LOCUS       NZ_CP047348             2683 bp    DNA     circular CON 24-MAY-2024
DEFINITION  Proteus vulgaris strain ZN3 plasmid pZN3-qnrD, complete sequence.
ACCESSION   NZ_CP047348
VERSION     NZ_CP047348.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN13738052
            Assembly: GCF_011045815.1
KEYWORDS    RefSeq.
SOURCE      Proteus vulgaris
  ORGANISM  Proteus vulgaris
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Morganellaceae; Proteus.
REFERENCE   1  (bases 1 to 2683)
  AUTHORS   Peng,K. and Li,R.
  TITLE     The genomic epidemiology of tigecycline resistance gene tet(X)
            variants in a swine farm in China
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 2683)
  AUTHORS   Peng,K. and Li,R.
  TITLE     Direct Submission
  JOURNAL   Submitted (05-JAN-2020) College of Veterinary Medicine, Yangzhou
            University, No. 567, Wenchang Middle Road, Hanjiang District, Yangz,
            Yangzhou, Jiangsu 225000, China
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: Unicycler v. v0.4.4
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 50.0x
            Sequencing Technology :: Oxford Nanopore MiniION; Illumina HiSeq
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_011045815.1-RS_2024_05_24
            Annotation Date                   :: 05/24/2024 02:17:15
            Annotation Pipeline :: NCBI Prokaryotic Genome Annotation Pipeline
            (PGAP)
            Annotation Method :: Best-placed reference protein set; GeneMarkS-2+
            Annotation Software revision      :: 6.7
            Features Annotated                :: Gene; CDS; rRNA; tRNA; ncRNA
            Genes (total)                     :: 4,381
            CDSs (total)                      :: 4,266
            Genes (coding)                    :: 4,196
            CDSs (with protein)               :: 4,196
            Genes (RNA)                       :: 115
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 89
            ncRNAs                            :: 4
            Pseudo Genes (total)              :: 70
            CDSs (without protein)            :: 70
            Pseudo Genes (ambiguous residues) :: 0 of 70
            Pseudo Genes (frameshifted)       :: 19 of 70
            Pseudo Genes (incomplete)         :: 55 of 70
            Pseudo Genes (internal stop)      :: 8 of 70
            Pseudo Genes (multiple problems)  :: 10 of 70
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP047348.1.
            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 vulgaris"
                     /mol_type="genomic DNA"
                     /strain="ZN3"
                     /isolation_source="a nose swab sample of swine origin"
                     /db_xref="taxon:585"
                     /plasmid="pZN3-qnrD"
                     /geo_loc_name="China: Nantong, jiangsu province"
                     /lat_lon="31.41 N 120.11 E"
                     /collection_date="2018-05"
                     /collected_by="College of Veterinary Medicine, Yangzhou
                     University"
     gene            complement(50..694)
                     /locus_tag="GTH24_RS21980"
                     /old_locus_tag="GTH24_21785"
     CDS             complement(50..694)
                     /locus_tag="GTH24_RS21980"
                     /old_locus_tag="GTH24_21785"
                     /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(1655..2095)
                     /locus_tag="GTH24_RS21985"
                     /old_locus_tag="GTH24_21790"
     CDS             complement(1655..2095)
                     /locus_tag="GTH24_RS21985"
                     /old_locus_tag="GTH24_21790"
                     /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(54..694)
                     /name="qnrD1"
                     /gene="qnrD1"
                     /gene_name="quinolone resistance pentapeptide repeat
                     protein QnrD1"
                     /tool="amrfinderplus"
                     /drug_class="QUINOLONE"
                     /identity="100.0"
                     /coverage="100.0"
     Typing          complement(789..944)
                     /name="Col3M"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="98.726"
                     /coverage="100.0"
                     /evalue="4.9300000000000006e-73"
ORIGIN
        1 cgttttgatt agtaccacat tggggcatta ggcgtttttt acctagattt tatcggtgaa
       61 caataacacc taaactctca acaagctgaa gcgcctgctc tccatccaac ttcactccat
      121 ctaaattaat tcgccttgca tcaagctcgc caagcgcccc acccgttaaa tcacaaccag
      181 taaaatcagc caaagaccaa tcaaacgatg aaaactcccc acaagaaaga tcggagccac
      241 gaaacacggc gccagttatc acagtgccat tccagcgatt ttcccacagt tcgcactttt
      301 ctaatatgac tctagaaaaa ttagcgtaac taagatttgt cttggttata taagcactac
      361 aaaaccatga ccttgtagtt atcatattca taaaattagc ccctcgaaaa tcagctcctt
      421 gagctaaaca ctcactaatt tcaagaccta aggcgctaat gtttttaaaa ttactcattg
      481 ataaatcgca gcttttaaag ctagcgtttt ttagtttggc tctattaaaa tcacaccctt
      541 ccaagctatt cctgtcgtaa aaactacaat caacaaattc agtatcagtt aaatcaaccc
      601 ctgaaaaatc acaatttgaa aaggcaatat ttttaactct attccccgta aattgatctc
      661 gtgaaaactt ttcattgata aagtgctttt ccatacatgc tacacctggt tatttataca
      721 gtgcaatcat tgtacattaa tttgaacaac cttaaactct agctaaaatt ggttcataca
      781 atccctttta tgttaaacgg gcgagttagt tagcaaaaac cgcccgttca tccccattaa
      841 agcccctcga aacgatttta agacacgatc accctataaa acacccaaat ctacgctgaa
      901 agtttagaac ggttttgcgg gcttctgagt gcgtttttaa catcgtgcaa actgacaagt
      961 aaaacgatgc gaaatcgctg aaagtcacaa acttgttttg tggcaagaag cgatttgacc
     1021 aaccgagtaa aacgagggcg gtaggctttt tgtttttatc ctgatgagcg tccagcgaag
     1081 aaagggaaaa acagggggag ccgaaacgaa atgacacgcc ccagcgatgg caagtgaacc
     1141 ccagtgaacg tgtttcgttt tgggggcaaa gccccccgtc aagcgaagcg tctgaccacc
     1201 acatttttga gcgaccaaat acaggggcga aaaaaggggg tggtcagacg aacgcagtga
     1261 gtttgacggg cttgggtgaa tggttttttt cgcaggcgtc cagccgaaga aaatagccag
     1321 agggcggagc cttatgtcat tcattttcgt ccagaaaatg agtggcattg atactgaaag
     1381 tatcatgggg tgcaagttag taaaactatg attctaccca ttatttcacc cgttattctg
     1441 cccgttatac ctaaattggg tgcaataacg ggtaaagtaa taggtagaat aacaggtgga
     1501 ttaatgggta agaaataaca caacgtcatc ttgtgtctat ctattattct gtatcttatt
     1561 ctatgtatta ttctacctat tacagacgaa atagataaaa taagagatag aataatagat
     1621 aggataatac ataaaataat aggtaaacct aacgtcagcg caccttttct tcgagctgtt
     1681 ttagcatcga aatatcacct aataaccgtt gatttttacc tgtgaaaaag atgatcggac
     1741 tgacatttgc attatcaata cttcggctta actgaattcc catcgcctga taatcatcat
     1801 cgtttgtgca atggtataac gctaaaacaa gctgacattg ttctggagtt ccgcattcta
     1861 ttgcccagcg gatcaactcc gaaaaggtca atccgttcgg tttccagtgt tttttatgcc
     1921 gtgacgctaa cgccttaaat ttttcacgcc cttgattata tttttctgcc ccgatcaccg
     1981 gatcttcaca acgaacccct tgaaccggtc gcttatcaaa tgacaattcc cataaattta
     2041 attcttcgat gtattcgtaa tcttctggcg atgccaaacg aaataattga gacatagaga
     2101 caccctccga tcatgtgtga acggagacag tataaggctt tcgagaaatt ccgcttcctc
     2161 gacgtgaaac aagttcacgc cttgcggcga gcgttgcgaa ttgaatttat gaggtttacc
     2221 aagctccaga tgtaacaaag ccccgtgaca gcatcacagg gctctggtac tctaaatctt
     2281 gtgcattcgt tgctcagatt agacgtcgca atccaatctt agcaacgtga gaggcgcttg
     2341 tcacgttctc attaaatacc agccaacgac attaacccaa atgcaccact tgattgactc
     2401 ggacttagcc cggtctccga aaggataaac aggcaaattg tggtagtaaa acgtaccgga
     2461 aaacgaaatt ccggctctac ctccgaatca cgctgcggta tcgaaagatt acagtgcgta
     2521 cctgataaga gcaccaatca acggactagg gatttcttgg attgcgaagt gtcgaaagaa
     2581 gcccaaccta accaaactta gccagattaa cgagctaaga gaccatgacc caataactga
     2641 tcatggagaa aagcaaagac aagatgaaga tgtcgcttcg ctc
//
