LOCUS       NZ_AP021961             3235 bp    DNA     linear   CON 05-JAN-2024
DEFINITION  Klebsiella quasipneumoniae strain WP3-W18-CRE-02 plasmid
            pWP3-W18-CRE-02_11 map unlocalized.
ACCESSION   NZ_AP021961
VERSION     NZ_AP021961.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMD00194404
            Sequence Read Archive: DRR199240
            Assembly: GCF_014170655.1
KEYWORDS    RefSeq.
SOURCE      Klebsiella quasipneumoniae
  ORGANISM  Klebsiella quasipneumoniae
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Klebsiella/Raoultella group; Klebsiella.
REFERENCE   1
  AUTHORS   Sekizuka,T., Itokawa,K., Yatsu,K., Inamine,Y. and Kuroda,M.
  TITLE     complete genome sequences of Klebsiella quasipneumoniae str.
            WP3-W18-CRE-02 isolated from wastewater treatment plant effluent
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 3235)
  AUTHORS   Sekizuka,T., Itokawa,K., Yatsu,K., Inamine,Y. and Kuroda,M.
  TITLE     Direct Submission
  JOURNAL   Submitted (04-DEC-2019) Contact:Tsuyoshi Sekizuka National Institute
            of Infectious Diseases, Pathogen Genomics Center; 1-23-1 Toyama,
            Shinjuku-ku, Tokyo 162-8640, Japan
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method :: flye v2.5; minimap v0.2-r124; racon v1.1.0;
            circlator v1.5.3; Pilon v1.18; SPAdes v3.11.1; A5-miseq v20140604
            Genome Coverage                   :: 300x
            Sequencing Technology             :: Sequel; NextSeq 500
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 01/05/2024 07:15:30
            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)                     :: 6,226
            CDSs (total)                      :: 6,101
            Genes (coding)                    :: 5,865
            CDSs (with protein)               :: 5,865
            Genes (RNA)                       :: 125
            rRNAs                             :: 9, 8, 8 (5S, 16S, 23S)
            complete rRNAs                    :: 9, 8, 8 (5S, 16S, 23S)
            tRNAs                             :: 93
            ncRNAs                            :: 7
            Pseudo Genes (total)              :: 236
            CDSs (without protein)            :: 236
            Pseudo Genes (ambiguous residues) :: 0 of 236
            Pseudo Genes (frameshifted)       :: 76 of 236
            Pseudo Genes (incomplete)         :: 151 of 236
            Pseudo Genes (internal stop)      :: 39 of 236
            Pseudo Genes (multiple problems)  :: 28 of 236
            CRISPR Arrays                     :: 1
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            AP021961.1.
            Annotated by DFAST v.1.2.3 (https://dfast.nig.ac.jp).
            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/
FEATURES             Location/Qualifiers
     source          1..3235
                     /organism="Klebsiella quasipneumoniae"
                     /mol_type="genomic DNA"
                     /strain="WP3-W18-CRE-02"
                     /isolation_source="wastewater"
                     /db_xref="taxon:1463165"
                     /map="unlocalized"
                     /plasmid="pWP3-W18-CRE-02_11"
                     /geo_loc_name="Japan:Tokyo"
                     /lat_lon="35.6684 N 139.4278 E"
                     /collection_date="2018-02-13"
     gene            complement(310..720)
                     /locus_tag="H7R86_RS30915"
     CDS             complement(310..720)
                     /locus_tag="H7R86_RS30915"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:YP_005229777.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="helix-turn-helix domain-containing protein"
                     /protein_id="WP_182980899.1"
                     /translation="MARVSISEAARFVKVSRPTIYKMINSGKLSYTSVVKHGKSIKVID
                     TSELIRVFGSLDGVIDDVKSDAESTGINSVGLHDLQHRIALLEAENDGLKGAVKARDEH
                     IDSLRQAMQLLEHKHEPSSPPHSPWWKFWKKS"
                     /name="helix-turn-helix domain-containing protein"
     gene            complement(720..911)
                     /locus_tag="H7R86_RS30920"
                     /old_locus_tag="WP3W18C02_P110010"
     CDS             complement(720..911)
                     /locus_tag="H7R86_RS30920"
                     /old_locus_tag="WP3W18C02_P110010"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000166328.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="Rop family plasmid primer RNA-binding protein"
                     /protein_id="WP_025714792.1"
                     /translation="MTKQQKTALNMAKFIQNQSLLLLEKLNELDLDAEADLCEKLHDDA
                     EHLFRTLSSRLDELLDGN"
                     /name="Rop family plasmid primer RNA-binding protein"
     gene            complement(1382..1573)
                     /locus_tag="H7R86_RS30925"
                     /old_locus_tag="WP3W18C02_P110020"
     CDS             complement(1382..1573)
                     /locus_tag="H7R86_RS30925"
                     /old_locus_tag="WP3W18C02_P110020"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001041614.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="Rop family plasmid primer RNA-binding protein"
                     /protein_id="WP_001041614.1"
                     /translation="MNKQQKTAVNMAKFIQDQSLLLLDRLNELDLDHEADFCEKLHEDA
                     ERLYRSLSARLNEQQDGA"
                     /name="Rop family plasmid primer RNA-binding protein"
     gene            complement(2497..3194)
                     /locus_tag="H7R86_RS30930"
     CDS             complement(join(2497..2945,2945..3194))
                     /locus_tag="H7R86_RS30930"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_086558267.1"
                     /ribosomal_slippage=""
                     /GO_function="GO:0004803 - transposase activity [Evidence
                     IEA]"
                     /note="programmed frameshift; Derived by automated
                     computational analysis using gene prediction method:
                     Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="IS1 family transposase"
                     /protein_id="WP_228288707.1"
                     /translation="MASVSISCPSCSATEGVVRNGKSTAGHQRYLCSHCRKTWQLQFTY
                     TASQPGTHQKIIDMAMNGVGCRASARIMGVGLNTILRHFKKLRPQSVTSRIQPGSDVIV
                     CAEMDEQWGYVGAKSRQRWLFYAYDRIRRTVVAHVFGERTLSTLERLLGLLSAFEVVVW
                     MTDGWPLYESCLKGELHVISKRYTQRIERHNLNLRQHLARLGRKSLSFSKSVELHDKVI
                     GHYLNIKHYQ"
                     /name="IS1 family transposase"
     Typing          1449..2076
                     /name="rep_cluster_2327"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="84.341"
                     /coverage="99.0"
                     /evalue="7.140000000000001e-167"
ORIGIN
        1 cgattcgact ctagagtcaa gtcgtcataa gttactgata gtgtggagtg agtcgtcgat
       61 gactctatga cgagtcgtcg gcaagtcgta cacgaatcac cgacgacttg gattgacctt
      121 acagaaggta atactgcgta atttaataaa acctaaccaa ctgataataa ggagttatct
      181 gcaaaatttt aattttgcgt ggtgtgtggg tatttttcgt ggtgaggagt gttcccggat
      241 ctggcgattt ttgggaaggt tcaggaacgc cccgggatgg ccggagagga aaactcaagc
      301 atggcgggat caggattttt tccagaattt ccaccacggg gaatggggtg gtgaagaagg
      361 ttcgtgcttg tgctccagaa gctgcatagc ctgacgaagg gaatcaatat gctcatctcg
      421 agccttaaca gcccctttaa gaccatcgtt ttcagcttca agtaaagcga ttctatgttg
      481 taaatcatgt aaaccaacgc tgttaatacc tgtagattct gcgtcacttt ttacatcatc
      541 gatgacacca tcaagagaac caaacaccct aataagctct gatgtatcaa taactttaat
      601 actcttcccg tgctttacaa cagaggtgta acttaactta ccactgttaa tcatcttgta
      661 aatagtaggg cgactaacct taacaaaccg tgctgcttca ctaatagaca ctctggccat
      721 cagttaccat ccagtaattc atccagtctc gaggacagtg tacggaaaag atgctccgca
      781 tcatcgtgga gtttctcaca aaggtcggcc tcagcatcga gatcaagctc gttaagcttc
      841 tccagcagga gcagagactg attctggatg aatttagcca tgttcagcgc tgttttctgt
      901 tgtttcgtca taagggacct cagagcatca gtgctcagtg taaaaccggt aagggggtcg
      961 gatgtacgaa tggttcagag aacggatctg aggtaatcct gtagttattt tgtagtttat
     1021 ctgtagtcat cgcactaaaa atcaggatta agtcatcagc ttttgtagtc tttctgtagt
     1081 ttacctgtag tccggaaaaa taatccgttc atgcgagcat gaacgaggtc gttaatgacg
     1141 tttttttgtc accgacgccc cttaacctgc gtaaatcacc cgccatggtt gattattttt
     1201 caacctcaaa atggtcatac acctaacgca gccgcgattt tcatcgcaac ttcatgaaaa
     1261 ataaataaaa aagaaaaaat acagggattc tgggtattac cggggtaata atgttaagcg
     1321 ctaacacaat gaaaattaag gcgatgccgg tattactccg gtaataccca caacggagcc
     1381 attacgcacc gtcctgctgc tcattcaggc gcgctgacag gcttcggtaa aggcgttccg
     1441 catcctcatg gagtttctcg cagaaatcag cctcatgatc cagatccagc tcattaagcc
     1501 tgtccagaag aagcagggac tgatcctgga tgaatttagc catgttaacg gcagtctttt
     1561 gttgtttgtt catgaaggcc ccggcgcgaa agtgcttact gtacgttcgg atggttttcc
     1621 gcttcctcgc tcattcgctc actccgttcg gtcatgagtc tgcggcgagc ggagggaaga
     1681 taagcagata acgtaacggt aagcataacg aaagctaagg acaagggcga aaaggccacg
     1741 ccccgccggg gcgtttttcc ataggctccg cccccctgac aagcatcacg aaaatctgac
     1801 gctcaaatca gtggtggcga aacccgacag gactataaag atcccaggcg tttccccctg
     1861 gtagctccct cgtgcgctct cctgttcctg cctttcggtt taccggtgtc attccgctgt
     1921 tatggccgcg tttatctcat tccacgcctg acactcagtt ccgggaaggc agttcgctcc
     1981 aagctggact gtatgcacga accccccgtt cagtccgacc gctgcgcctt atccggtaac
     2041 tatcgtcttg agtccaatcc ggaaagacac gacttatcgc cactggcagc agccactggt
     2101 aacaggattc acggagcaga gtagtagagt gcttctacag agttcttgaa gtggtggcct
     2161 gactgcggct acactagaag gacagttttg gtatctgcgc tccgtgaaag ccagttacct
     2221 tcggaaaaaa gagttggtag ctcttgattc cggcaaacga accaccgttg gtagcggtgg
     2281 tttttttgtt tgcaggacat gagattacga cgcaacagaa aggatctcaa gaagttcctt
     2341 gctgtattgc tactatccta gagatctgac ccattagggg cattatcaga ttacggcctt
     2401 gtaatccacg ataaaaaccc agaaaccaga agagttggcc cagcgacata tgttacataa
     2461 acgcccacat atgaaactgt aggtaatgac tccaacttac tgatagtgtt ttatgttcag
     2521 ataatgcccg atgactttgt catgcagctc caccgatttt gagaacgaca gtgacttcct
     2581 gcccagcctt gccagatgtt gcctcagatt caggttatgc cgctcaatgc gctgcgtata
     2641 tcgcttgctg ataacgtgca gttctccctt caggcatgat tcataaagcg gccagccatc
     2701 cgtcatccat accacgacct caaaggccga cagcaggccc agaagacgct ccagcgtgga
     2761 caacgtgcgt tcaccgaata cgtgcgccac aaccgtcctc cgtatcctgt catacgcgta
     2821 aaacaaccag cgctggcgtg atttagcgcc gacataaccc cactgttcgt ccatttccgc
     2881 gcaaacaatg acgtcactgc ccggttgtat gcgtgaggtt accgactgcg gtctgagttt
     2941 tttaagtgac gtaaaatcgt gttgaggcca acgcccataa tgcgtgcact ggcgcgacat
     3001 ccgacgccat tcatggccat atcaatgatt ttctgatgcg taccgggttg agaagcggtg
     3061 taagtgaact gtagctgcca tgttttacgg cagtgagagc agagatagcg ctgatgtccg
     3121 gcagtacttt taccgttacg caccacgcct tcagtagctg aacaggaggg acagctgata
     3181 gaaacagaag ccactggagc acctcaaaaa caccatcata cactaaatca gtaag
//
