LOCUS       NZ_CP137215             2683 bp    DNA     circular CON 26-JAN-2024
DEFINITION  Proteus mirabilis strain PM22 plasmid pPM22-2, complete sequence.
ACCESSION   NZ_CP137215
VERSION     NZ_CP137215.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN37935180
            Assembly: GCF_033170405.1
KEYWORDS    RefSeq.
SOURCE      Proteus mirabilis
  ORGANISM  Proteus mirabilis
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Morganellaceae; Proteus.
REFERENCE   1  (bases 1 to 2683)
  AUTHORS   Li,X.
  TITLE     Proteus mirabilis PM22 Genome sequencing and assembly
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 2683)
  AUTHORS   Li,X.
  TITLE     Direct Submission
  JOURNAL   Submitted (24-OCT-2023) Laboratory Medicine Center, Department of
            Clinical Laboratory, Zhejiang Provincial People's Hospital
            (Affiliated People's Hospital, Hangzhou Medical College), Shangtang
            road, Hangzhou 310014, China
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: Unicycler v. v0.4.8
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 200.0x
            Sequencing Technology             :: Oxford Nanopore
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 01/24/2024 10:02:03
            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)                     :: 3,726
            CDSs (total)                      :: 3,616
            Genes (coding)                    :: 3,565
            CDSs (with protein)               :: 3,565
            Genes (RNA)                       :: 110
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 84
            ncRNAs                            :: 4
            Pseudo Genes (total)              :: 51
            CDSs (without protein)            :: 51
            Pseudo Genes (ambiguous residues) :: 0 of 51
            Pseudo Genes (frameshifted)       :: 12 of 51
            Pseudo Genes (incomplete)         :: 39 of 51
            Pseudo Genes (internal stop)      :: 8 of 51
            Pseudo Genes (multiple problems)  :: 7 of 51
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP137215.1.
            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="Proteus mirabilis"
                     /mol_type="genomic DNA"
                     /strain="PM22"
                     /isolation_source="urine"
                     /host="Homo sapiens"
                     /db_xref="taxon:584"
                     /plasmid="pPM22-2"
                     /geo_loc_name="China:Hangzhou"
                     /lat_lon="29.86 N 121.56 E"
                     /collection_date="2019-08-09"
                     /collected_by="Longjie Zhou"
     gene            complement(join(2430..2683,1..391))
                     /locus_tag="R4T28_RS18010"
                     /old_locus_tag="R4T28_18010"
     CDS             complement(join(2430..2683,1..391))
                     /locus_tag="R4T28_RS18010"
                     /old_locus_tag="R4T28_18010"
                     /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"
     gene            complement(1352..1792)
                     /locus_tag="R4T28_RS18015"
                     /old_locus_tag="R4T28_18015"
     CDS             complement(1352..1792)
                     /locus_tag="R4T28_RS18015"
                     /old_locus_tag="R4T28_18015"
                     /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"
     ARG             complement(2431..2681)
                     /name="QnrD1"
                     /gene="QnrD1"
                     /gene_name="quinolone resistance protein (qnr)"
                     /tool="rgi"
                     /drug_class="fluoroquinolone antibiotic"
                     /identity="100.0"
                     /coverage="38.79"
     ARG             complement(3..391)
                     /name="QnrD1"
                     /gene="QnrD1"
                     /gene_name="quinolone resistance protein (qnr)"
                     /tool="rgi"
                     /drug_class="fluoroquinolone antibiotic"
                     /identity="100.0"
                     /coverage="60.75"
     Typing          complement(486..641)
                     /name="Col3M"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="98.089"
                     /coverage="100.0"
                     /evalue="2.29e-71"
ORIGIN
        1 atatgactct agaaaaatta gcgtaactaa gatttgtctt ggttatataa gcactacaaa
       61 accatgacct tgtagttatc atattcataa aattagcccc tcgaaaatca gctccttgag
      121 ctaaacactc actaatttca agacctaagg cgctaatgtt tttaaaatta ctcattgata
      181 aatcgcagct tttaaagcta gcgtttttta gtttggctct attaaaatca cacccttcca
      241 agctattcct gtcgtaaaaa ctacaatcaa caaattcagt atcagttaaa tcaacccctg
      301 aaaaatcaca atttgaaaag gcaatatttt taactctatt ccccgtaaat tgatctcgtg
      361 aaaacttttc attgataaag tgcttttcca tacatgctac acctggttat ttatacagtg
      421 caatcattgt acattaattt gaacaacctt aaactctagc taaaattgat tcatacaatc
      481 ccttttatgt taaacgggcg agttagttag caaaaacctc ccgttcatcc ccattaaagc
      541 ccctcgaaac gattttaaga cacgatcacc ctataaaaca cccaaatcta cgctgaaagt
      601 ttagaacggt tttgcgggct tctgagtgcg tttttaacat cgtgcaaact gacaagtaaa
      661 acgatgcgaa atcgctgaaa gtcacaaact tgttttgtgg caagaagcga tttgaccaac
      721 cgagtaaaac gagggcggta ggctttttgt ttttatcctg atgagcgtcc agcgaagaaa
      781 gggaaaaaca gggggagccg aaacgaaatg acacgcccca gcgatggcaa gtgaacccca
      841 gtgaacgtgt ttcgttttgg gggcaaagcc ccccgtcaag cgaagcgtct gaccaccaca
      901 tttttgagcg accaaataca ggggcgaaaa aagggggtgg tcagacgaac gcagtgagtt
      961 tgacgggctt gggtgaatgg tttttttcgc aggcgtccag ccgaagaaaa tagccagagg
     1021 gcggagcctt atgtcattca ttttcgtcca gaaaatgagt ggcattgata ctgaaagtat
     1081 catggggtgc aagttagtaa aactatgatt ctacccatta tttcacccgt tattctgccc
     1141 gttataccta aattgggtgc aataacgggt aaagtaatag gtagaataac aggtggatta
     1201 atgggtaaga aataacacaa cgtcatcttg tgtctatcta ttattctgta tcttattcta
     1261 tgtattattc tacctattac agacgaaata gataaaataa gagatagaat aatagatagg
     1321 ataatacata aaataatagg taaacctaac gtcagcgcac cttttcttcg agctgtttta
     1381 gcatcgaaat atcacctaat aaccgttgat ttttacctgt gaaaaagatg atcggactga
     1441 catttgcatt atcaatactt cggcttaact gaattcccat cgcctgataa tcatcatcgt
     1501 ttgtgcaatg gtataacgct aaaacaagct gacattgttc tggagttccg cattctattg
     1561 cccagcggat caactccgaa aaggtcaatc cgttcggttt ccagtgtttt ttatgccgtg
     1621 acgctaacgc cttaaatttt tcacgccctt gattatattt ttctgccccg atcaccggat
     1681 cttcacaacg aaccccttga accggtcgct tatcaaatga caattcccat aaatttaatt
     1741 cttcgatgta ttcgtaatct tctggcgatg ccaaacgaaa taattgagac atagagacac
     1801 cctccgatca tgtgtgaacg gagacagtat aaggctttcg agaaattccg cttcctcgac
     1861 gtgaaacaag ttcacgcctt gcggcgagcg ttgcgaattg aatttatgag gtttaccaag
     1921 ctccagatgt aacaaagccc cgtgacagca tcacagggct ctggtactct aaatcttgtg
     1981 cattcgttgc tcagattaga cgtcgcaatc caatcttagc aacgtgagag gcgcttgtca
     2041 cgttctcatt aaataccagc caacgacatt aacccaaatg caccacttga ttgactcgga
     2101 cttagcccgg tctccgaaag gataaacagg caaattgtgg tagtaaaacg taccggaaaa
     2161 cgaaattccg gctctacctc cgaatcacgc tgcggtatcg aaagattaca gtgcgtacct
     2221 gataagagca ccaatcaacg gactagggat ttcttggatt gcgaagtgtc gaaagaagcc
     2281 caacctaacc aaacttagcc agattaacga gctaagagac catgacccaa taactgatca
     2341 tggagaaaag caaagacaag atgaagatgt cgcttcgctc cgttttgatt agtaccacat
     2401 tggggcatta ggcgtttttt acctagattt tatcggtgaa caataacacc taaactctca
     2461 acaagctgaa gcgcctgctc tccatccaac ttcactccat ctaaattaat tcgccttgca
     2521 tcaagctcgc caagcgcccc acccgttaaa tcacaaccag taaaatcagc caaagaccaa
     2581 tcaaacgatg aaaactcccc acaagaaaga tcggagccac gaaacacggc gccagttatc
     2641 acagtgccat tccagcgatt ttcccacagt tcgcactttt cta
//
