LOCUS       NZ_AP021977             5286 bp    DNA     circular CON 28-NOV-2023
DEFINITION  Klebsiella sp. WP3-W18-ESBL-02 plasmid pWP3-W18-ESBL-02_5, complete
            sequence.
ACCESSION   NZ_AP021977
VERSION     NZ_AP021977.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMD00194408
            Sequence Read Archive: DRR199244
            Assembly: GCF_014168815.1
KEYWORDS    RefSeq.
SOURCE      Klebsiella sp. WP3-W18-ESBL-02
  ORGANISM  Klebsiella sp. WP3-W18-ESBL-02
            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 sp. WP3-W18-ESBL-02 isolated
            from wastewater treatment plant effluent
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 5286)
  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                   :: 193x
            Sequencing Technology             :: Sequel; NextSeq 500
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 11/28/2023 08:52:43
            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)                     :: 5,537
            CDSs (total)                      :: 5,417
            Genes (coding)                    :: 5,295
            CDSs (with protein)               :: 5,295
            Genes (RNA)                       :: 120
            rRNAs                             :: 9, 8, 8 (5S, 16S, 23S)
            complete rRNAs                    :: 9, 8, 8 (5S, 16S, 23S)
            tRNAs                             :: 87
            ncRNAs                            :: 8
            Pseudo Genes (total)              :: 122
            CDSs (without protein)            :: 122
            Pseudo Genes (ambiguous residues) :: 0 of 122
            Pseudo Genes (frameshifted)       :: 28 of 122
            Pseudo Genes (incomplete)         :: 91 of 122
            Pseudo Genes (internal stop)      :: 14 of 122
            Pseudo Genes (multiple problems)  :: 10 of 122
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            AP021977.1.
            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..5286
                     /organism="Klebsiella sp. WP3-W18-ESBL-02"
                     /mol_type="genomic DNA"
                     /strain="WP3-W18-ESBL-02"
                     /isolation_source="wastewater"
                     /db_xref="taxon:2675710"
                     /plasmid="pWP3-W18-ESBL-02_5"
                     /geo_loc_name="Japan:Tokyo"
                     /lat_lon="35.6684 N 139.4278 E"
                     /collection_date="2018-02-13"
     gene            344..1006
                     /locus_tag="H7R56_RS27410"
                     /old_locus_tag="WP3W18E02_P50020"
     CDS             344..1006
                     /locus_tag="H7R56_RS27410"
                     /old_locus_tag="WP3W18E02_P50020"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000430080.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="GNVR domain-containing protein"
                     /protein_id="WP_072661022.1"
                     /translation="MEKNSSDIDVIELFLFLKNKIMSIILFVIFSLILSSIFLLINKNK
                     ISVKYELNMITNSPGMIINCGDDFYCKANMIQSIIKNKSNSITSNIDERGKKINLSWAG
                     DDRYKPSVTAEVNAIHKAINDWYIQDYKTYKSIVNNQDSNYINGTETYAKIALLTKTNT
                     SGERNFISINNEIVNKKYKPALIMTLTLIMAIIFSSSYHIIKRSVLDYKNKSNRSFY"
                     /name="GNVR domain-containing protein"
     gene            1158..>1334
                     /locus_tag="H7R56_RS27415"
                     /pseudo=""
     CDS             1158..>1334
                     /locus_tag="H7R56_RS27415"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_012477181.1"
                     /GO_process="GO:0006313 - DNA transposition [Evidence IEA]"
                     /note="incomplete; partial in the middle of a contig;
                     missing C-terminus; Derived by automated computational
                     analysis using gene prediction method: Protein Homology."
                     /pseudo=""
                     /codon_start=1
                     /transl_table=11
                     /product="IS1 family transposase"
                     /name="IS1 family transposase"
     gene            complement(1349..2046)
                     /locus_tag="H7R56_RS27420"
                     /old_locus_tag="WP3W18E02_P50030"
     CDS             complement(join(1349..1797,1797..2046))
                     /locus_tag="H7R56_RS27420"
                     /old_locus_tag="WP3W18E02_P50030"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_086558153.1"
                     /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_227674763.1"
                     /translation="MASISIRCPSCSTTEGVVRNGKSTAGHQRYLCSHCRKTWQLQFTY
                     TASQPGTHQKIIDMAMNGVGCRASARIMGVGLNTVLRHFKKLRPQSVTSRIQPGSDVIV
                     CAEMDEQWGYVGAKSRQRWLFYAYDRIRRTVVAHVFGERTLATLERLMSLLSPFDVVIW
                     MTDGWPLYESRLKGKLHVISKRYTQRIERHNLNLRQHLARLGRKSLSFSKSVELHDKVI
                     GHYLNIKHYQ"
                     /name="IS1 family transposase"
     gene            complement(2692..2907)
                     /locus_tag="H7R56_RS27425"
                     /old_locus_tag="WP3W18E02_P50050"
     CDS             complement(2692..2907)
                     /locus_tag="H7R56_RS27425"
                     /old_locus_tag="WP3W18E02_P50050"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000137422.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MbeD family mobilization/exclusion protein"
                     /protein_id="WP_000137422.1"
                     /translation="MTELEKQLLSALEQLQQDYSQRLDEWESAFAEWRSMCGLMQRENA
                     VLNERVSDLSTQVLSLSEQLRRLSGN"
                     /name="MbeD family mobilization/exclusion protein"
     gene            complement(2914..3405)
                     /locus_tag="H7R56_RS27430"
                     /old_locus_tag="WP3W18E02_P50060"
     CDS             complement(2914..3405)
                     /locus_tag="H7R56_RS27430"
                     /old_locus_tag="WP3W18E02_P50060"
                     /inference="COORDINATES: protein motif:HMM:NF016710.3"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MbeB family mobilization protein"
                     /protein_id="WP_015060400.1"
                     /translation="MSSLLTLAKDLEQQSKAQKQSTGEMLKAAFSEHEQSVRAELSASA
                     RRISDAILAHEQSMSEAMEKNRRSVLRTAGRTWLTILMVSALLIGTSGSILWWQGQQIT
                     DNYTHLRQQEDTLAKMTARTWGVRYQESSDGRRFLILPPGMQTEAIPYDGTTWIRLKQE
                     "
                     /name="MbeB family mobilization protein"
     gene            complement(<3440..4144)
                     /locus_tag="H7R56_RS27975"
                     /pseudo=""
     CDS             complement(<3440..4144)
                     /locus_tag="H7R56_RS27975"
                     /inference="COORDINATES: protein motif:HMM:NF015397.3"
                     /note="incomplete; partial in the middle of a contig;
                     missing C-terminus; Derived by automated computational
                     analysis using gene prediction method: Protein Homology."
                     /pseudo=""
                     /codon_start=1
                     /transl_table=11
                     /product="relaxase/mobilization nuclease domain-containing
                     protein"
                     /name="relaxase/mobilization nuclease domain-containing
                     protein"
     gene            complement(4083..4406)
                     /locus_tag="H7R56_RS27440"
                     /old_locus_tag="WP3W18E02_P50070"
     CDS             complement(4083..4406)
                     /locus_tag="H7R56_RS27440"
                     /old_locus_tag="WP3W18E02_P50070"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000957083.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MobC family plasmid mobilization relaxosome
                     protein"
                     /protein_id="WP_163063187.1"
                     /translation="MLTMWVTEGEHRRLLERCDGRPLAAWMRQTCLDEKPARTGKLPSL
                     SPALLRQLAGMGNNLNQIARRVNAGGGTGHDRVQIVAALMAIDAGLERLRHAVLEKGTD
                     DDR"
                     /name="MobC family plasmid mobilization relaxosome protein"
     gene            5057..5203
                     /locus_tag="H7R56_RS27835"
     CDS             5057..5203
                     /locus_tag="H7R56_RS27835"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001487656.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_063922569.1"
                     /translation="MHEPPVQSDRCASSGNFQLDSNPERHDKAPLAAATGKRVYKRLLI
                     QSS"
                     /name="hypothetical protein"
     Typing          complement(4522..4695)
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="96.0"
                     /coverage="100.0"
                     /evalue="1.21e-74"
     Typing          4619..5226
                     /name="rep_cluster_2335"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="90.671"
                     /coverage="100.0"
                     /evalue="0.0"
     Typing          complement(2601..4093)
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="94.8"
                     /coverage="100.0"
                     /evalue="0.0"
     Typing          complement(4090..4406)
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="92.453"
                     /coverage="99.0"
                     /evalue="1.3200000000000001e-59"
ORIGIN
        1 tccccaactt actgaacctt cgaaaaacca cctccccagg tggttttttc gttttcagag
       61 caagagatta cggctgtaac gcaaggatct caagaagatc ttaaaatatg ttgaaaggat
      121 acaggctaac aacaactccc tccatagaca tgaccgaaca aaaaagaaac aaaaaaaatg
      181 attttaggag ttttttcaca cctaaatagt aggtaaaatg tttttttatt cgattggctt
      241 ttaaaatgaa atacactaaa tccgcaaaaa tattcatcac agccttttta attttattta
      301 tttatttaac ccatacttta ataaatatta ttggtatata aaaatggaaa aaaattcatc
      361 tgatattgat gttatcgagt tatttctctt tctcaaaaac aaaataatga gtattatttt
      421 gtttgttatt ttctcattga ttttgtcatc tatttttttg ttaataaaca aaaacaaaat
      481 aagtgtaaag tacgaattaa atatgatcac taattcgcca ggtatgatta ttaactgtgg
      541 ggatgacttt tattgcaaag cgaacatgat acaatcaata ataaaaaaca aaagcaattc
      601 tataacatca aatatagatg aaagaggaaa aaaaataaac ctgtcatggg ctggtgatga
      661 ccgttacaaa ccctcggtta ccgctgaagt aaacgctatc cataaagcta ttaatgactg
      721 gtacatccaa gattataaaa cttataaaag catagttaac aaccaggata gcaactatat
      781 aaatggcact gaaacatatg caaaaattgc attattaact aaaacaaaca cttccggaga
      841 aagaaacttt atttcaatca ataatgaaat agtaaataaa aagtataaac cagctttaat
      901 tatgactcta acgttaatta tggctattat cttttcctcc tcttaccata taataaaaag
      961 atctgtactt gactataaaa ataagtcaaa taggtctttt tattagcctg taacgattaa
     1021 taaccgtatt ctagcaacat ccgttacacg cctgatgcag aaaagcccgc taatagcggg
     1081 cctcccgaca aatctcactg ggtgatgcct ctaattagtt gaatctgatg tataatacgg
     1141 gcttttgagg ttatctcata gccagcgtta atattcattg tccccgttgt cagtcagctc
     1201 gggtttaccg ccatggtcag aaccctaaag gccgtgacag atttcgctgc cgtgactgcc
     1261 accgtgtatt tcagctcact tatacttatc aagcacgtaa gccgggtatg aaagagctga
     1321 tcactgaaat ggcggtaatg actccaactt attgatagtg ttttatgttc agataatgcc
     1381 cgatgacttt gtcatgcagc tccaccgatt ttgagaacga cagcgacttc cgtcccagcc
     1441 gtgccaggtg ctgcctcaga ttcaggttat gccgctcaat tcgctgcgta tatcgcttgc
     1501 tgattacgtg cagctttccc ttcaggcggg attcatacag cggccagcca tccgtcatcc
     1561 atatcaccac gtcaaagggt gacagcaggc tcataagacg ctccagtgtg gccagagtgc
     1621 gttcaccgaa gacgtgcgcc acaaccgtcc tccgtatcct gtcatacgcg taaaacagcc
     1681 agcgctgacg tgatttagca ccgacgtagc cccactgttc gtccatttca gcgcagacaa
     1741 tcacatcact gcccggttgt atgcgcgagg ttaccgactg cggcctgagt tttttaagtg
     1801 acgtaaaacc gtgttgaggc caacgcccat aatgcgtgca ctggcgcgac atccgacgcc
     1861 attcatggcc atatcaatga ttttctggtg cgtaccgggc tgagaggcgg tgtaagtgaa
     1921 ctgtagttgc catgttttac ggcagtgaga gcagagatag cgctgatgtc cggcggtgct
     1981 tttgccgtta cgcaccacgc cttcagtagt ggagcaggaa ggacatctga tggaaatgga
     2041 agccacgcaa gcaccttaaa atcaccatca tacactaaat cagtaagttg gcagcattac
     2101 ctgcatttca gcttcatcaa tcccgttttt tttactgaat ccatttacca atatcctgtc
     2161 catacgttac taaagaaaat aatatatacg gaatgagtta tcatgcgcct aatttaccat
     2221 aacatccgtt gggcgcaccg ctgaaacggg gttggctgcg tttccggtgc cagacgcgag
     2281 aaagtggcga cagacataac gaaaaaacac cagaaacgca gccgctgaat attacactgg
     2341 tgcatagtca tgcagccaga tgcatggatg ttaaagtcac actaaaatcc gcgccaatgc
     2401 cttaaaaacc gacaaatgct tctccagcca gtcccacagc tccgccgcca gatacaggca
     2461 gttaagcaat gattcaataa gatttaacag cttcatttcc cgctcctgaa taagtcgtga
     2521 cctttttgat cacgaaccta tttagcggga gaaataagag cccctcttcg tgcgggttgt
     2581 cagctgcctg gatggtttaa agtgtcggcc cgcggtaggt tttctgcggc tggcgctcca
     2641 gctccagtgt tttctgatac tcattctccc tctgccgaag ctcgatggca ttcagttccc
     2701 ggacaagcgg cgcagctgct cgcttaaact cagcacctgc gtgctcaagt ccgacacgcg
     2761 ctcgttcagc accgcgttct cccgttgcat aagcccacac atgctccgcc attccgcgaa
     2821 ggcgctctcc cattcgtcca gcctttgcga gtagtcctgc tgtagctgct ctaatgcgct
     2881 cagcaactgc ttttccagct ctgtcatttt ccgctactcc tgtttcaggc ggatccatgt
     2941 cgtcccgtcg taggggatgg cttcggtttg catccccggc ggcaggataa gaaacctccg
     3001 gccgtcgctg ctctcctgat agcgcactcc ccacgtccgg gcggtcattt tcgccagggt
     3061 atcttcctgc tgacgaagat gcgtgtaatt gtcggttatc tgctgcccct gccaccacag
     3121 aatgctcccg ctcgtgccga tcagcagcgc tgacaccatc aggatggtga gccatgtccg
     3181 cccggcagtc cgcagtacgc tccgccggtt tttctccatc gcctcgctca tactctgctc
     3241 gtgggcgagg atggcgtcgc tgattctcct cgcgcttgcg ctcagttccg ctctgacaga
     3301 ctgctcgtgc tcgctgaatg cggctttcag catctcgccg gtactctgct tctgcgcttt
     3361 cgattgctgc tctaagtcct tcgccagcgt taaaagactg ctcatagatg gctcccttca
     3421 gtcggatgtt tcgccccccg tccgggtcgg caatgctgat actgcttttc gtggtgcgca
     3481 ccacctcaaa acctgaccgt tccagcgcct cagtgacgtc ctgacggttt ttcagctccc
     3541 cggacgaagc aagggtcagc agtccgcgcg tgatggcttc agtggcctcc tgcttcgttt
     3601 tcggcagtcc ggacggcgtg acaagcgccc ggcggttttc cggcgcgttc gggtcatgca
     3661 gccccagtct gccgttcacg atggtctgcc aggcatcgat gcgcggccgg tcggcgcggt
     3721 cgtagtacgg ctggagccgc ctgccggtca gcagttcggt attggggatc agaaagttca
     3781 gctccagacg ccccttgtcc gcgtgctcca cccacagaat gctgtactga tctttatcga
     3841 gtccgggcat cagaacccgc tcgaagctgg ccatcagttt ttcccgctgg ccgggaggca
     3901 gatcggcctc cgcaaacgac agtacgccgg aggtgtattt cttcacgtaa ggcgacgcgt
     3961 caatcagctc ccggacttct tccggcttcc cctgcaggac gctggtgcct tcacgctgcc
     4021 ggtctttacc cagcagatag tccaccggcc cggcgccacc gccgcgaccg cgtggatgaa
     4081 atttaacgat catcgtccgt tcctttctca agaacggcgt gccgcagccg ctcaagcccg
     4141 gcatcgatgg ccatcagcgc cgccacaatc tgtaccctgt catggccggt gccgccgccg
     4201 gcgttaacac ggcgggctat ctggttcagg ttattgccca taccggcaag ctggcgcagc
     4261 agcgccggcg agagtgaggg gagctttccg gtgcgcgcag gcttttcgtc caggcaggtc
     4321 tgccgcatcc acgccgccag cggcctgccg tcgcagcgct caagcagccg ccggtgctcg
     4381 ccctccgtca cccacatggt gagcatcttg ttccgtttct ctgacaaacc ggcctcctga
     4441 taacgccggg acgggcggga aagcctttcc cggtcggcgc ggggttggac aagccgcagg
     4501 cgcgtcagtg gcttttggcg ggtttcgggg cgcagccctg aaccagtcac gtagcgctag
     4561 cggagtgtat actggcttaa tatgttgaca cggatgaggg tgtcagtgaa gtgcttcatg
     4621 tggcaggaga aaaaaggcgg caccggtacg tcagcagaat atgtgataca gaatatatac
     4681 cgcttcctcg ctcactgact cgctgcgctc ggtcgttcgg ctgcggcgag cggtgcgggc
     4741 ttacgaatgg ggcggaaatt tcctggtaga taccaggaag aaacttaacg gggaagcgat
     4801 aaggccgcgg caaagccgtt tttccatagg ctccgccccc ctgacaagca tcacgaaatc
     4861 tgacgctcaa atcagtggtg gcgaaacccg acaggactat aaagatacca ggcgtttccc
     4921 cctggtggct ccctcgtgcg ctctcctgtt cctgcctttc ggtttaccgg tgtcactccg
     4981 ctgttatggc cgcgtttatc tcattccacg cctgacactc agttccggga aggcagttcg
     5041 ctccaagctg gactgtatgc acgaaccccc cgttcagtcc gaccgctgcg cctcctccgg
     5101 taactttcaa cttgattcca acccggaaag gcacgacaaa gcgccactgg cagcagccac
     5161 tggtaagagg gtgtacaaga gattactgat acagagttct tgaagtcaga gccaaactac
     5221 ggctaaactg gaaggacgaa tttggtggca gcggtcttgt acaccctgtt accacggttc
     5281 agaagt
//
