LOCUS       NZ_CP045011             2683 bp    DNA     circular CON 31-MAR-2024
DEFINITION  Proteus terrae subsp. cibarius strain ZF2 plasmid pZF2-qnrD,
            complete sequence.
ACCESSION   NZ_CP045011
VERSION     NZ_CP045011.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN12990251
            Assembly: GCF_009740265.1
KEYWORDS    RefSeq.
SOURCE      Proteus terrae subsp. cibarius
  ORGANISM  Proteus terrae subsp. cibarius
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Morganellaceae; Proteus.
REFERENCE   1  (bases 1 to 2683)
  AUTHORS   Peng,K., Li,R., He,T., Liu,Y. and Wang,Z.
  TITLE     Characterization of a porcine Proteus cibarius strain co-harbouring
            tet(X6) and cfr
  JOURNAL   J. Antimicrob. Chemother. (2020) In press
  REMARK    Publication Status: Available-Online prior to print
REFERENCE   2  (bases 1 to 2683)
  AUTHORS   Peng,K.
  TITLE     Direct Submission
  JOURNAL   Submitted (08-OCT-2019) 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                   :: 100.0x
            Sequencing Technology :: Oxford Nanopore MiniION; Illumina HiSeq
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_009740265.1-RS_2024_03_31
            Annotation Date                   :: 03/31/2024 04:37:39
            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)                     :: 4,036
            CDSs (total)                      :: 3,924
            Genes (coding)                    :: 3,880
            CDSs (with protein)               :: 3,880
            Genes (RNA)                       :: 112
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 86
            ncRNAs                            :: 4
            Pseudo Genes (total)              :: 44
            CDSs (without protein)            :: 44
            Pseudo Genes (ambiguous residues) :: 0 of 44
            Pseudo Genes (frameshifted)       :: 18 of 44
            Pseudo Genes (incomplete)         :: 23 of 44
            Pseudo Genes (internal stop)      :: 10 of 44
            Pseudo Genes (multiple problems)  :: 6 of 44
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP045011.1.
            Annotation modified by submitter.
            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 terrae subsp. cibarius"
                     /mol_type="genomic DNA"
                     /strain="ZF2"
                     /isolation_source="a feces sample of swine origin"
                     /sub_species="cibarius"
                     /db_xref="taxon:626774"
                     /plasmid="pZF2-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            366..806
                     /locus_tag="F9282_RS20175"
                     /old_locus_tag="F9282_20220"
     CDS             366..806
                     /locus_tag="F9282_RS20175"
                     /old_locus_tag="F9282_20220"
                     /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            1767..2411
                     /locus_tag="F9282_RS20180"
                     /old_locus_tag="F9282_20225"
     CDS             1767..2411
                     /locus_tag="F9282_RS20180"
                     /old_locus_tag="F9282_20225"
                     /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             1768..2408
                     /name="qnrD1"
                     /gene="qnrD1"
                     /gene_name="quinolone resistance pentapeptide repeat
                     protein QnrD1"
                     /tool="amrfinderplus"
                     /drug_class="QUINOLONE"
                     /identity="100.0"
                     /coverage="100.0"
     Typing          1518..1673
                     /name="Col3M"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="98.089"
                     /coverage="100.0"
                     /evalue="2.29e-71"
ORIGIN
        1 tccggtacgt tttactacca caatttgcct gtttatcctt tcggagaccg ggctaagtcc
       61 gagtcaatca agtggtgcat ttgggttaat gtcgttggct ggtatttaat gagaacgtga
      121 caagcgcctc tcacgttgct aagattggat tgcgacgtct aatctgagca acgaatgcac
      181 aagatttaga gtaccagagc cctgtgatgc tgtcacgggg ctttgttaca tctggagctt
      241 ggtaaacctc ataaattcaa ttcgcaacgc tcgccgcaag gcgtgaactt gtttcacgtc
      301 gaggaagcgg aatttctcga aagccttata ctgtctccgt tcacacatga tcggagggtg
      361 tctctatgtc tcaattattt cgtttggcat cgccagaaga ttacgaatac atcgaagaat
      421 taaatttatg ggaattgtca tttgataagc gaccggttca aggggttcgt tgtgaagatc
      481 cggtgatcgg ggcagaaaaa tataatcaag ggcgtgaaaa atttaaggcg ttagcgtcac
      541 ggcataaaaa acactggaaa ccgaacggat tgaccttttc ggagttgatc cgctgggcaa
      601 tagaatgcgg aactccagaa caatgtcagc ttgttttagc gttataccat tgcacaaacg
      661 atgatgatta tcaggcgatg ggaattcagt taagccgaag tattgataat gcaaatgtca
      721 gtccgatcat ctttttcaca ggtaaaaatc aacggttatt aggtgatatt tcgatgctaa
      781 aacagctcga agaaaaggtg cgctgacgtt aggtttacct attattttat gtattatcct
      841 atctattatt ctatctctta ttttatctat ttcgtctgta ataggtagaa taatacatag
      901 aataagatac agaataatag atagacacaa gatgacgttg tgttatttct tacccattaa
      961 tccacctgtt attctaccta ttactttacc cgttattgca cccaatttag gtataacggg
     1021 cagaataacg ggtgaaataa tgggtagaat catagtttta ctaacttgca ccccatgata
     1081 ctttcagtat caatgccact cattttctgg acgaaaatga atgacataag gctccgccct
     1141 ctggctattt tcttcggctg gacgcctgcg aaaaaaacca ttcacccaag cccgtcaaac
     1201 tcactgcgtt cgtctgacca cccccttttt tcgcccctgt atttggtcgc tcaaaaatgt
     1261 ggtggtcaga cgcttcgctt gacggggggc tttgccccca aaacgaaaca cgttcactgg
     1321 ggttcacttg ccatcgctgg ggcgtgtcat ttcgtttcgg ctccccctgt ttttcccttt
     1381 cttcgctgga cgctcatcag gataaaaaca aaaagcctac cgccctcgtt ttactcggtt
     1441 ggtcaaatcg cttcttgcca caaaacaagt ttgtgacttt cagcgatttc gcatcgtttt
     1501 acttgtcagt ttgcacgatg ttaaaaacgc actcagaagc ccgcaaaacc gttctaaact
     1561 ttcagcgtag atttgggtgt tttatagggt gatcgtgtct taaaatcgtt tcgaggggct
     1621 ttaatgggga tgaacgggag gtttttgcta actaactcgc ccgtttaaca taaaagggat
     1681 tgtatgaatc aattttagct agagtttaag gttgttcaaa ttaatgtaca atgattgcac
     1741 tgtataaata accaggtgta gcatgtatgg aaaagcactt tatcaatgaa aagttttcac
     1801 gagatcaatt tacggggaat agagttaaaa atattgcctt ttcaaattgt gatttttcag
     1861 gggttgattt aactgatact gaatttgttg attgtagttt ttacgacagg aatagcttgg
     1921 aagggtgtga ttttaataga gccaaactaa aaaacgctag ctttaaaagc tgcgatttat
     1981 caatgagtaa ttttaaaaac attagcgcct taggtcttga aattagtgag tgtttagctc
     2041 aaggagctga ttttcgaggg gctaatttta tgaatatgat aactacaagg tcatggtttt
     2101 gtagtgctta tataaccaag acaaatctta gttacgctaa tttttctaga gtcatattag
     2161 aaaagtgcga actgtgggaa aatcgctgga atggcactgt gataactggc gccgtgtttc
     2221 gtggctccga tctttcttgt ggggagtttt catcgtttga ttggtctttg gctgatttta
     2281 ctggttgtga tttaacgggt ggggcgcttg gcgagcttga tgcaaggcga attaatttag
     2341 atggagtgaa gttggatgga gagcaggcgc ttcagcttgt tgagagttta ggtgttattg
     2401 ttcaccgata aaatctaggt aaaaaacgcc taatgcccca atgtggtact aatcaaaacg
     2461 gagcgaagcg acatcttcat cttgtctttg cttttctcca tgatcagtta ttgggtcatg
     2521 gtctcttagc tcgttaatct ggctaagttt ggttaggttg ggcttctttc gacacttcgc
     2581 aatccaagaa atccctagtc cgttgattgg tgctcttatc aggtacgcac tgtaatcttt
     2641 cgataccgca gcgtgattcg gaggtagagc cggaatttcg ttt
//
