LOCUS       NZ_CP135053             2683 bp    DNA     circular CON 09-JUN-2024
DEFINITION  Providencia hangzhouensis strain PR-310 plasmid pPR-310_2, complete
            sequence.
ACCESSION   NZ_CP135053
VERSION     NZ_CP135053.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN33574144
            Assembly: GCF_029193595.2
KEYWORDS    RefSeq.
SOURCE      Providencia hangzhouensis
  ORGANISM  Providencia hangzhouensis
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Morganellaceae; Providencia.
REFERENCE   1  (bases 1 to 2683)
  AUTHORS   Dong,X., Yu,Y., Liu,J., Cao,D., Xiang,Y., Bi,K., Yuan,X., Li,S.,
            Wu,T. and Zhang,Y.
  TITLE     Whole-genome sequencing provides insights into a novel species:
            Providencia hangzhouensis associated with urinary tract infections
  JOURNAL   Microbiol Spectr 11 (5), e0122723 (2023)
   PUBMED   37732781
  REMARK    Erratum:[Microbiol Spectr. 2024 May 23:e0090524. doi:
            10.1128/spectrum.00905-24. PMID: 38780284] Publication Status:
            Available-Online prior to print
REFERENCE   2  (bases 1 to 2683)
  AUTHORS   Dong,X.
  TITLE     Direct Submission
  JOURNAL   Submitted (06-JUL-2023) State Key Laboratory for Diagnosis and
            Treatment of Infectious Diseases, National Clinical Research Center
            for Infectious Diseases, Collaborative Innovation Center for
            Diagnosis and Treatment of Infectious Diseases, The First Affiliated
            Hospital, Zhejiang University School of Medicine, huajiachi,
            Hangzhou, Zhejiang 310000, China
REFERENCE   3  (bases 1 to 2683)
  AUTHORS   Dong,X.
  TITLE     Direct Submission
  JOURNAL   Submitted (03-MAR-2023) State Key Laboratory for Diagnosis and
            Treatment of Infectious Diseases, National Clinical Research Center
            for Infectious Diseases, Collaborative Innovation Center for
            Diagnosis and Treatment of Infectious Diseases, The First Affiliated
            Hospital, Zhejiang University, Huajiachi, Hangzhou, Zhejiang 310000,
            China
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method :: Unicycler v. 0.4.8; SPAdes v. 3.1.4
            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 Name                   :: GCF_029193595.2-RS_2024_06_09
            Annotation Date                   :: 06/09/2024 14:51:38
            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)                     :: 4,243
            CDSs (total)                      :: 4,139
            Genes (coding)                    :: 4,109
            CDSs (with protein)               :: 4,109
            Genes (RNA)                       :: 104
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 78
            ncRNAs                            :: 4
            Pseudo Genes (total)              :: 30
            CDSs (without protein)            :: 30
            Pseudo Genes (ambiguous residues) :: 0 of 30
            Pseudo Genes (frameshifted)       :: 14 of 30
            Pseudo Genes (incomplete)         :: 22 of 30
            Pseudo Genes (internal stop)      :: 9 of 30
            Pseudo Genes (multiple problems)  :: 12 of 30
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP135053.1.
            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="Providencia hangzhouensis"
                     /mol_type="genomic DNA"
                     /strain="PR-310"
                     /isolation_source="clinical"
                     /host="Homo sapiens"
                     /type_material="type strain of Providencia hangzhouensis"
                     /db_xref="taxon:3031799"
                     /plasmid="pPR-310_2"
                     /geo_loc_name="China:Zhejiang"
                     /lat_lon="30.16 N 120.12 E"
                     /collection_date="2021"
                     /collected_by="Xu Dong"
     gene            complement(104..544)
                     /locus_tag="PZ638_RS20750"
                     /old_locus_tag="PZ638_20760"
     CDS             complement(104..544)
                     /locus_tag="PZ638_RS20750"
                     /old_locus_tag="PZ638_20760"
                     /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(1182..1826)
                     /locus_tag="PZ638_RS20755"
                     /old_locus_tag="PZ638_20765"
     CDS             complement(1182..1826)
                     /locus_tag="PZ638_RS20755"
                     /old_locus_tag="PZ638_20765"
                     /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(1186..1826)
                     /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(1921..2076)
                     /name="Col3M"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="97.452"
                     /coverage="100.0"
                     /evalue="1.07e-69"
ORIGIN
        1 tatcttattc tatgtattat tctacctatt acagacgaaa tagataaaat aagagataga
       61 ataatagata ggataataca taaaataata ggtaaaccta acgtcagcgc accttttctt
      121 cgagctgttt tagcatcgaa atatcaccta ataaccgttg atttttacct gtgaaaaaga
      181 tgatcggact gacatttgca ttatcaatac ttcggcttaa ctgaattccc atcgcctgat
      241 aatcatcatc gtttgtgcaa tggtataacg ctaaaacaag ctgacattgt tctggagttc
      301 cgcattctat tgcccagcgg atcaactccg aaaaggtcaa tccgttcggt ttccagtgtt
      361 ttttatgccg tgacgctaac gccttaaatt tttcacgccc ttgattatat ttttctgccc
      421 cgatcaccgg atcttcacaa cgaacccctt gaaccggtcg cttatcaaat gacaattccc
      481 ataaatttaa ttcttcgatg tattcgtaat cttctggcga tgccaaacga aataattgag
      541 acatagagac accctccgat catgtgtgaa cggagacagt ataaggcttt cgagaaattc
      601 cgcttcctcg acgtgaaaca agttcacgcc ttgcggcgag cgttgcgaat tgaatttatg
      661 aggtttacca agctccagat gtaacaaagc cccgtgacag catcacaggg ctctggtact
      721 ctaaatcttg tgcattcgtt gctcagatta gacgtcgcaa tccaatctta gcaacgtgag
      781 aggcgcttgt cacgttctca ttaaatacca gccaacgaca ttaacccaaa tgcaccactt
      841 gattgactcg gacttagccc ggtctccgaa aggataaaca ggcaaattgt ggtagtaaaa
      901 cgtaccggaa aacgaaattc cggctctacc tccgaatcac gctgcggtat cgaaagatta
      961 cagtgcgtac ctgataagag caccaatcaa cggactaggg atttcttgga ttgcgaagtg
     1021 tcgaaagaag cccaacctaa ccaaacttag ccagattaac gagctaagag accatgaccc
     1081 aataactgat catggagaaa agcaaagaca agatgaagat gtcgcttcgc tccgttttga
     1141 ttagtaccac attggggcat taggcgtttt ttacctagat tttatcggtg aacaataaca
     1201 cctaaactct caacaagctg aagcgcctgc tctccatcca acttcactcc atctaaatta
     1261 attcgccttg catcaagctc gccaagcgcc ccacccgtta aatcacaacc agtaaaatca
     1321 gccaaagacc aatcaaacga tgaaaactcc ccacaagaaa gatcggagcc acgaaacacg
     1381 gcgccagtta tcacagtgcc attccagcga ttttcccaca gttcgcactt ttctaatatg
     1441 actctagaaa aattagcgta actaagattt gtcttggtta tataagcact acaaaaccat
     1501 gaccttgtag ttatcatatt cataaaatta gcccctcgaa aatcagctcc ttgagctaaa
     1561 cactcactaa tttcaagacc taaggcgcta atgtttttaa aattactcat tgataaatcg
     1621 cagcttttaa agctagcgtt ttttagtttg gctctattaa aatcacaccc ttccaagcta
     1681 ttcctgtcgt aaaaactaca atcaacaaat tcagtatcag ttaaatcaac ccctgaaaaa
     1741 tcacaatttg aaaaggcaat atttttaact ctattccccg taaattgatc tcgtgaaaac
     1801 ttttcattga taaagtgctt ttccatacat gctacacctg gttatttata cagtgcaatc
     1861 attgtacatt aatttgaaca accttaaact ctagctaaaa ttgattcata caatcccttt
     1921 tatgttaaac gggcaagtta gttagcaaaa acctcccgtt catccccatt aaagcccctc
     1981 gaaacgattt taagacacga tcaccctata aaacacccaa atctacgctg aaagtttaga
     2041 acggttttgc gggcttctga gtgcgttttt aacatcgtgc aaactgacaa gtaaaacgat
     2101 gcgaaatcgc tgaaagtcac aaacttgttt tgtggcaaga agcgatttga ccaaccgagt
     2161 aaaacgaggg cggtaggctt tttgttttta tcctgatgag cgtccagcga agaaagggaa
     2221 aaacaggggg agccgaaacg aaatgacacg ccccagcgat ggcaagtgaa ccccagtgaa
     2281 cgtgtttcgt tttgggggca aagccccccg tcaagcgaag cgtctgacca ccacattttt
     2341 gagcgaccaa atacaggggc gaaaaaaggg ggtggtcaga cgaacgcagt gagtttgacg
     2401 ggcttgggtg aatggttttt ttcgcaggcg tccagccgaa gaaaatagcc agagggcgga
     2461 gccttatgtc attcattttc gtccagaaaa tgagtggcat tgatactgaa agtatcatgg
     2521 ggtgcaagtt agtaaaacta tgattctacc cattatttca cccgttattc tgcccgttat
     2581 acctaaattg ggtgcaataa cgggtaaagt aataggtaga ataacaggtg gattaatggg
     2641 taagaaataa cacaacgtca tcttgtgtct atctattatt ctg
//
