LOCUS       NZ_AP022151             4090 bp    DNA     circular CON 28-NOV-2023
DEFINITION  Klebsiella quasipneumoniae strain WP5-S18-ESBL-05 plasmid
            pWP5-S18-ESBL-05_9, complete sequence.
ACCESSION   NZ_AP022151
VERSION     NZ_AP022151.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMD00194531
            Sequence Read Archive: DRR199367
            Assembly: GCF_014169355.1
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.
            WP5-S18-ESBL-05 isolated from wastewater treatment plant effluent
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 4090)
  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                   :: 195x
            Sequencing Technology             :: Sequel; NextSeq 500
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 11/28/2023 10:17:57
            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)                     :: 5,988
            CDSs (total)                      :: 5,866
            Genes (coding)                    :: 5,626
            CDSs (with protein)               :: 5,626
            Genes (RNA)                       :: 122
            rRNAs                             :: 9, 8, 8 (5S, 16S, 23S)
            complete rRNAs                    :: 9, 8, 8 (5S, 16S, 23S)
            tRNAs                             :: 84
            ncRNAs                            :: 13
            Pseudo Genes (total)              :: 240
            CDSs (without protein)            :: 240
            Pseudo Genes (ambiguous residues) :: 0 of 240
            Pseudo Genes (frameshifted)       :: 79 of 240
            Pseudo Genes (incomplete)         :: 174 of 240
            Pseudo Genes (internal stop)      :: 45 of 240
            Pseudo Genes (multiple problems)  :: 48 of 240
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            AP022151.1.
            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/
            COMPLETENESS: full length.
FEATURES             Location/Qualifiers
     source          1..4090
                     /organism="Klebsiella quasipneumoniae"
                     /mol_type="genomic DNA"
                     /strain="WP5-S18-ESBL-05"
                     /isolation_source="wastewater"
                     /db_xref="taxon:1463165"
                     /plasmid="pWP5-S18-ESBL-05_9"
                     /geo_loc_name="Japan:Tokyo"
                     /lat_lon="35.6538 N 139.5126 E"
                     /collection_date="2018-08-06"
     gene            complement(101..511)
                     /locus_tag="H7R80_RS29715"
     CDS             complement(101..511)
                     /locus_tag="H7R80_RS29715"
                     /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_048295909.1"
                     /translation="MARVSISEAARLVKVSRPTIYKMINSGKLSYTSVVKHGKGIKVID
                     TSELIRVFGSLDGVIDDVKSDAESTGINSVGLHDLQHRIALLEAENDGLKGAVKARDEH
                     IDSLRQAMQLLEHKHEPSSPPHSPWWKFWKKS"
                     /name="helix-turn-helix domain-containing protein"
     gene            complement(511..702)
                     /locus_tag="H7R80_RS29720"
                     /old_locus_tag="WP5S18E05_P90010"
     CDS             complement(511..702)
                     /locus_tag="H7R80_RS29720"
                     /old_locus_tag="WP5S18E05_P90010"
                     /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_182940180.1"
                     /translation="MNKQQKTAVNMAKFIQNQSLLLLEKLNELDLDAEADLCEKLHDDA
                     EHLFRTLSSRLDELQDGN"
                     /name="Rop family plasmid primer RNA-binding protein"
     gene            1121..1234
                     /locus_tag="H7R80_RS30215"
     CDS             1121..1234
                     /locus_tag="H7R80_RS30215"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_007772075.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="replication initiation protein"
                     /protein_id="WP_071587628.1"
                     /translation="MHEPPVQSDCCALSGNYRLESNPERHDKTPLAAAIGN"
                     /name="replication initiation protein"
     gene            1495..2412
                     /locus_tag="H7R80_RS29730"
                     /old_locus_tag="WP5S18E05_P90020"
     CDS             1495..2412
                     /locus_tag="H7R80_RS29730"
                     /old_locus_tag="WP5S18E05_P90020"
                     /EC_number="2.1.1.-"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_016243916.1"
                     /GO_function="GO:0003677 - DNA binding [Evidence IEA];
                     GO:0008170 - N-methyltransferase activity [Evidence IEA]"
                     /GO_process="GO:0009307 - DNA restriction-modification
                     system [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="site-specific DNA-methyltransferase"
                     /protein_id="WP_044069000.1"
                     /translation="MLKKIPLFDEIENNSVTNGDSIELIKKVQTQSAHLILSDIPYGIG
                     ADDWDVLHKNSNNAYLGSSPAQKSAGAIFKKRGKPINGWSDADRKIPLEYQQWCEEWAS
                     EWYRTLKPGASAIIFAGRRFSHRCICAMENAGFNLRDIIAWMRTKAPHRAQRLSCVYER
                     RGDQYNKEKWDGWRVGNLQPTFEPILWFSKPYKIGGTIADNVLLHGVGAYNQDAFTARN
                     GKPENVIHAGFERNEGGLHPTQKPVSLMKALIELTTQEGQLVIDPFSGSGSTLVAAKEL
                     GRNYIGFEFNPAYVEISKKRLEDK"
                     /name="site-specific DNA-methyltransferase"
     gene            complement(2413..3339)
                     /locus_tag="H7R80_RS29735"
                     /old_locus_tag="WP5S18E05_P90030"
     CDS             complement(2413..3339)
                     /locus_tag="H7R80_RS29735"
                     /old_locus_tag="WP5S18E05_P90030"
                     /EC_number="3.1.21.-"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_006621132.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="HindIII family type II restriction endonuclease"
                     /protein_id="WP_000362418.1"
                     /translation="MDLCNFKFITEDAIIRRRYWIDEIVKLSGHFVNDSSRVENEIIDE
                     VKKSGSQALLDHLRLCTAIPESYDHDSSEEKLYSKYTDALISECFKYLGLNSIVLTERA
                     DAADVEVVCDSYSFVADAKVFRLSRTAKNQKDFKVQAMDGWRNTKDFAMVVCPIYQLPT
                     KSSQIYQQAILRNVCVFTYTHLAVLIRYSAIATTEDSKNLLGEIFKSVSLLNPSKDSVQ
                     YWVNINRTMLSYDSRIAELWSDEKSATTEGIAVSKKMAIEFLSSERTRMLMMTKDEAVS
                     ALIKMHKIDSRIDQINKVTDNNILSLK"
                     /name="HindIII family type II restriction endonuclease"
     Typing          579..801
                     /name="rep_cluster_2327"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="87.5"
                     /coverage="85.0"
                     /evalue="2.96e-66"
     Typing          940..1411
                     /name="rep_cluster_2358"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="90.476"
                     /coverage="91.0"
                     /evalue="5.94e-177"
ORIGIN
        1 gtatttttcg tggtgaggag tgttcccgga tctggcgatt tttgggaagg ttcaggaacg
       61 ccccgggatg gccggagagg aaaactcaag catggcggga tcaggatttt ttccagaatt
      121 tccaccacgg ggaatggggt ggtgaagaag gttcgtgctt gtgctccaga agctgcatag
      181 cctgacgaag ggaatcaata tgctcatctc gagccttaac agccccttta agaccatcgt
      241 tttcagcttc aagtaaagcg attctatgtt gtaaatcatg taaaccaacg ctgttaatac
      301 ctgtagattc tgcgtcactt tttacatcat cgatgacacc atcaagagaa ccaaaaactc
      361 taataagctc tgatgtatca ataactttaa tacccttccc gtgctttaca acagaggtgt
      421 aacttaactt accactgtta atcatcttgt aaatagtagg gcgactaacc ttaacaagcc
      481 gtgctgcttc actaatagac actctggcca tcagttacca tcctgtaatt catccagtct
      541 cgaggacagt gtacggaaaa gatgctccgc atcatcgtgg agtttctcac aaaggtcggc
      601 ctcagcatcg agatcaagct cgttaagctt ctccagcagg agcagagact gattctggat
      661 gaatttagcc atgttaacgg ctgtcttttg ttgtttgttc atgaagaccc cagcgcgaaa
      721 gtgcttactg tacgttctga tggttttccg cttcctcgct cattcgctca ctccgttcgg
      781 tcatgagtct gcggcgagcg gagggaagat aagcagatag cgtaacggta agcataacga
      841 aagctaagga caagggcgaa aaggccacgc cccgccgggg cgtttttcca taggctccgc
      901 ccccctgaca agcatcacga aatctgacgc tcaaatcagt ggtggcgaaa cccgacagga
      961 ctataaagat cccaggcgtt tccccctggt ggctccctcg tgcgctctcc tgttcctgcc
     1021 tttcggttta ccggtgtcat tccgctgtta tggccgcgtt tatctcattc cacgcctgac
     1081 actcagttcc gggtaggcag ttcgctccaa gctggactgt atgcacgaac cccccgttca
     1141 gtccgactgc tgcgccttgt ccggtaacta tcgtcttgag tccaacccgg aaagacacga
     1201 taaaacgcca ctggcagcag ccattggtaa ctgatttacg gagcgaagcg ttaagtgtaa
     1261 tagagttctt gaagtgagcg gcttactaca gctacactgg aaggacaaat taggtcactg
     1321 cgctccgtga aagccagtta ccacggttca gaagttcccc aactaactga accctgaaaa
     1381 agccgcctcc ccaggcggtt ttttcttttc aaaaggctac gacgaaaggt tatcctgcgt
     1441 caagataact ttggtagtta taatgaagtg aataaaccat tggtaaggtg ttgaatgtta
     1501 aaaaaaatcc cattatttga cgagatagaa aacaactccg taacaaatgg tgactctatc
     1561 gagctaataa aaaaagtaca aactcaatcc gctcacttaa tactgagtga tattccttac
     1621 ggaataggag ctgatgattg ggatgtactt cataaaaact cgaacaatgc ctacctaggt
     1681 tcaagccccg cacaaaaatc agctggggcc attttcaaaa aaagaggaaa gcctataaat
     1741 ggctggtctg atgcagatag aaaaatacct ttagagtatc aacaatggtg tgaagagtgg
     1801 gcgagcgaat ggtatcggac cttaaaacca ggagctagtg caatcatttt cgctggtagg
     1861 agattttcac acagatgtat ttgcgcaatg gaaaatgctg gatttaacct cagagatata
     1921 atcgcctgga tgcgaacaaa agctcctcat cgtgcacaaa ggctaagctg cgtatatgaa
     1981 aggcgtggag accaatataa caaagaaaaa tgggacggct ggagggttgg aaacttacag
     2041 ccaacatttg agcccatact atggttttca aaaccctaca aaataggagg gactattgct
     2101 gataacgttc tattgcatgg tgttggagca tataaccaag atgcgttcac agcaagaaat
     2161 ggaaaacctg aaaatgtaat acatgctggc tttgagagaa atgaaggtgg attacatcca
     2221 acgcagaagc ctgtttcgct gatgaaagcg ctaatagaac taactactca agaaggacag
     2281 ctagtgatag atccatttag tggtagcggt tcaactcttg tggcagcaaa agagctgggc
     2341 agaaactata taggcttcga gtttaaccca gcatatgtag aaataagcaa aaaaagatta
     2401 gaagataaat aactacttaa gtgacagtat attattatct gtcactttat ttatttggtc
     2461 tatcctactg tctattttat gcatttttat caacgcactg acagcctcat ccttggtcat
     2521 cattagcatc cttgtacgtt cagaagatag aaattctata gccatttttt ttgaaacggc
     2581 aataccctca gttgtggctg atttttcatc actccaaagc tcagctatcc tactatcata
     2641 gcttaacatt gttctattta tattcaccca atattgcaca ctatctttgc tagggttgag
     2701 taaagataca gatttaaata tttcaccaag aaggttttta ctatcttcag ttgttgctat
     2761 agctgaatat cttatgagaa cggccaggtg tgtatatgta aaaacacaaa catttcgcaa
     2821 tatagcttgc tgatatattt gacttgattt tgttggcaac tgatatattg gacatacaac
     2881 cattgcaaag tctttggtat ttctccaacc atccatagcc tgaactttaa agtctttttg
     2941 attttttgca gttctactca agcgaaatac tttggcatct gccacaaatg aatagctatc
     3001 gcaaacaacc tcaacatcag ccgcatctgc cctttcagtc aaaacaatac tatttaaccc
     3061 taaatattta aaacattctg atatcagtgc atctgtatac tttgagtaca gtttttcttc
     3121 acttgaatca tgatcatatg actcaggtat tgctgtgcat aacctaaggt ggtctagtaa
     3181 tgcttgactt ccagatttct taacctcatc tattatttca ttttcaactc tgcttgagtc
     3241 gttaacaaag tgaccactta gttttactat ttcatcaatc cagtaacgcc ttcttattat
     3301 tgcatcttca gtaatgaatt taaaattaca caagtccatt tttaataccc gatataatta
     3361 atcaataact cagtataatc tcgcgatcat aacagatttt ttcatctgcc gaataataga
     3421 actatcagtt tatatggcta gagattcgct tgtatttacc ataacatccg ttatcagcac
     3481 cgcctgagag gctctcaggg cgtttctggc aggaaaccga caaaacaggc aacaaaccat
     3541 ccgaaaaccc gccagaaacg cgcaggcttt gtttttacgg catgcatgag tatgcgcgca
     3601 agtgcatagc gcggaaattc acgccattca gccggggtaa gtcctgtttc cggcgttctt
     3661 cccatccgaa aacggtgaac ggggacgcaa tttattgcgt ggccgtgaag cgttgccggc
     3721 gcagccggaa aaccggtttt cagcacgttc aggaatcggg ttcgtcgacg gccggcaatc
     3781 acgttatggc aagtcgccgg acgactcacc acacgattca ccggcgattc gactcgtgac
     3841 ttgactctag agtcaccacg gtcataaaaa cgccaaagcg acgattcgac tctagagtca
     3901 agtcgtcata agttactgat agtgtggagt gagtcgtcga tgactctatg acgagtcgtc
     3961 ggcaagtcgt acacgaatca ccgacgactt ggattgacct tacagaaggt aatactgcgt
     4021 aatttaataa aacctaacca actgataata aggagttatc tgcaaaattt taattttgcg
     4081 tggtgtgtgg
//
