LOCUS       NZ_CP091632             6432 bp    DNA     circular CON 28-JAN-2024
DEFINITION  Salmonella enterica strain 1147 plasmid p1147-3, complete sequence.
ACCESSION   NZ_CP091632
VERSION     NZ_CP091632.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN25270673
            Assembly: GCF_026873465.1
KEYWORDS    RefSeq.
SOURCE      Salmonella enterica
  ORGANISM  Salmonella enterica
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Salmonella.
REFERENCE   1  (bases 1 to 6432)
  AUTHORS   Ruan,Z.
  TITLE     Genome sequence of Salmonella Goldcoast recovered from children
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 6432)
  AUTHORS   Ruan,Z.
  TITLE     Direct Submission
  JOURNAL   Submitted (26-JAN-2022) Department of Clinical laboratory, Sir Run
            Run Shaw Hospital, School of Medicine, Zhejiang University, 3
            Qingchun East Road, Hangzhou, Zhejiang 310016, China
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: Unicycler v. 0.4.8
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 100x
            Sequencing Technology :: Oxford Nanopore; Illumina NovaSeq
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 01/28/2024 13:47:51
            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)                     :: 4,770
            CDSs (total)                      :: 4,655
            Genes (coding)                    :: 4,528
            CDSs (with protein)               :: 4,528
            Genes (RNA)                       :: 115
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 84
            ncRNAs                            :: 9
            Pseudo Genes (total)              :: 127
            CDSs (without protein)            :: 127
            Pseudo Genes (ambiguous residues) :: 0 of 127
            Pseudo Genes (frameshifted)       :: 47 of 127
            Pseudo Genes (incomplete)         :: 90 of 127
            Pseudo Genes (internal stop)      :: 31 of 127
            Pseudo Genes (multiple problems)  :: 38 of 127
            Pseudo Genes (short protein)      :: 1 of 127
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP091632.1.
            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..6432
                     /organism="Salmonella enterica"
                     /mol_type="genomic DNA"
                     /strain="1147"
                     /isolation_source="feces"
                     /host="Homo sapiens"
                     /db_xref="taxon:28901"
                     /plasmid="p1147-3"
                     /geo_loc_name="China: Hangzhou"
                     /collection_date="2020-08"
                     /collected_by="Meina Yue"
     gene            join(6328..6432,1..606)
                     /locus_tag="L5506_RS23795"
                     /old_locus_tag="L5506_23805"
     CDS             join(6328..6432,1..606)
                     /locus_tag="L5506_RS23795"
                     /old_locus_tag="L5506_23805"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000967646.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_000967645.1"
                     /translation="MLYWKKMPSLWIGNRIAEFSDLDTAKAIAALKIYLTFCLFCKESD
                     SGHRTVELTFSNLCEIASLSRSLVNEGLKILYAKELIKNISPTARKKIYTVDVLENHND
                     GWCKLPFKGVVDEDKKISAFQSMHNRYPFELLALQTYMYLLYARDNNSDYTLARKKTIC
                     KKLKCKLPELNKAITYLIHIGLLDRVVKKSIENIPLEMFHDSYYFYIKTGSKSALTYRR
                     KSEPPVIPEADLPF"
                     /name="hypothetical protein"
     gene            1400..1594
                     /locus_tag="L5506_RS23800"
                     /old_locus_tag="L5506_23810"
     CDS             1400..1594
                     /locus_tag="L5506_RS23800"
                     /old_locus_tag="L5506_23810"
                     /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_001041636.1"
                     /translation="MNKQQQTALNMARFIKSQSLTLLEKLDALDADVQAAMCERLHELA
                     EELQNSIQVHFEAENETGT"
                     /name="Rop family plasmid primer RNA-binding protein"
     gene            complement(1831..3510)
                     /locus_tag="L5506_RS23805"
                     /old_locus_tag="L5506_23815"
     CDS             complement(1831..3510)
                     /locus_tag="L5506_RS23805"
                     /old_locus_tag="L5506_23815"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000598747.1"
                     /GO_function="GO:0005524 - ATP binding [Evidence IEA];
                     GO:0016887 - ATP hydrolysis activity [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="AAA family ATPase"
                     /protein_id="WP_241467032.1"
                     /translation="MIKVQLPTREHRLHELNLNYGDVVFFIGQNGSGKSSLLNNLFQKI
                     GSQSSVYVLAHRKNTFSSDIIDFSNSEYKNAQGWIFNEIKGSQCRYRVNYDSQMVAIPI
                     VKLKNKVIARALSFVDSFKSNNNQPAGLIKSEVDVLNMVFADAKLSIEFFLDDEANVMA
                     RNIKGENPDIYPISMLSDGEKSALIIASEIICADENTTIFLDEPERHMHRSIVSPLLSS
                     LMKYRRDCVFFVATHELSLPAFFDNVKVVNVKNCYFSEQREPIYWDFNVVEDYDELFNG
                     VDEQTKIDILGARDKVLFVEGVTSSLDRDLYSAIFPMVSVVSKQKCDLVELAVKGLRLN
                     DEIHRVSAFGIIDNDNKVQAKVDNLKKDFIFSLDVHSIESIYYHPRMIKFVIDFVKEAN
                     GIDNVDALFMEIHDFAIDAINEKRDHLCCRAVEKTIRADLMSAIPKQQDIKNRIKFNKE
                     IDIECYVNKEIAAFDAMIAERNLDALVSRYPIRETNLLAHVAKKCGFADRSRYELNVIR
                     TIKSNADARAFVLSLLGGLDEAILGCSDTENSPADTHTVFAM"
                     /name="AAA family ATPase"
     gene            complement(3507..>4091)
                     /locus_tag="L5506_RS23810"
                     /old_locus_tag="L5506_23820"
                     /pseudo=""
     CDS             complement(3507..>4091)
                     /locus_tag="L5506_RS23810"
                     /old_locus_tag="L5506_23820"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001697689.1"
                     /note="internal stop; incomplete; partial in the middle of
                     a contig; missing N-terminus; Derived by automated
                     computational analysis using gene prediction method:
                     Protein Homology."
                     /pseudo=""
                     /codon_start=1
                     /transl_table=11
                     /product="replication initiation protein"
                     /name="replication initiation protein"
     gene            4661..4792
                     /locus_tag="L5506_RS23880"
     CDS             4661..4792
                     /locus_tag="L5506_RS23880"
                     /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_071525238.1"
                     /translation="MHDPPVQSDRCALSGNYHLESNPERHDLSPLAAAIGKGCTRDY"
                     /name="replication initiation protein"
     gene            5399..5914
                     /locus_tag="L5506_RS23815"
                     /old_locus_tag="L5506_23825"
     CDS             5399..5914
                     /locus_tag="L5506_RS23815"
                     /old_locus_tag="L5506_23825"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000675351.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="type III toxin-antitoxin system ToxN/AbiQ family
                     toxin"
                     /protein_id="WP_000675351.1"
                     /translation="MKFYTISSRYIEYLKGFEDKVPNSEDPNYQNPKAFIGIVLEIQGH
                     KYLAPLTSPKPWHSTIKESSPSFFKLHENGVPENQLGLINLKFMIPIIEAEVSLLDLNG
                     MPNTAYKRMLYKQLQFIRVNSDKIAEKSELLRKLVLQGKMQGTCNFSLLEEKYRDFGKE
                     ANDTEEGE"
                     /name="type III toxin-antitoxin system ToxN/AbiQ family
                     toxin"
     Typing          complement(885..1140)
                     /name="MOBF"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="94.574"
                     /coverage="89.0"
                     /evalue="2.65e-108"
     Typing          complement(1265..1364)
                     /name="MOB_unknown"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="98.02"
                     /coverage="100.0"
                     /evalue="1.35e-41"
     Typing          4481..4989
                     /name="rep_cluster_2358"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="86.553"
                     /coverage="99.0"
                     /evalue="1.7000000000000002e-157"
ORIGIN
        1 acattctgcc tgttttgcaa agagtcagac tctggccaca gaacggttga gttaaccttt
       61 agcaaccttt gcgagatagc gtcattaagc cgttccttgg tgaacgaagg ccttaaaatt
      121 ctttatgcaa aagagctgat aaaaaacata tcgccgactg cacgaaaaaa gatttatacc
      181 gtggatgtgc tagaaaatca taatgatgga tggtgcaagc ttccatttaa aggagttgtc
      241 gacgaggaca aaaaaataag tgcatttcaa tccatgcaca acagatatcc ctttgagtta
      301 ctagccttac aaacttacat gtatcttctt tacgctcgtg ataataacag cgactacaca
      361 ctggctagga aaaagaccat atgcaaaaaa ttgaaatgca aattacctga actaaacaaa
      421 gcaatcacct accttatcca tataggtttg cttgatagag ttgtgaaaaa atccatagaa
      481 aacatacctc tagagatgtt tcatgactcg tactatttct atataaaaac aggcagtaag
      541 agcgctctaa cctacagaag gaaatcagaa ccgccagtta ttccagaagc cgacttacca
      601 ttttgattgt ttattccaca ccaattatca cacggattga acataacatc cgttgcccgc
      661 acctcagaaa cgcgctgaac gcgattctga cgcaaatacc gcaaaaagag atgttttccc
      721 caaggtaaac cgaaaaaatg cgtcaggatc gttttcagct cgctgcatag ctatgcatga
      781 aagtgaatgg cgaacggttt gggcgcatac ggtgcccatg agacacattt tcggacattt
      841 tcagttcgtg aatccctgac tcattgctac atatctgaac agacacccct agcagcgccc
      901 ccaggggcat cctgtaaaaa aacacaccgc gccgctagca gcacccctaa tataaaatga
      961 tgttttttat gaaaatagtc agtaccaccc ctacaaagcg gtgtcggcgc ggtgttgtag
     1021 ccgcgccgac accgcttttt taaatatcac aaagagagca agagaaacta atttgtcata
     1081 actctctatt tataaagaaa aatcagcaaa aaattgtttt tgcgtggggt gtgggcattt
     1141 caggcatgag aacagactcg cgtttttccg gagtatcagc ggaattattg attaagaaac
     1201 actcgacgca gagcgaaatt ttatgcaaca gcggctgcac tgcacaggga ttatttatca
     1261 gttgatatgc tgtgccatga tacgtcctaa aaaaaacagg acaggatgtg caattgtaat
     1321 accgtcgccc gcaacgtctt acaattacca cctagtcagg gtccacccga cacccggtac
     1381 tgacggagaa caacggaagg tgaacaaaca gcaacaaact gcgctgaata tggcgcgatt
     1441 tatcaaaagc cagagcctga cactgcttga aaaactggat gctctggatg ccgacgtaca
     1501 ggcggccatg tgtgaacgac tgcacgaact cgcagaagaa ctccagaaca gcatccaggt
     1561 tcactttgag gccgaaaatg aaacaggaac ataacgaagc tgacgaaggc ggtcacggct
     1621 tgcccgtgag cattttcgtc agcagacaag cccgtcaggg cgcgtcagcg ggttttaacg
     1681 ggtgtcgggg cgcagccctg acccagtcac gtagcgatag cggagtgtat actgacttaa
     1741 tacagcaact atcgtacatc gcggtcaagt cacgcacaaa caaaaagccc cgcaaaagca
     1801 gggctgttat ctgatatagg ttgtttagtc tcacatagca aaaactgtat gggtatcagc
     1861 tgggctattt tccgtatctg aacatcccaa aatagcttca tctaaccctc cgaggaggga
     1921 taaaacaaat gctctagcgt cagcattact cttgatcgta cgaatcacgt ttaactcata
     1981 tctagagcga tcggcaaaac cacatttttt agctacatgt gccaacaaat ttgtttctcg
     2041 gatagggtag cgtgagacta acgcatccaa atttcgttcc gcgatcattg catcaaatgc
     2101 agcaatttct ttattaacat aacattcaat atcaatttct ttattaaact taatgcggtt
     2161 cttaatatct tgctgttttg gtatggccga cattaagtcg gcccttattg ttttttcaac
     2221 tgcacggcag cataagtgat cgcgcttttc atttatggca tcaatagcga agtcatgaat
     2281 ttccataaat aaggcatcaa cattatctat cccattagcc tcttttacaa agtcaatgac
     2341 aaacttaatc attctaggat gataataaat cgactcaata gaatgaacgt cgagactaaa
     2401 aatgaagtct ttctttaagt tatcgacctt cgcctgcacc ttgttatcat tatcaatgat
     2461 accaaacgcc gatactcgat gaatttcgtc atttagtctc aagcctttta ccgccaattc
     2521 aaccaaatca catttttgtt tagatacaac tgaaaccata ggaaatatgg ccgaatataa
     2581 atcacggtca aggctagacg taacaccttc aacaaataga accttatccc tagcgccaag
     2641 tatatctatt ttagtttgct catcaacacc attgaataat tcgtcataat cctcaacaac
     2701 attgaaatcc cagtatatcg gttctctttg ttcggaaaaa tagcagtttt taacgttaac
     2761 cactttcacg ttatcaaaaa acgcaggcaa gcttaactcg tgggtggcaa caaaaaaaac
     2821 acaatctcta cgatatttca ttaaagatga aagcagcgga gacacaatgc ttctgtgcat
     2881 atgtcgctca ggctcatcta agaaaatagt tgtgttttca tcagcgcaaa taatctcact
     2941 ggcaataatt agtgcacttt tttcaccgtc agaaagcatt gatataggat aaatatcagg
     3001 attttcacct ttaatattcc ttgccataac gttggcttca tcatctagaa agaactcaat
     3061 agataatttg gcatcagcaa aaaccatgtt tagaacatca acctctgact ttattaaccc
     3121 tgccggctga ttgttatttg atttaaatga atctacgaaa cttaaagccc tggctatcac
     3181 tttgtttttt aattttacta taggtatggc aaccatctgt gagtcataat taactctgta
     3241 tctacattga ctgcctttaa tttcattaaa aatccatccc tgcgcatttt tatactcact
     3301 attactgaaa tcaataatgt cgctgctgaa tgtatttttt ctatgcgcta aaacatatac
     3361 tgatgattga gatcctattt tttgaaaaag attatttaat aggctggatt taccactacc
     3421 attctgacca ataaaaaaaa cgacatcgcc ataattaaga ttaagctcat gaagacgatg
     3481 ttctctagta ggtaactgaa cttttatcat tttcctttct ctttagcttt taatctaaaa
     3541 tacgttgaac gactaattcc taaattaatc catggagagt ttaatgaagg cctacctcct
     3601 cctttacttt ttttcccaca tagagattgg atgtctgccg aatgggtctt ttttataaaa
     3661 tcatcaaatg atgactctgt aaaattttta ttagtccact tagctacact tttggcaata
     3721 cccatgactt cgttctcgtc taaaggtgcg gagaactgca ggttgtaggc tttagcgcgt
     3781 tcaaagcaag cttgtagcca ttggtcatac tgcggccagc cttggtggat agcgcggtaa
     3841 gcccacttgc gggttttatc gaagagggtg cagttacggc ctaaaccgta gtccggtagg
     3901 atttcgcggt cattagctgc gccaaggtcg aggtagtcgg ctaatcagtc gagggtgtag
     3961 agctcaggct gccaaacggt gatctgccag tgcaggtggt tcggattctc gcaaattagc
     4021 cctgaatacc ccgcatcggc gcccaatttt ttacgcagcg cattctcaat gacggctgca
     4081 tatttgaggg gggcggcgag ccccctgaac cagtcacaga aggcacctcg cagaggggac
     4141 gctgtgagta ctgacttaac tatgcggtat cagtgcggat tgtatgaaaa gtgcgctatt
     4201 gacggtgtga aatgccgcac agatgcgtaa ggagaaaatg caaatgccta cgctcttccg
     4261 cttcctcgct cactaactcg ctgcgctcgg tcgttcggct gtggcgagcg gtatcagctc
     4321 actcagagac ggtaatacgg ttatccacag aatcagggga taaggccgga aagaacatgt
     4381 gagcaaaaag gcaaagccag ggcaaaaggc cgcgccgctg gcgtttttcc ataggctccg
     4441 cccccctgac aagcatcaca gaatctgacg ctcaaatcag tggtggcgaa acccgacagg
     4501 acttaaagat accaggcgtt tccccctggt ggctccctcg tgcgctctcc tgttcctgcc
     4561 tttcggttta ccggtgtcat tccgctgtta tggccgcgtt tatctcattc cacgcctgac
     4621 actcggttcc gggtaggcag ttcgctccaa gctggactgt atgcacgacc cccccgttca
     4681 gtccgaccgc tgcgccttgt ccggtaacta tcatcttgag tccaacccgg aaagacacga
     4741 cttatcgcca ctggctgcgg ccattggtaa ggggtgtaca agagattact gatgcagagt
     4801 tcttgaagtt agaaccaaac tacggctaaa ctggaaggac gaatttggtg gcagcggtct
     4861 tgtacaccct gttaccacgg ttcagaagtt ccccaactta ctgaaccatc gaaaaaccac
     4921 ctccccaggt ggttttttcg ttttcagagc aagagattac gcgtagaaaa aaaggatctc
     4981 aagcagatcc tttttgattc atgtcataac ccaacttacc ccccccccca cactgaactg
     5041 atgaaaaaaa cagtcaactc tggaatcagt actttaaaaa aacctcaaat gacattttga
     5101 ggggatacag cggcaagggc tacaactaca cagctgcaag ttacctagtt gtaagcctag
     5161 gcgaagatca ggtatactcg aatcaaggtg atttgctacc tttaagtgca gctagaaatt
     5221 caggtgattt gctaccttaa gtgcagctag aaattcaggt gatttgctac ctttaagtgc
     5281 agctagaaat tcaggtgatt tgctacctta agtgcagcta gaaatttagg tcatttacta
     5341 ccttaaagta atacagtaaa agaggcgact acacagtcgc cttttttacg agaaaaaaat
     5401 gaaattttac actatatcaa gcagatacat tgaataccta aagggattcg aagacaaagt
     5461 tcccaatagc gaagatccta actatcagaa tccgaaagct ttcattggca ttgtgttaga
     5521 gattcaaggg cataagtatc tagccccttt aacatcccca aagccatggc atagcactat
     5581 taaagaatca tcgcctagct tctttaagct ccatgaaaat ggtgtccccg aaaatcagct
     5641 cggattgatt aatctgaagt tcatgattcc aatcatcgaa gccgaagtat ccttacttga
     5701 cttgaacggt atgccgaata ccgcctacaa gagaatgctc tataagcagc tccagtttat
     5761 tcgtgtaaat tcagacaaaa tagctgagaa atcagagctt ttaaggaagc tcgtcctgca
     5821 aggaaaaatg caaggaacat gtaatttttc cctgttagaa gaaaaatacc gagatttcgg
     5881 caaagaagct aatgacacgg aagaaggcga gtaacgcttc attgccatcc tgaatagtgt
     5941 ccgaaaccga gtgatcttgg acactattca ggtctaatat tcaaaactca acggttcgac
     6001 tcacatacat agttcacggt gaaccatatt atgattaata caaataccaa aactcaaata
     6061 aaaaaccgtt aaaaacaaca agataaaaaa ttaacatcac ttttatcttt ctagatagat
     6121 ttttgtgaag gcgttacaac gccttcacac cctgagataa taaaaacaac aagaagcgat
     6181 tacgaggggt gaaaaatgtt tgagaaaggc gtgtgtctgg ttgagaggct tgcgaaagtc
     6241 gcagcggtaa taactaacct tgtgctctca ctttctatat tgggattggt ctatttcatc
     6301 tttcaaaact tggccttgag gtgattcatg ctgtactgga aaaaaatgcc ttcactatgg
     6361 ataggaaata ggatcgctga attcagcgat cttgatacag caaaagctat agcggcatta
     6421 aaaatttatt ta
//
