LOCUS       NZ_CP116622             2683 bp    DNA     circular CON 01-MAR-2024
DEFINITION  Proteus terrae strain TP22 plasmid pTP22-1, complete sequence.
ACCESSION   NZ_CP116622
VERSION     NZ_CP116622.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN31527004
            Assembly: GCF_028335805.1
KEYWORDS    RefSeq.
SOURCE      Proteus terrae
  ORGANISM  Proteus terrae
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Morganellaceae; Proteus.
REFERENCE   1  (bases 1 to 2683)
  AUTHORS   ruichao Li,y.L.
  TITLE     Dissemination of mobilizable tigecycline-resistance gene cluster
            tmexCD-toprJ in Proteus spp
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 2683)
  AUTHORS   ruichao Li,y.L.
  TITLE     Direct Submission
  JOURNAL   Submitted (18-JAN-2023) College of Veterinary Medicine, Yangzhou
            university, Shuang Qiao Street, Yangzhou, Jiangsu 225009, China
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: unicycler v. v. v0.4.8
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 100.0x
            Sequencing Technology :: Oxford Nanopore MinION; Illumina HiSeq
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 03/01/2024 01:47:57
            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)                     :: 3,795
            CDSs (total)                      :: 3,682
            Genes (coding)                    :: 3,654
            CDSs (with protein)               :: 3,654
            Genes (RNA)                       :: 113
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 87
            ncRNAs                            :: 4
            Pseudo Genes (total)              :: 28
            CDSs (without protein)            :: 28
            Pseudo Genes (ambiguous residues) :: 0 of 28
            Pseudo Genes (frameshifted)       :: 9 of 28
            Pseudo Genes (incomplete)         :: 18 of 28
            Pseudo Genes (internal stop)      :: 7 of 28
            Pseudo Genes (multiple problems)  :: 6 of 28
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP116622.1.
            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 terrae"
                     /mol_type="genomic DNA"
                     /strain="TP22"
                     /isolation_source="animal feces"
                     /db_xref="taxon:1574161"
                     /plasmid="pTP22-1"
                     /geo_loc_name="China: Jiangsu Province"
                     /lat_lon="32.39 N 119.42 E"
                     /collection_date="2020-10"
                     /collected_by="College of Veterinary Medicine, Yangzhou
                     University"
     gene            complement(66..506)
                     /locus_tag="ONR67_RS18970"
                     /old_locus_tag="ONR67_18970"
     CDS             complement(66..506)
                     /locus_tag="ONR67_RS18970"
                     /old_locus_tag="ONR67_18970"
                     /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            complement(1144..1788)
                     /locus_tag="ONR67_RS18975"
                     /old_locus_tag="ONR67_18975"
     CDS             complement(1144..1788)
                     /locus_tag="ONR67_RS18975"
                     /old_locus_tag="ONR67_18975"
                     /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             complement(1148..1788)
                     /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(1883..2038)
                     /name="Col3M"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="98.089"
                     /coverage="100.0"
                     /evalue="2.29e-71"
ORIGIN
        1 aatagataaa ataagagata gaataataga taggataata cataaaataa taggtaaacc
       61 taacgtcagc gcaccttttc ttcgagctgt tttagcatcg aaatatcacc taataaccgt
      121 tgatttttac ctgtgaaaaa gatgatcgga ctgacatttg cattatcaat acttcggctt
      181 aactgaattc ccatcgcctg ataatcatca tcgtttgtgc aatggtataa cgctaaaaca
      241 agctgacatt gttctggagt tccgcattct attgcccagc ggatcaactc cgaaaaggtc
      301 aatccgttcg gtttccagtg ttttttatgc cgtgacgcta acgccttaaa tttttcacgc
      361 ccttgattat atttttctgc cccgatcacc ggatcttcac aacgaacccc ttgaaccggt
      421 cgcttatcaa atgacaattc ccataaattt aattcttcga tgtattcgta atcttctggc
      481 gatgccaaac gaaataattg agacatagag acaccctccg atcatgtgtg aacggagaca
      541 gtataaggct ttcgagaaat tccgcttcct cgacgtgaaa caagttcacg ccttgcggcg
      601 agcgttgcga attgaattta tgaggtttac caagctccag atgtaacaaa gccccgtgac
      661 agcatcacag ggctctggta ctctaaatct tgtgcattcg ttgctcagat tagacgtcgc
      721 aatccaatct tagcaacgtg agaggcgctt gtcacgttct cattaaatac cagccaacga
      781 cattaaccca aatgcaccac ttgattgact cggacttagc ccggtctccg aaaggataaa
      841 caggcaaatt gtggtagtaa aacgtaccgg aaaacgaaat tccggctcta cctccgaatc
      901 acgctgcggt atcgaaagat tacagtgcgt acctgataag agcaccaatc aacggactag
      961 ggatttcttg gattgcgaag tgtcgaaaga agcccaacct aaccaaactt agccagatta
     1021 acgagctaag agaccatgac ccaataactg atcatggaga aaagcaaaga caagatgaag
     1081 atgtcgcttc gctccgtttt gattagtacc acattggggc attaggcgtt ttttacctag
     1141 attttatcgg tgaacaataa cacctaaact ctcaacaagc tgaagcgcct gctctccatc
     1201 caacttcact ccatctaaat taattcgcct tgcatcaagc tcgccaagcg ccccacccgt
     1261 taaatcacaa ccagtaaaat cagccaaaga ccaatcaaac gatgaaaact ccccacaaga
     1321 aagatcggag ccacgaaaca cggcgccagt tatcacagtg ccattccagc gattttccca
     1381 cagttcgcac ttttctaata tgactctaga aaaattagcg taactaagat ttgtcttggt
     1441 tatataagca ctacaaaacc atgaccttgt agttatcata ttcataaaat tagcccctcg
     1501 aaaatcagct ccttgagcta aacactcact aatttcaaga cctaaggcgc taatgttttt
     1561 aaaattactc attgataaat cgcagctttt aaagctagcg ttttttagtt tggctctatt
     1621 aaaatcacac ccttccaagc tattcctgtc gtaaaaacta caatcaacaa attcagtatc
     1681 agttaaatca acccctgaaa aatcacaatt tgaaaaggca atatttttaa ctctattccc
     1741 cgtaaattga tctcgtgaaa acttttcatt gataaagtgc ttttccatac atgctacacc
     1801 tggttattta tacagtgcaa tcattgtaca ttaatttgaa caaccttaaa ctctagctaa
     1861 aattgattca tacaatccct tttatgttaa acgggcgagt tagttagcaa aaacctcccg
     1921 ttcatcccca ttaaagcccc tcgaaacgat tttaagacac gatcacccta taaaacaccc
     1981 aaatctacgc tgaaagttta gaacggtttt gcgggcttct gagtgcgttt ttaacatcgt
     2041 gcaaactgac aagtaaaacg atgcgaaatc gctgaaagtc acaaacttgt tttgtggcaa
     2101 gaagcgattt gaccaaccga gtaaaacgag ggcggtaggc tttttgtttt tatcctgatg
     2161 agcgtccagc gaagaaaggg aaaaacaggg ggagccgaaa cgaaatgaca cgccccagcg
     2221 atggcaagtg aaccccagtg aacgtgtttc gttttggggg caaagccccc cgtcaagcga
     2281 agcgtctgac caccacattt ttgagcgacc aaatacaggg gcgaaaaaag ggggtggtca
     2341 gacgaacgca gtgagtttga cgggcttggg tgaatggttt ttttcgcagg cgtccagccg
     2401 aagaaaatag ccagagggcg gagccttatg tcattcattt tcgtccagaa aatgagtggc
     2461 attgatactg aaagtatcat ggggtgcaag ttagtaaaac tatgattcta cccattattt
     2521 cacccgttat tctgcccgtt atacctaaat tgggtgcaat aacgggtaaa gtaataggta
     2581 gaataacagg tggattaatg ggtaagaaat aacacaacgt catcttgtgt ctatctatta
     2641 ttctgtatct tattctatgt attattctac ctattacaga cga
//
