagacgtca tctggctaac aaaaaactcc agctcagctc tgacaccagt
     3061 atctggcata aagtgattca gcgttacgct gacagtgatt tagtgacggt gactggacaa
     3121 attcaggagg actttaacga ctttaacctg ctgaacgtca acaagtcaga cctgctggag
     3181 gaaaaccccg tcctgctgaa tacactggaa gaagtcgata atccagtgag agccgtcttt
     3241 gctgtcgcga aggtgaatga aggctgggac gtacttaacc tctacgatat tgttcgcata
     3301 agcgagcagg cgagcagcag caaaaccagc acggacagcg aagcgcagct tattgggcga
     3361 ggtgcgcgtt actacccgtt catttatgac ggtcaacgta gcttcacccg ccgttttgat
     3421 aacagtacga aggatttgag cgtactggag caactgcact atcacaccat caatgaaccg
     3481 gcgtacatca aaacactgca cgcctctctg gagcaggcgg acattgacgt gcatcaggat
     3541 ggcggaggta cggttgaaca cgccagattg aaagaagact ttaaaaagtc cgccgtgtat
     3601 caggcgggta agctgtactt taacgaagtg gaagagattg agagaagcag ccgaaactgg
     3661 gaaacctact cgctggaaac acgctttgaa atacagtatc agatcgcttg cgaggagtcg
     3721 ctggacaacc tgacaggcac aaaggggggg atcataaaac cggaaccact ggtactggac
     3781 gagcgttttt accgcaaggc gatgcaaaga atcagctttt acgcgctaga taacctgaaa
     3841 cgcttcttcc cgaaactgac aggtattcgg gagttcatac gcagtgacgc ctatcttggt
     3901 aagctgaaaa tcaccgtcag cgtaccgcag tcactggatt tcaccaccgt accggcaaaa
     3961 gataagctgc acctactgga aaacgttttg ctgcgtatct cagagaatgt gcgtcgcaat
     4021 gaccagaagg taaaaggcac gtaccgattt atcagccagc cggtgaaaga ggtgattaaa
     4081 gattacagtt tgcatattga cccgtcggta gccattaacc agaaaatcac cgccgctccc
     4141 accattggta aaaaatggta cgtgtacgat aatgcgatac taaatcagct tgagcatcgt
     4201 ctgataaaaa tgctggaagc attcatgccg aagctaaaag cgcgttatga cgatatttac
     4261 gtactgcgta acgacgagca gtcaacgcgc tttaagctca cggagttcgg cggcgtgcgt
     4321 gggtttatgc cagatttcat catgatactg acgcgccatt cagacaacac ttactggcag
     4381 gtgttccttg aaccgaaggg ggatgaccgt ctgctggatg acgcatggaa agaacggatg
     4441 ctcgaaacac tgaatgacag ggagcgcatt gtaattgatg aaaatgagca cgtcagactg
     4501 gttgggatta aattctttgc caatagccag atggacgttt ttgtcagcga catgcagaac
     4561 aagctgaatg atggagaatc gctcgaaacc tcctcgctct ccctaccact gtaagtcacg
     4621 acaataaaat aacggagcat tacgctccgt tattttattg ttatctcgaa ctacctccca
     4681 gggaggtgat gattgctcct gtaatggttg cattgtttgt tcttgctgtt gcgaatcatt
     4741 agttttgaat ggtggttaaa aaccgttcgc tatgtttatg cctggggggg gatgaggggg
     4801 aaaagattca aggatcctct tgtgatcctt tttttctgcg cgtaatctgc agcctgtaaa
     4861 cgaaaaaacc accctggcag gtggtttttc gaaggttagc taatcctggc agattatcta
     4921 accgggtaac tggcttggag gagcgcagtc accaaaatct gttctttcag tttagcctta
     4981 acaggtgcat aacttcaaga caaactcctc taaatcagtt accagtggct gctgccagtg
     5041 gcgataagtc gtgtcttacc gggttggact caagacgata gttaccggat aaggcgcagc
     5101 ggtcgggctg aacggggggt tcgtgcacac agcccagctt ggagcgaacg acctacaccg
     5161 aactgagata ccaacagcgt gagctatgag aaagcgccac gcttcccgaa gggagaaagg
     5221 cggacaggta tccggtaagc ggcagggtcg gaacaggaga gcgcacgagg gagcttccag
     5281 ggggaaacgc ctggtatctt tatagtcctg tcgggtttcg ccgactctga cttgagcgtc
     5341 gatttttgtg atgctcgtca ggggggcgga gcctatggaa aaacgccagc ggcgcggcct
     5401 ttttccggtt cctgctcttt tgctcacatg ttctttccgg ccttatcccc tgattcggtg
     5461 gataatctaa ttactgtctt tgcgtgagtt gataccgctc gccgcagccg aacgaccgag
     5521 cgtagcgagt cagtgagcga ggaagcggaa tatctcctgt atcgcatatt ctgctgacgc
     5581 gccggtgctg ccttttttct cctgccacat gaagcacttc actgattttc gcaatcgtgg
     5641 caacatagta agccagtata cactccgcta tcgctacgtg actgggtcat ggctgcgccc
     5701 cgacacccgc taaaaccccc tgacgcgccc tgacgggctt gtctgctgac gaaaacgccc
     5761 acgggaaagc cgtgaccgcc tccgtcagct tcgttatgtt cctgtttcac tttcggcctc
     5821 aaagcgaatc tggatgctgt tctggagttc ttctgcgagt tcgtgcagtc gttcgcacat
     5881 ggccgcctgt tcgtcggcat ccagagcatc cagtttttca agcagtgtca ggctctggct
     5941 tttgataaat cgcgccatat tcagcgcagt ttgttgttgt ttgttcacct tccgttgttc
     6001 tccgtcagtt ccgggtgtcg gggggaccct gagcaggtgg taattgtaag acgttgcggg
     6061 cgacggtatt acaattgcac atcctgtcct gtttctttag gacgtatcat ggcacagcat
     6121 atcaactgat aaataatccc tgtgcagtgc agccgctgtt gcataaaatt tcgctctgcg
     6181 tcgagtgttt cttaatcaat aattccgctg atactccgga aaaacgcgag tctgttctca
     6241 tgcctgaaat gcccacaccc cacgcaaaaa caattttttg ctgatttttc tttataaata
     6301 gagagttatg acaaattagt tcttcttgct ctctttgtga tatttaaaaa agcggtgtcg
     6361 gcgcagctac aacaccgcgc cgacaccgct ttttaggggt ggtactgact attttcataa
     6421 aaaacatcat cttatattag gggtgctgct agcggcgcgg tgtgtttttt tacaggacgc
     6481 ccctgggggc gctgctaggg gtgtctgttc agatatgtag caatgagtca gggattcacg
     6541 aactgaaaat gtccgaaaat gtgtctcatg ggtactgtat gcgcccaaac cgatcgtcat
     6601 tcactttcat gcatagctat gcagtgagct gaaagtgatc ctgacgcatt tttccggttt
     6661 accccgggga aaacatctct ttttgcggtg tttgcggcag aatcgcgttc agcgcgtttt
     6721 agcggtgcgc gcaagagcgt ttatgttaaa tactactcgt
//
