LOCUS       NZ_CP107013             4072 bp    DNA     circular CON 06-NOV-2023
DEFINITION  Salmonella enterica subsp. enterica serovar Paratyphi B strain
            SZ21B23 plasmid pSZB23-3, complete sequence.
ACCESSION   NZ_CP107013
VERSION     NZ_CP107013.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN31136160
            Assembly: GCF_025725745.1
KEYWORDS    RefSeq.
SOURCE      Salmonella enterica subsp. enterica serovar Paratyphi B
  ORGANISM  Salmonella enterica subsp. enterica serovar Paratyphi B
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Salmonella.
REFERENCE   1  (bases 1 to 4072)
  AUTHORS   Wang,J.
  TITLE     Complete sequence of Salmonella enterica serovar Paratyphi B SZ21B23
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 4072)
  AUTHORS   Wang,J.
  TITLE     Direct Submission
  JOURNAL   Submitted (03-OCT-2022) Key Laboratory of Prevention and Control of
            Biological Hazard Factors (Animal Origin) for Agrifood Safety and
            Quality, Ministry of Agriculture of China, Yangzhou University,
            No.48 Wenhui East Road, Yangzhou, Jiangsu 225009, 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             :: Nanopore MinIon
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 11/06/2023 05:10:13
            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)                     :: 4,684
            CDSs (total)                      :: 4,568
            Genes (coding)                    :: 4,411
            CDSs (with protein)               :: 4,411
            Genes (RNA)                       :: 116
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 80
            ncRNAs                            :: 14
            Pseudo Genes (total)              :: 157
            CDSs (without protein)            :: 157
            Pseudo Genes (ambiguous residues) :: 0 of 157
            Pseudo Genes (frameshifted)       :: 71 of 157
            Pseudo Genes (incomplete)         :: 92 of 157
            Pseudo Genes (internal stop)      :: 32 of 157
            Pseudo Genes (multiple problems)  :: 33 of 157
            Pseudo Genes (short protein)      :: 1 of 157
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP107013.1.
            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..4072
                     /organism="Salmonella enterica subsp. enterica serovar
                     Paratyphi B"
                     /mol_type="genomic DNA"
                     /strain="SZ21B23"
                     /serovar="Paratyphi B"
                     /isolation_source="fecal sample"
                     /host="patient"
                     /sub_species="enterica"
                     /db_xref="taxon:57045"
                     /plasmid="pSZB23-3"
                     /geo_loc_name="China: Shenzhen"
                     /lat_lon="22.32 N 114.03 E"
                     /collection_date="2021"
                     /collected_by="Dachuan Lin"
     gene            complement(join(2524..4072,1..611))
                     /gene="mobQ"
                     /locus_tag="OF884_RS23375"
     CDS             complement(join(2524..4072,1..611))
                     /gene="mobQ"
                     /locus_tag="OF884_RS23375"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_016240513.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MobQ family relaxase"
                     /protein_id="WP_001029353.1"
                     /translation="MAIYHLSMKIISRSSGYSAVASAAYRSGSLMLDERTGLTHDYTRK
                     SGVAEAVILTPATAPAWCTNRAELWNAVEKAECRKNSQLAREIELAIPRELPQDAARET
                     VLAFVRENFVSQGMIADVAFHHMDKTNPHAHIMLTTRAVGPAGFGGKVRDWNDRTHAET
                     WRASWADHANRALANAGYQEEIDHRSYERQGLEKTPGIHLGKSACAMETRGIETERGEQ
                     NRLINRLNLEIQISRTELRNSGLTEPARRVADLLNIVLPDNATSYTLRDIIEALPKDSN
                     AAWKLTSNAMSMMADMQATRRRWEELNTERKEAMSHAASLKKSSPFSSGFSRIPLMQWA
                     APEYRSEQGKIQSLSQQMEKLRQHYRKVEKQDIPASQTAFEKQWQQWGASGLAALRVQL
                     LKREEELRRKEQEDTERSRAERRAEQLRKNDNAVMDSGVLSAVVTGYGEAPMPGNGEMT
                     CYLLLHNRNGEYTLWGNELEKYRTRIFERVDLMRDRSGYICDRSEIGQHPPLQRVYSSA
                     TFEQLLTQVCQTWPQYTRNLRQPKTWPESFCLGEDRQPAMPSLAARKVDFTQGRLLPTL
                     MPVMSSVDRETRQLQLLLVMGVDDSLGGVVRLNGTLYPAFAVPSADNSQLVISALTDKG
                     LRYAGYGVAVNHDADSHISPAPELMEFHLKTREAPLFAAVNTPEKQPDHLFRSLGFNRT
                     WDEWRREEDARTHTTERRHDRGWSQ"
                     /name="mobQ"
     gene            790..1044
                     /gene="mobC"
                     /locus_tag="OF884_RS23380"
     CDS             790..1044
                     /gene="mobC"
                     /locus_tag="OF884_RS23380"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000091747.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="relaxase accessory protein MobC"
                     /protein_id="WP_000091747.1"
                     /translation="MSRTLEQKIADAEARLQRLKAKSRSLDTAQKVVVGAALLAKVRKP
                     EEVQLRAWLLQFLKAEVTRQADVTRILPLINELEALPGQ"
                     /name="mobC"
     gene            1576..2268
                     /locus_tag="OF884_RS23385"
     CDS             1576..2268
                     /locus_tag="OF884_RS23385"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001281399.1"
                     /GO_function="GO:0003887 - DNA-directed DNA polymerase
                     activity [Evidence IEA]"
                     /GO_process="GO:0006270 - DNA replication initiation
                     [Evidence IEA]"
                     /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_001281403.1"
                     /translation="MSDLIAYKSNALVEASYKLTLQEQRFLLLCISRLKSGADAELQKT
                     MTITAAEYFDSFPDMGRKNAEVQLQEAIDRLWDRSIILKNDEKREEFRWIQYRAQYAKG
                     EAKARITFSDAVMPYLTQLKGQFTRVVIKNISGLSSSYSIRIYEFLQQFRSTGERIIAL
                     NDFRSMLGIENKYKQFRDLNKILIKPCVDELNKKSDLAVTVETIKKGRTVVALHFRFKE
                     DKQIKMTI"
                     /name="replication initiation protein"
     Typing          complement(254..612)
                     /name="MOBQ"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="98.056"
                     /coverage="100.0"
                     /evalue="3.94e-177"
     Typing          613..789
                     /name="MOBQ"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="99.438"
                     /coverage="100.0"
                     /evalue="2.610000000000001e-86"
     Typing          1577..2268
                     /name="rep_cluster_1778"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="95.965"
                     /coverage="100.0"
                     /evalue="0.0"
     Typing          complement(4..698)
                     /name="MOBQ"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="98.276"
                     /coverage="99.0"
                     /evalue="1.97e-149"
     Typing          complement(2528..4071)
                     /name="MOBQ"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="99.806"
                     /coverage="99.0"
                     /evalue="0.0"
ORIGIN
        1 ccgaggtgaa taccaggcgt tttctcaagc ccctgtcgct cgtatgaacg atggtctatc
       61 tcttcctgat aaccggcgtt cgccagtgct ctgtttgcat ggtcagccca tgatgcacgc
      121 cacgtctcgg catgtgtccg gtcgttccag tccctgacct ttccgccgaa cccagcaggt
      181 ccgacagccc tcgtggtcag catgatgtgc gcatggggat ttgttttatc catgtgatgg
      241 aacgccacat cagcaatcat gccctgactg acaaagtttt ctctgacaaa ggcgagaacg
      301 gtttcccgtg cggcatcctg cggcagttca cgggggatag cgagttcaat ttcccgcgca
      361 agttgtgagt tcttccggca ttcggccttc tcaacggcat tccagagttc ggcacggttc
      421 gtacaccagg caggggctgt cgcgggggtc agaatcacag cttcagccac accgcttttg
      481 cgggtgtagt cgtgagtcag tccggtacgc tcatcaagca tcagtgaacc ggaacgatag
      541 gcagcggaag ctacggcgct gtagccgctg cttctggaga taattttcat gctgagatga
      601 taaatcgcca tttctgccgt aatgcctttt tgtagttttc tttcagcccc gcagggcgca
      661 cacaatcgaa acggagtgga gattgtataa gtgcgcactt tgtgatttgt cgtgcattat
      721 gccagctcag tttttaaact accagtgacg cgctaaaatg cgatttttca tcgcgcacgg
      781 agttacatca tgagcagaac gctcgaacag aagattgctg atgctgaggc gagattacag
      841 cgcctgaagg cgaagagccg gagcctggac acagcgcaga aggttgttgt gggtgcagca
      901 ttgctggcaa aggtcagaaa gccggaggag gtgcagttgc gtgcctggtt actccagttc
      961 ctgaaggcag aggtgacacg acaggctgat gtgacgcgca tactgccgct gattaacgag
     1021 ctggaggcgc tgccaggaca gtgattgtat cgtccgctcg ccgcagcccc agcgaccgag
     1081 cgttagcgag cgagtgggcg aggaagcgga agtgaatccg tcgccaggtt gagcacatac
     1141 gcacggtttt tcggtaggtg atatgcgctg aacccgcatg aatactggat ttccacaggg
     1201 ttggaagggg agtattcgga acttgcaatt ctgctttctt gcaacacatt gtttttattg
     1261 gttttttgtt ttcagcgccc caagttatcc acaggctcgc cgttaagttt ttagatcttg
     1321 tttttaagat cttgttttta atacttgttt tagggtcaaa attcattaat aaaatcaata
     1381 tgttatagag gtatatgtgg aggaatttaa ggtaaaggtg gaggaattta aggtgtttag
     1441 gtggaggaat ttaaggtaaa ggtggaggaa tttaaggtgt tattcacaga aatgtgagga
     1501 tataaaaaaa aatattccac atttcttatt tgtggggcac attaaagcat caccacattt
     1561 gaacgggatc tttgtatgtc ggacttgatt gcctacaagt cgaatgcttt ggttgaggcc
     1621 agctacaagt tgaccctaca ggaacaacgt tttctgttgc tgtgtatcag tcgattgaaa
     1681 tctggtgctg atgctgaatt gcaaaagaca atgaccatta ccgctgcgga atattttgat
     1741 tcattccctg acatggggcg gaaaaatgcc gaggttcagt tacaggaagc gatcgatcgt
     1801 ttatgggaca ggtcgatcat tctcaagaat gacgagaagc gtgaggagtt ccgctggatc
     1861 cagtatcggg cacagtacgc taaaggtgag gccaaggctc gaataacctt ttctgacgcg
     1921 gtaatgcctt atctgacgca actgaagggg caattcacgc gcgttgttat aaaaaacata
     1981 tcaggtttat caagtagtta cagtataaga atatacgagt tcctccagca attccgcagt
     2041 acgggagaga gaattattgc tcttaatgac tttcgttcaa tgttagggat tgaaaataaa
     2101 tacaaacaat tcagagactt aaataaaata ctaataaaac cctgtgttga cgaactgaac
     2161 aaaaaaagcg acctggctgt aacggttgag acgatcaaaa aggggcgcac ggttgtagcc
     2221 ctgcattttc gcttcaagga agacaaacag atcaagatga cgatctaaaa tcgattttaa
     2281 ggcacctaaa acgctccctg ctgcgttttt tttgtgttag tagtgcgaag gtactattga
     2341 agtgaaaaat tgcgtcaaaa gcgctctaat gcagcgaaaa aagaaccccc aatttttggg
     2401 ggcggaaaaa caaaactatg cttgcattat gtgtgtgctt cttgcattca tccctgtcga
     2461 tgaacataga agaacatcga cgaacataac acgatgttaa acaaaacaaa atattgttca
     2521 cattcactgt gaccaaccgc gatcatgtct cctctcggtg gtgtgtgttc ttgcatcttc
     2581 ctcgcgccgc cattcatccc aggtacgatt gaaacccaga gagcggaaca gatgatccgg
     2641 ctgtttttct ggtgtgttga cggcagcaaa aagcggtgcc tcacgggttt tcagatgaaa
     2701 ctccataagt tccggcgcag gtgatatgtg gctgtctgca tcgtgattta cggcaacacc
     2761 ataccctgca taccgtaacc ccttatcggt cagtgcactg atgaccagct ggctgttatc
     2821 ggctgaggga acggcaaacg cgggatacag cgtaccatta agccggacaa caccgcccag
     2881 agagtcatcc acgcccatga ccagcaaaag ctgaagctgg cgggtttccc ggtcgacaga
     2941 actcattacc ggcatcagcg tcggtagcag acgtccctgc gtaaaatcca ccttccttgc
     3001 tgccagtgat ggcatggctg gctggcggtc ttctccaaga cagaaagact ccggccatgt
     3061 cttcggctgg cggagattgc gggtatattg cggccatgtc tggcaaacct gcgtcagaag
     3121 ttgctcaaag gtcgcagagg aataaacacg ttgcagtggt ggatgttgac cgatttcgct
     3181 tcggtcacag atataaccac tcctgtcacg cattaaatca acacgctcaa agattctggt
     3241 gcggtatttc tccagctcgt tcccccagag cgtgtattct ccgttccggt tgtgaagcag
     3301 aaggtaacag gtcatttccc cgttaccagg catgggggcc tcgccatacc ccgtaacgac
     3361 tgcgctcagt acccctgaat ccataacggc attgtcattt ttcctgagct gttccgctcg
     3421 tcgctccgcg cgactacgtt ctgtatcctc ctgctccttc cggcgcaatt cctcttcacg
     3481 tttaagcaac tggactctga gagctgcaag gccggatgcc ccccactgct gccactgttt
     3541 ttcaaatgcc gtctgactcg cgggaatgtc ctgtttctcc accttccggt aatgctgtcg
     3601 caatttttcc atttgctggc tcagcgactg gatttttccc tgttcgctac ggtattccgg
     3661 tgccgcccat tgcatcaggg gaatacggga aaaaccggac gaaaacggcg atgatttttt
     3721 caggctggca gcatggctca tcgcttcctt tcgttcggtg ttcagctctt cccagcgtct
     3781 gcgcgtcgcc tgcatatctg ccatcatcga catggcatta ctggtgagtt tccatgccgc
     3841 attactgtcc ttcggcaacg cttcgatgat gtcacgtagt gtgtacgaag ttgcgttgtc
     3901 aggaagcacg atattcagaa ggtcagccac acggcgggca ggctctgtca gcccgctgtt
     3961 cctgagttca gtgcgggaaa tctgtatttc caggttaagc ctgttaatca gacgattctg
     4021 ttcgccgcgt tctgtttcga taccgcgtgt ttccatcgca caggcagact tt
//
