LOCUS       NZ_CP085484             2683 bp    DNA     circular CON 23-NOV-2023
DEFINITION  Proteus sp. NMG38-2 plasmid p2_NMG38-2, complete sequence.
ACCESSION   NZ_CP085484
VERSION     NZ_CP085484.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN22185037
            Assembly: GCF_020640995.1
KEYWORDS    RefSeq.
SOURCE      Proteus sp. NMG38-2
  ORGANISM  Proteus sp. NMG38-2
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Morganellaceae; Proteus.
REFERENCE   1  (bases 1 to 2683)
  AUTHORS   Zhang,L. and Li,Y.
  TITLE     Genome sequencing and assembly of Proteus sp. NMG38-2
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 2683)
  AUTHORS   Zhang,L. and Li,Y.
  TITLE     Direct Submission
  JOURNAL   Submitted (19-OCT-2021) Department of pathogenic biology, Southwest
            Medical University, No.1 Section 1, Xiang Lin Road, Longmatan
            District, Luzhou, Sichuan 646000, China
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Date                     :: AUG-2021
            Assembly Method                   :: Unicycler v. 0.4.9
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 210.0x
            Sequencing Technology             :: Oxford Nanopore
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 11/23/2023 04:34:13
            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)                     :: 4,437
            CDSs (total)                      :: 4,325
            Genes (coding)                    :: 4,275
            CDSs (with protein)               :: 4,275
            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)              :: 50
            CDSs (without protein)            :: 50
            Pseudo Genes (ambiguous residues) :: 0 of 50
            Pseudo Genes (frameshifted)       :: 12 of 50
            Pseudo Genes (incomplete)         :: 36 of 50
            Pseudo Genes (internal stop)      :: 8 of 50
            Pseudo Genes (multiple problems)  :: 6 of 50
            CRISPR Arrays                     :: 1
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP085484.1.
            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 sp. NMG38-2"
                     /mol_type="genomic DNA"
                     /strain="NMG38-2"
                     /isolation_source="feces of swine"
                     /host="swine"
                     /db_xref="taxon:2883107"
                     /plasmid="p2_NMG38-2"
                     /geo_loc_name="China: Inner Mongolia"
                     /lat_lon="39.37 N 109.16 E"
                     /collection_date="2018-12"
                     /collected_by="Luhua Zhang"
     gene            join(2230..2683,1..191)
                     /locus_tag="LG402_RS22200"
                     /old_locus_tag="LG402_22195"
     CDS             join(2230..2683,1..191)
                     /locus_tag="LG402_RS22200"
                     /old_locus_tag="LG402_22195"
                     /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            829..1269
                     /locus_tag="LG402_RS22205"
                     /old_locus_tag="LG402_22200"
     CDS             829..1269
                     /locus_tag="LG402_RS22205"
                     /old_locus_tag="LG402_22200"
                     /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             2231..2682
                     /name="QnrD1"
                     /gene="QnrD1"
                     /gene_name="quinolone resistance protein (qnr)"
                     /tool="rgi"
                     /drug_class="fluoroquinolone antibiotic"
                     /identity="100.0"
                     /coverage="70.56"
     ARG             4..191
                     /name="QnrD1"
                     /gene="QnrD1"
                     /gene_name="quinolone resistance protein (qnr)"
                     /tool="rgi"
                     /drug_class="fluoroquinolone antibiotic"
                     /identity="100.0"
                     /coverage="28.97"
     Typing          1981..2136
                     /name="Col3M"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="98.089"
                     /coverage="100.0"
                     /evalue="2.29e-71"
ORIGIN
        1 gtggctccga tctttcttgt ggggagtttt catcgtttga ttggtctttg gctgatttta
       61 ctggttgtga tttaacgggt ggggcgcttg gcgagcttga tgcaaggcga attaatttag
      121 atggagtgaa gttggatgga gagcaggcgc ttcagcttgt tgagagttta ggtgttattg
      181 ttcaccgata aaatctaggt aaaaaacgcc taatgcccca atgtggtact aatcaaaacg
      241 gagcgaagcg acatcttcat cttgtctttg cttttctcca tgatcagtta ttgggtcatg
      301 gtctcttagc tcgttaatct ggctaagttt ggttaggttg ggcttctttc gacacttcgc
      361 aatccaagaa atccctagtc cgttgattgg tgctcttatc aggtacgcac tgtaatcttt
      421 cgataccgca gcgtgattcg gaggtagagc cggaatttcg ttttccggta cgttttacta
      481 ccacaatttg cctgtttatc ctttcggaga ccgggctaag tccgagtcaa tcaagtggtg
      541 catttgggtt aatgtcgttg gctggtattt aatgagaacg tgacaagcgc ctctcacgtt
      601 gctaagattg gattgcgacg tctaatctga gcaacgaatg cacaagattt agagtaccag
      661 agccctgtga tgctgtcacg gggctttgtt acatctggag cttggtaaac ctcataaatt
      721 caattcgcaa cgctcgccgc aaggcgtgaa cttgtttcac gtcgaggaag cggaatttct
      781 cgaaagcctt atactgtctc cgttcacaca tgatcggagg gtgtctctat gtctcaatta
      841 tttcgtttgg catcgccaga agattacgaa tacatcgaag aattaaattt atgggaattg
      901 tcatttgata agcgaccggt tcaaggggtt cgttgtgaag atccggtgat cggggcagaa
      961 aaatataatc aagggcgtga aaaatttaag gcgttagcgt cacggcataa aaaacactgg
     1021 aaaccgaacg gattgacctt ttcggagttg atccgctggg caatagaatg cggaactcca
     1081 gaacaatgtc agcttgtttt agcgttatac cattgcacaa acgatgatga ttatcaggcg
     1141 atgggaattc agttaagccg aagtattgat aatgcaaatg tcagtccgat catctttttc
     1201 acaggtaaaa atcaacggtt attaggtgat atttcgatgc taaaacagct cgaagaaaag
     1261 gtgcgctgac gttaggttta cctattattt tatgtattat cctatctatt attctatctc
     1321 ttattttatc tatttcgtct gtaataggta gaataataca tagaataaga tacagaataa
     1381 tagatagaca caagatgacg ttgtgttatt tcttacccat taatccacct gttattctac
     1441 ctattacttt acccgttatt gcacccaatt taggtataac gggcagaata acgggtgaaa
     1501 taatgggtag aatcatagtt ttactaactt gcaccccatg atactttcag tatcaatgcc
     1561 actcattttc tggacgaaaa tgaatgacat aaggctccgc cctctggcta ttttcttcgg
     1621 ctggacgcct gcgaaaaaaa ccattcaccc aagcccgtca aactcactgc gttcgtctga
     1681 ccaccccctt ttttcgcccc tgtatttggt cgctcaaaaa tgtggtggtc agacgcttcg
     1741 cttgacgggg ggctttgccc ccaaaacgaa acacgttcac tggggttcac ttgccatcgc
     1801 tggggcgtgt catttcgttt cggctccccc tgtttttccc tttcttcgct ggacgctcat
     1861 caggataaaa acaaaaagcc taccgccctc gttttactcg gttggtcaaa tcgcttcttg
     1921 ccacaaaaca agtttgtgac tttcagcgat ttcgcatcgt tttacttgtc agtttgcacg
     1981 atgttaaaaa cgcactcaga agcccgcaaa accgttctaa actttcagcg tagatttggg
     2041 tgttttatag ggtgatcgtg tcttaaaatc gtttcgaggg gctttaatgg ggatgaacgg
     2101 gaggtttttg ctaactaact cgcccgttta acataaaagg gattgtatga atcaatttta
     2161 gctagagttt aaggttgttc aaattaatgt acaatgattg cactgtataa ataaccaggt
     2221 gtagcatgta tggaaaagca ctttatcaat gaaaagtttt cacgagatca atttacgggg
     2281 aatagagtta aaaatattgc cttttcaaat tgtgattttt caggggttga tttaactgat
     2341 actgaatttg ttgattgtag tttttacgac aggaatagct tggaagggtg tgattttaat
     2401 agagccaaac taaaaaacgc tagctttaaa agctgcgatt tatcaatgag taattttaaa
     2461 aacattagcg ccttaggtct tgaaattagt gagtgtttag ctcaaggagc tgattttcga
     2521 ggggctaatt ttatgaatat gataactaca aggtcatggt tttgtagtgc ttatataacc
     2581 aagacaaatc ttagttacgc taatttttct agagtcatat tagaaaagtg cgaactgtgg
     2641 gaaaatcgct ggaatggcac tgtgataact ggcgccgtgt ttc
//
