LOCUS       NZ_CP103774             4715 bp    DNA     circular CON 20-SEP-2023
DEFINITION  Salmonella enterica strain S1905 plasmid pS1905_3, complete
            sequence.
ACCESSION   NZ_CP103774
VERSION     NZ_CP103774.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN30507085
            Assembly: GCF_024917195.1
KEYWORDS    RefSeq.
SOURCE      Salmonella enterica
  ORGANISM  Salmonella enterica
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Salmonella.
REFERENCE   1  (bases 1 to 4715)
  AUTHORS   Yue,M.
  TITLE     Genome sequence of Salmonella
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 4715)
  AUTHORS   Yue,M.
  TITLE     Direct Submission
  JOURNAL   Submitted (26-AUG-2022) Clinical laboratory, Hangzhou Children's
            Hospital, 195 Wenhui Road, Hangzhou, Zhejiang 310014, China
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: Unicycler v. 0.4.9
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 100.0x
            Sequencing Technology             :: Illumina HiSeq; Oxford Nanopore
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 09/20/2023 05:35:37
            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)                     :: 4,942
            CDSs (total)                      :: 4,824
            Genes (coding)                    :: 4,681
            CDSs (with protein)               :: 4,681
            Genes (RNA)                       :: 118
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 84
            ncRNAs                            :: 12
            Pseudo Genes (total)              :: 143
            CDSs (without protein)            :: 143
            Pseudo Genes (ambiguous residues) :: 0 of 143
            Pseudo Genes (frameshifted)       :: 53 of 143
            Pseudo Genes (incomplete)         :: 108 of 143
            Pseudo Genes (internal stop)      :: 28 of 143
            Pseudo Genes (multiple problems)  :: 40 of 143
            Pseudo Genes (short protein)      :: 1 of 143
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP103774.1.
            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..4715
                     /organism="Salmonella enterica"
                     /mol_type="genomic DNA"
                     /strain="S1905"
                     /host="Homo sapiens"
                     /db_xref="taxon:28901"
                     /plasmid="pS1905_3"
                     /geo_loc_name="China: Hangzhou"
                     /collection_date="2021"
                     /collected_by="Meina Yue"
     gene            join(4639..4715,1..118)
                     /locus_tag="NYS49_RS24605"
                     /old_locus_tag="NYS49_24605"
     CDS             join(4639..4715,1..118)
                     /locus_tag="NYS49_RS24605"
                     /old_locus_tag="NYS49_24605"
                     /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_001041633.1"
                     /translation="MNKQQQTALNMARFIKSQSLTLLEKLDALDADEQAAMCERLHELA
                     EELQNSIQVRFETESETGT"
                     /name="Rop family plasmid primer RNA-binding protein"
     gene            772..885
                     /locus_tag="NYS49_RS24765"
     CDS             772..885
                     /locus_tag="NYS49_RS24765"
                     /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="hypothetical protein"
                     /protein_id="WP_001427893.1"
                     /translation="MHEPPVQPDCCALSGNYRLESNPVRHALTPLAAATGN"
                     /name="hypothetical protein"
     gene            complement(1107..1775)
                     /locus_tag="NYS49_RS24610"
                     /old_locus_tag="NYS49_24610"
     CDS             complement(1107..1775)
                     /locus_tag="NYS49_RS24610"
                     /old_locus_tag="NYS49_24610"
                     /EC_number="3.1.3.16"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_016249761.1"
                     /GO_function="GO:0004722 - protein serine/threonine
                     phosphatase activity [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="PP2C family serine/threonine-protein phosphatase"
                     /protein_id="WP_223195384.1"
                     /translation="MGYIQMIAFSFSDIGNRCENLDLLSTINCQNDVFGMVIMDGYSCS
                     EWNMKILSGRLDKCVFSGDLNKDIIEPCKSVPVKAAVCFLFKNNTHLHIYNAGDCRVYN
                     KSGVLLTEDNSVAWKRLKENGIDNKKIPHLVCYCPDRNYLTSFVDFCSDEIIFNHSVFD
                     LNDENKEVILCTDGFWEHFNDGTVIDLMKDNPESNLAKFTKNIPGNAENHTVCYVRFPS
                     "
                     /name="PP2C family serine/threonine-protein phosphatase"
     gene            complement(1757..2623)
                     /locus_tag="NYS49_RS24615"
                     /old_locus_tag="NYS49_24615"
     CDS             complement(1757..2623)
                     /locus_tag="NYS49_RS24615"
                     /old_locus_tag="NYS49_24615"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000409995.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="nucleotidyl transferase AbiEii/AbiGii toxin
                     family protein"
                     /protein_id="WP_000409995.1"
                     /translation="MEKEINNWIEESGGKYRLMRQAVHIILKSISIEESLNEMMVMKGG
                     TLLGVKHGSDRYTKDIDFSTEKKLSEIDLGDFFNRFNDSMDVAEAELGYGIKCKVQSHK
                     IQPNAQGTFPTVQINIAFCDRSNASAMKRLESNQSPSVINIDFSFNEKTYDFDFLSLDG
                     DDDNDSVKTYSLTDLMAEKYRSVLQQKVRERNREQDIYDINYLLGKYEFSRQDKYKILE
                     SLLKKSEGKQLDNLLNVKGIRDVEIIERSSQRYQDLSSTVKSLPLFEDAYEKVACFYES
                     LPWDIFK"
                     /name="nucleotidyl transferase AbiEii/AbiGii toxin family
                     protein"
     gene            complement(2607..3563)
                     /locus_tag="NYS49_RS24620"
                     /old_locus_tag="NYS49_24620"
     CDS             complement(2607..3563)
                     /locus_tag="NYS49_RS24620"
                     /old_locus_tag="NYS49_24620"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000280763.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_000280763.1"
                     /translation="MYLIEEALTSWLLNEYKKPVITKEEISLQIYLFYLKKEYNGERIY
                     QIRKNKAGPNEFEKNILKLLKSGVLSRVESNDKHHAYPHLIGGFYEVFFVKGNDGSPEN
                     DIVCSTYPYGYLSYLSAMDWHNITDKIPKIIHFTTCRSEQWKNKFYHDFQKDNPDIDEA
                     KQFMPRFPRNSEVNGIKIIVTQETNYVEPMKARNSPVRVSSIGKTFMDMTRRPDYCGGE
                     EHVLESFIEHGKKYAPLIIKEVDKLGRHIDKVRVGFILDRIIGVNNKKISEWKQEAGKY
                     RGSSKVLSPKSPFSPYFDEEWFISINVDMVKSYGKRN"
                     /name="hypothetical protein"
     Typing          complement(192..274)
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="3.79e-36"
     Typing          complement(4125..4380)
                     /name="MOBF"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="96.512"
                     /coverage="89.0"
                     /evalue="1.21e-116"
     Typing          complement(4505..4603)
                     /name="MOB_unknown"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="6.22e-45"
     Typing          287..844
                     /name="rep_cluster_2350"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="94.831"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 ggatgctctg gatgccgacg aacaggcggc catgtgcgaa cgactgcacg aactcgcgga
       61 agaactccag aacagcatcc aggttcgctt tgagaccgaa agtgaaacag gaacataacg
      121 aagctgccga aaacgctcac ggcttgtccg cgagcgtttt cggcagcaga caagcccgcc
      181 agggcgcgtc agcgggtgtc ggggcgaagc cctgacccag tcacgtagcg atagcggagt
      241 gtatactggc ttaactatgc ggcatcagtg cagattgtat gaaaagtgcc ccatgccggg
      301 tgtgaaattc cgcacagatg cgtaaggaga aaatgcgcgt ccaggcgctt ttccgcttcc
      361 tcgctcactg actcgctacg ctcggtcgtt cggctgcggc gagcggtact gacttacaca
      421 aaaacggcag cacggttatc cacagaatca ggggataagg ccggaaagaa catgtgagca
      481 aaagaccaag aacaggaaga aggccgcgcc gcaggcgttt ttccataggc tccgcccccc
      541 tgacgagcat cacagaaatc gacgctcaag tcagaggtgg cgaaacccga caggacttaa
      601 agataccaga cgtttccccc tggtggctcc ctcgtgcgct ctcctgttcc gaccctgccg
      661 cttaccggat acctgtccgc ctttctccct tcgggaagcg tggcgctttc tcatagctca
      721 cgctgttggt atctcagttc ggtgtaggtc gttcgctcca agctgggctg tgtgcacgaa
      781 ccccccgttc agcccgactg ctgcgcctta tccggtaact atcgtcttga gtccaacccg
      841 gtaagacacg ccttaacgcc actggcagca gccactggta actgatttag aggagttagt
      901 cttgaagtca tgcgccagtt aaggctaaac tgaaagaaca ggttttggtg actgcgctcc
      961 tccaagccag ttaccttggt tcttcgagcc gcaaactctt tgaacctaag agaaaaccgc
     1021 cccgcaaagg cggttttttt cttttacaga aaagagatta tctatatgac acgaagatct
     1081 caatagcttc ttcaaaaaac acgaaatcaa gaagggaatc taacgtagca aaccgtatga
     1141 ttctctgcgt tacccgggat atttttagta aatttagcca agttagattc tgggttatct
     1201 ttcatgaggt caataacagt accatcatta aaatgctccc aaaacccatc agtacataaa
     1261 ataacctctt tgttttcatc atttaaatca aaaactgaat gattgaaaat tatctcatca
     1321 gagcagaaat caacaaatga tgttagataa tttctgtctg ggcaataaca aacgaggtga
     1381 ggtatttttt tattatcgat tccattttcc tttaatcttt tccaggcaac cgagttatcc
     1441 tctgttagaa ggactccact tttgttatat acacggcaat ctcctgcgtt atatatatgg
     1501 aggtgcgtat tatttttaaa aaggaaacat actgcagcct taacaggaac tgacttgcat
     1561 ggttcaataa tatctttatt cagatcacca gaaaacacgc acttatctaa cctaccagag
     1621 agaattttca tattccactc agagcaggaa tacccatcca taataaccat tccaaacaca
     1681 tcattttgac aatttatcgt agataataag tctaagtttt cacatctgtt accaatatca
     1741 ctaaaactga acgctatcat ttgaatatat cccacggaag actttcatag aaacaggcaa
     1801 ctttttcata agcatcttca aaaagaggta atgatttaac ggtggatgat aaatcctgat
     1861 atcgctgact ggaacgctcg ataatttcta catcccttat acctttaacg tttaagagat
     1921 tatccaattg tttaccttca ctctttttta aaagagactc cagtatttta tacttatctt
     1981 gccgagaaaa ctcatattta cctaaaagat aattgatatc atatatatct tgctctcgat
     2041 ttctctctct aactttttgt tgcaaaacgg atcgatattt ttcagccatc aaatcagtta
     2101 agctgtaggt ctttacgcta tcattgtcat catcaccatc taatgataaa aagtcaaaat
     2161 catacgtttt ttcgttaaag ctaaaatcga tatttatcac tgaaggtgat tgattagatt
     2221 caagcctttt cattgcagac gcattagaac gatcgcaaaa ggctatattt atctgtacag
     2281 ttggaaatgt tccttgtgca ttaggttgaa ttttatgaga ttgaacttta catttaatac
     2341 catatcccaa ttcagcctca gcaacatcca ttgagtcatt aaacctattg aaaaaatccc
     2401 ccaagtcaat ttcagaaagt tttttttcgg tagaaaaatc aatatccttt gtgtatctat
     2461 cactaccatg cttaacacca agaagagtcc ctcccttcat aaccatcatt tcattcaaac
     2521 tctcctctat agaaatagat ttaagtatta tatgtacagc ctgccgcatc aacctgtact
     2581 tcccaccaga ctcttcgatc caattattaa tttctttttc cataagactt aaccatatca
     2641 acattaatag aaataaacca ttcttcatca aagtaaggtg agaatggact ctttggagat
     2701 agcactttcg aactacctct gtatttaccc gcctcttgtt tccattcgct tattttttta
     2761 ttattaaccc caataattct atccaaaatg aatccaaccc ttaccttgtc aatatgacgg
     2821 ccaagcttat cgacttcctt tataatcaga ggtgcatatt ttttaccgtg ctcaataaat
     2881 gattccaata catgctcctc accaccacag taatcaggcc gcctggtcat atccataaag
     2941 gtcttaccga tagatgatac cctgacaggg gaattacgag ccttcattgg ctcaacataa
     3001 tttgtttctt gtgtaacgat aatttttatt ccattgacct cagaatttct tggaaatcta
     3061 ggcatgaatt gtttggcttc gtctatatca ggattatcct tttgaaaatc atgatagaac
     3121 ttattcttcc actgttcgga acgacatgtc gtaaagtgga ttatcttggg tattttatct
     3181 gtgatgttat gccaatccat agcggataaa taggataagt atccatatgg atacgtagag
     3241 cacactatat cattttccgg agaaccatcg ttacctttaa caaaaaagac ctcatagaaa
     3301 ccgccaatta aatgggggta agcatgatgc ttatcgttac tttcaactct tgataaaacc
     3361 cctgacttta ataattttaa tatatttttt tcaaattcat taggtcctgc tttgttcttt
     3421 ctaatttgat atatcctctc accattatat tcttttttta aataaaaaag gtaaatctgc
     3481 aaagagattt cttctttggt tatgactggt tttttatatt cattcaacaa ccaagacgtt
     3541 agcgcttctt cgataagata catattcaac cttttcggtt tagtctctaa tagaatatac
     3601 gtcctaagga cgtatattct attagagatt gattgtcaag aaaaaaataa taacaaacaa
     3661 gcatttgcca tttttatatt tttgatatcc tataaaataa atcctaagga tttattttat
     3721 aggataataa gtaggaagtc aagaaaaagt ttacttatat caccgttttc ataacacctc
     3781 atgcgatcaa ttcagcggcg gttatagttc aaatccatga ttaggacatc tgttgctcat
     3841 aaacgatgag cgtaaaagat catttttcag cgtcatttac cataacgtcg cattacgcgc
     3901 accgctaaaa cgcgctgaac gcgattctgc cgcgaacacc gcaaaaagag atgttttacc
     3961 aagcgaaaac cggaaaaatg cgtcaggatc gctttcagct cactgcatag ctatgcatga
     4021 aagtgaatgg cgatcggttt gggcgcatac ggtgcccatg agacacattt tcggacattt
     4081 tcagttcgtg aatccctgac tcattgctac atatctgaac agacacccct agcagcgccc
     4141 ccaggggcgt cctgtaaaaa aacacaccgc gccgctagca gcacccctaa tataaaatga
     4201 tgttttttat gaaaatagtc agtaccaccc ctaaaaagcg gtgttggcgc agctacaaca
     4261 ccgcgccgac accgcttttt taaatatcac aaagagagca agaagaacta atttgtcata
     4321 actctctatt tataaagaaa aatcagcaaa aaattgtttt tgcgtggggt gtgggcattt
     4381 caggcatgag aacagactcg cgtttttccg gagtatcagc ggaattattg attaagaaac
     4441 actcgacgca gagcgaaatt ttatgcaaca gcggctgcac tgcacaggga ttatttatca
     4501 gttgatatgc tgtgccatga tacgtcctaa aaaaacagga caggatgtgc aattgtaata
     4561 ccgtcgcccg caacgtctta caattaccac ctggtcaggg tccacccgac acccggtact
     4621 gacggagaac aacggaaggt gaacaaacag caacaaactg cgctgaatat ggcgcgattt
     4681 atcaaaagcc agagcctgac actgcttgaa aaact
//
