LOCUS       NZ_CP120540             2683 bp    DNA     circular CON 20-OCT-2023
DEFINITION  Providencia sp. PROV099 plasmid pPROV099-qnrD1, complete sequence.
ACCESSION   NZ_CP120540
VERSION     NZ_CP120540.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN33762892
            Assembly: GCF_032707925.1
KEYWORDS    RefSeq.
SOURCE      Providencia sp. PROV099
  ORGANISM  Providencia sp. PROV099
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Morganellaceae; Providencia.
REFERENCE   1  (bases 1 to 2683)
  AUTHORS   Zhou,D.
  TITLE     Complete sequence of PROV099
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 2683)
  AUTHORS   Zhou,D.
  TITLE     Direct Submission
  JOURNAL   Submitted (15-MAR-2023) State Key Laboratory of Pathogen and
            Biosecurity, Beijing Institute of Microbiology and Epidemiology, No.
            20, Dongdajie, Fengtai, Beijing, Beijing 100071, China
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: HGAP v. v3.0
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 100.0x
            Sequencing Technology             :: PacBio RSII
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 10/18/2023 17:33:52
            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)                     :: 4,633
            CDSs (total)                      :: 4,530
            Genes (coding)                    :: 4,461
            CDSs (with protein)               :: 4,461
            Genes (RNA)                       :: 103
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 77
            ncRNAs                            :: 4
            Pseudo Genes (total)              :: 69
            CDSs (without protein)            :: 69
            Pseudo Genes (ambiguous residues) :: 0 of 69
            Pseudo Genes (frameshifted)       :: 22 of 69
            Pseudo Genes (incomplete)         :: 52 of 69
            Pseudo Genes (internal stop)      :: 19 of 69
            Pseudo Genes (multiple problems)  :: 15 of 69
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP120540.1.
            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..2683
                     /organism="Providencia sp. PROV099"
                     /mol_type="genomic DNA"
                     /strain="PROV099"
                     /host="Homo sapiens"
                     /db_xref="taxon:2949815"
                     /plasmid="pPROV099-qnrD1"
                     /geo_loc_name="China:Beijing"
     gene            320..760
                     /locus_tag="P3L54_RS23160"
                     /old_locus_tag="P3L54_23145"
     CDS             320..760
                     /locus_tag="P3L54_RS23160"
                     /old_locus_tag="P3L54_23145"
                     /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_015063446.1"
                     /translation="MSQLFRLASPEDYEYIEELNLWELSFDKRPVQGVRCEDPVIGAEK
                     YNQGREKFKALASRHKKHWKPNGLTFSELIRWAIECGTPEQCQLVLALYHCTNDDDYQA
                     MGIQLSRSIDNANVSPIIFFTGKNQRLLGDISMLKQLEEKVR"
                     /name="hypothetical protein"
     gene            1721..2365
                     /locus_tag="P3L54_RS23165"
                     /old_locus_tag="P3L54_23150"
     CDS             1721..2365
                     /locus_tag="P3L54_RS23165"
                     /old_locus_tag="P3L54_23150"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_032495680.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="quinolone resistance pentapeptide repeat protein
                     QnrD1"
                     /protein_id="WP_012634451.1"
                     /translation="MEKHFINEKFSRDQFTGNRVKNIAFSNCDFSGVDLTDTEFVDCSF
                     YDRNSLEGCDFNRAKLKNASFKSCDLSMSNFKNISALGLEISECLAQGADFRGANFMNM
                     ITTRSWFCSAYITKTNLSYANFSRVILEKCELWENRWNGTVITGAVFRGSDLSCGEFSS
                     FDWSLADFTGCDLTGGALGELDARRINLDGVKLDGEQALQLVESLGVIVHR"
                     /name="quinolone resistance pentapeptide repeat protein
                     QnrD1"
     ARG             1722..2362
                     /name="qnrD1"
                     /gene="qnrD1"
                     /gene_name="quinolone resistance pentapeptide repeat
                     protein QnrD1"
                     /tool="amrfinderplus"
                     /drug_class="QUINOLONE"
                     /identity="100.0"
                     /coverage="100.0"
     Typing          1472..1627
                     /name="Col3M"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="98.089"
                     /coverage="100.0"
                     /evalue="2.29e-71"
ORIGIN
        1 accgggctaa gtccgagtca atcaagtggt gcatttgggt taatgtcgtt ggctggtatt
       61 taatgagaac gtgacaagcg cctctcacgt tgctaagatt ggattgcgac gtctaatctg
      121 agcaacgaat gcacaagatt tagagtacca gagccctgtg atgctgtcac ggggctttgt
      181 tacatctgga gcttggtaaa cctcataaat tcaattcgca acgctcgccg caaggcgtga
      241 acttgtttca cgtcgaggaa gcggaatttc tcgaaagcct tatactgtct ccgttcacac
      301 atgatcggag ggtgtctcta tgtctcaatt atttcgtttg gcatcgccag aagattacga
      361 atacatcgaa gaattaaatt tatgggaatt gtcatttgat aagcgaccgg ttcaaggggt
      421 tcgttgtgaa gatccggtga tcggggcaga aaaatataat caagggcgtg aaaaatttaa
      481 ggcgttagcg tcacggcata aaaaacactg gaaaccgaac ggattgacct tttcggagtt
      541 gatccgctgg gcaatagaat gcggaactcc agaacaatgt cagcttgttt tagcgttata
      601 ccattgcaca aacgatgatg attatcaggc gatgggaatt cagttaagcc gaagtattga
      661 taatgcaaat gtcagtccga tcatcttttt cacaggtaaa aatcaacggt tattaggtga
      721 tatttcgatg ctaaaacagc tcgaagaaaa ggtgcgctga cgttaggttt acctattatt
      781 ttatgtatta tcctatctat tattctatct cttattttat ctatttcgtc tgtaataggt
      841 agaataatac atagaataag atacagaata atagatagac acaagatgac gttgtgttat
      901 ttcttaccca ttaatccacc tgttattcta cctattactt tacccgttat tgcacccaat
      961 ttaggtataa cgggcagaat aacgggtgaa ataatgggta gaatcatagt tttactaact
     1021 tgcaccccat gatactttca gtatcaatgc cactcatttt ctggacgaaa atgaatgaca
     1081 taaggctccg ccctctggct attttcttcg gctggacgcc tgcgaaaaaa accattcacc
     1141 caagcccgtc aaactcactg cgttcgtctg accaccccct tttttcgccc ctgtatttgg
     1201 tcgctcaaaa atgtggtggt cagacgcttc gcttgacggg gggctttgcc cccaaaacga
     1261 aacacgttca ctggggttca cttgccatcg ctggggcgtg tcatttcgtt tcggctcccc
     1321 ctgtttttcc ctttcttcgc tggacgctca tcaggataaa aacaaaaagc ctaccgccct
     1381 cgttttactc ggttggtcaa atcgcttctt gccacaaaac aagtttgtga ctttcagcga
     1441 tttcgcatcg ttttacttgt cagtttgcac gatgttaaaa acgcactcag aagcccgcaa
     1501 aaccgttcta aactttcagc gtagatttgg gtgttttata gggtgatcgt gtcttaaaat
     1561 cgtttcgagg ggctttaatg gggatgaacg ggaggttttt gctaactaac tcgcccgttt
     1621 aacataaaag ggattgtatg aatcaatttt agctagagtt taaggttgtt caaattaatg
     1681 tacaatgatt gcactgtata aataaccagg tgtagcatgt atggaaaagc actttatcaa
     1741 tgaaaagttt tcacgagatc aatttacggg gaatagagtt aaaaatattg ccttttcaaa
     1801 ttgtgatttt tcaggggttg atttaactga tactgaattt gttgattgta gtttttacga
     1861 caggaatagc ttggaagggt gtgattttaa tagagccaaa ctaaaaaacg ctagctttaa
     1921 aagctgcgat ttatcaatga gtaattttaa aaacattagc gccttaggtc ttgaaattag
     1981 tgagtgttta gctcaaggag ctgattttcg aggggctaat tttatgaata tgataactac
     2041 aaggtcatgg ttttgtagtg cttatataac caagacaaat cttagttacg ctaatttttc
     2101 tagagtcata ttagaaaagt gcgaactgtg ggaaaatcgc tggaatggca ctgtgataac
     2161 tggcgccgtg tttcgtggct ccgatctttc ttgtggggag ttttcatcgt ttgattggtc
     2221 tttggctgat tttactggtt gtgatttaac gggtggggcg cttggcgagc ttgatgcaag
     2281 gcgaattaat ttagatggag tgaagttgga tggagagcag gcgcttcagc ttgttgagag
     2341 tttaggtgtt attgttcacc gataaaatct aggtaaaaaa cgcctaatgc cccaatgtgg
     2401 tactaatcaa aacggagcga agcgacatct tcatcttgtc tttgcttttc tccatgatca
     2461 gttattgggt catggtctct tagctcgtta atctggctaa gtttggttag gttgggcttc
     2521 tttcgacact tcgcaatcca agaaatccct agtccgttga ttggtgctct tatcaggtac
     2581 gcactgtaat ctttcgatac cgcagcgtga ttcggaggta gagccggaat ttcgttttcc
     2641 ggtacgtttt actaccacaa tttgcctgtt tatcctttcg gag
//
