LOCUS       NZ_AP022063             2936 bp    DNA     circular CON 28-NOV-2023
DEFINITION  Klebsiella sp. WP4-W18-ESBL-05 plasmid pWP4-W18-ESBL-05_6, complete
            sequence.
ACCESSION   NZ_AP022063
VERSION     NZ_AP022063.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMD00194464
            Sequence Read Archive: DRR199300
            Assembly: GCF_014169075.1
KEYWORDS    RefSeq.
SOURCE      Klebsiella sp. WP4-W18-ESBL-05
  ORGANISM  Klebsiella sp. WP4-W18-ESBL-05
            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. WP4-W18-ESBL-05 isolated
            from wastewater treatment plant effluent
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 2936)
  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                   :: 324x
            Sequencing Technology             :: Sequel; NextSeq 500
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 11/28/2023 10:05:00
            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)                     :: 5,069
            CDSs (total)                      :: 4,953
            Genes (coding)                    :: 4,803
            CDSs (with protein)               :: 4,803
            Genes (RNA)                       :: 116
            rRNAs                             :: 9, 8, 8 (5S, 16S, 23S)
            complete rRNAs                    :: 9, 8, 8 (5S, 16S, 23S)
            tRNAs                             :: 84
            ncRNAs                            :: 7
            Pseudo Genes (total)              :: 150
            CDSs (without protein)            :: 150
            Pseudo Genes (ambiguous residues) :: 0 of 150
            Pseudo Genes (frameshifted)       :: 36 of 150
            Pseudo Genes (incomplete)         :: 116 of 150
            Pseudo Genes (internal stop)      :: 17 of 150
            Pseudo Genes (multiple problems)  :: 17 of 150
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            AP022063.1.
            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..2936
                     /organism="Klebsiella sp. WP4-W18-ESBL-05"
                     /mol_type="genomic DNA"
                     /strain="WP4-W18-ESBL-05"
                     /isolation_source="wastewater"
                     /db_xref="taxon:2675713"
                     /plasmid="pWP4-W18-ESBL-05_6"
                     /geo_loc_name="Japan:Tokyo"
                     /lat_lon="35.6514 N 139.4813 E"
                     /collection_date="2018-02-13"
     gene            complement(join(2869..2936,1..76))
                     /locus_tag="H7R58_RS25215"
     CDS             complement(join(2869..2936,1..76))
                     /locus_tag="H7R58_RS25215"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001326446.1"
                     /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_085409091.1"
                     /translation="MHEPPVQSDCCALSGNYRLESNPERHDLSPLAAATGNGFAEQRNV
                     EV"
                     /name="replication initiation protein"
     gene            501..692
                     /locus_tag="H7R58_RS25190"
                     /old_locus_tag="WP4W18E05_P60010"
     CDS             501..692
                     /locus_tag="H7R58_RS25190"
                     /old_locus_tag="WP4W18E05_P60010"
                     /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_004207910.1"
                     /translation="MTKQQKTALNMAKFIQNQSLLLLEKLNELDLDAEADLCEKLHDDA
                     EHLFRTLSSRLDSLQDGN"
                     /name="Rop family plasmid primer RNA-binding protein"
     gene            692..1114
                     /locus_tag="H7R58_RS25195"
                     /old_locus_tag="WP4W18E05_P60020"
     CDS             692..1114
                     /locus_tag="H7R58_RS25195"
                     /old_locus_tag="WP4W18E05_P60020"
                     /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_004207907.1"
                     /translation="MARVSISEAARLVKVSRPTIYKMINSGKLSYTSVVKHGKDIKVID
                     VSELIRVFGSLDGVTDTVKYDVKSDAISTEVNTIGLHDLQHRIALLEAENDGLKGAVKA
                     RDEHIDSLRQAMQLLEHKHDPSSPAHSPWWKFWKKS"
                     /name="helix-turn-helix domain-containing protein"
     gene            complement(1840..2145)
                     /locus_tag="H7R58_RS25200"
     CDS             complement(1840..2145)
                     /locus_tag="H7R58_RS25200"
                     /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_058876158.1"
                     /translation="MMKVGNVREYGPTKSHLLLMVTTLPAGVGVFIYPIVEVIWGDLSL
                     LKVAGYTFLSLIVGGLLANIIVRGLSATTFGILLVNPLAMICSIAGLIVLAIQHLP"
                     /name="hypothetical protein"
     gene            complement(2202..2579)
                     /locus_tag="H7R58_RS25205"
     CDS             complement(2202..2579)
                     /locus_tag="H7R58_RS25205"
                     /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_110982627.1"
                     /translation="MIHNHPTWVIKSMIYRLGILSISLLTVGCVSTSNVLELGRDTYTV
                     SATADGFRDAASARQSAFKTGSEKCNSLGKKFLLTNENVANTRMGIDTTVTLYFRCLDE
                     RDSEYVRPNLQKAPDLRIESK"
                     /name="hypothetical protein"
     Typing          complement(2..337)
                     /name="ColRNAI_rep_cluster_1987"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="93.769"
                     /coverage="82.0"
                     /evalue="6.18e-141"
     Typing          complement(2723..2927)
                     /name="rep_cluster_2374"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="83.796"
                     /coverage="95.0"
                     /evalue="5.680000000000001e-47"
ORIGIN
        1 gtctttccgg attggactca agacgatagt taccggataa ggcgcagcag tcggactgaa
       61 cggggggttc gtgcatacag tccagcttgg agcgaactgc ctacccggaa ctgagtgtca
      121 ggcgtggaat gagataaacg cggccataac agcggagtga caccggtaaa ccgaaaggca
      181 ggaacaggag agcgcacgag ggagccgcta gggggaaacg cctggtatct ttatagtcct
      241 gtcgggtttc gccaccactg atttgagcgt ccgtttctgc gatgcttgtc aggggggcgg
      301 agcctatgga aaaacggcaa cgccgtggcc tttccttttt ttcctccttt tcctcctttg
      361 accgctcggt tttctcgagc ttttctatgc atgctcctgc cgctcgccgc agtcgaacga
      421 ccggagcgta gcgactgagt gagcgaggaa gcggaaaaga gacaggtttt acactgagca
      481 ctgacgctct gaggcccttt atgacgaaac aacagaaaac ggcgctgaac atggctaaat
      541 tcatccagaa tcagtctctg ctcctgctgg agaagcttaa cgagcttgat cttgatgctg
      601 aggccgacct ttgtgagaaa ctccacgatg atgcagagca tcttttccgt acactctcct
      661 cgagactgga ttcattacag gatggtaact gatggccaga gtgtctatta gtgaagctgc
      721 acggcttgtt aaggttagtc gtcccactat ttacaagatg attaacagcg ggaagttaag
      781 ttatacctct gttgtaaagc acgggaagga tattaaagtt attgatgtat ccgagcttat
      841 tagggtgttt ggttctcttg atggtgtaac tgatactgta aaatatgatg taaaaagtga
      901 cgcaatttct acagaggtta acaccattgg tttacatgat ttacaacata gaatcgcttt
      961 acttgaagct gaaaacgatg gtcttaaagg ggctgttaaa gcacgcgatg agcatattga
     1021 ttcccttcgc caggctatgc agcttttgga gcacaagcac gacccctctt caccggctca
     1081 ttctccgtgg tggaaattct ggaaaaaatc ctgatcctgc catgtttcag ttttgctctc
     1141 cggcgatccc ggggagttcc tgaaccttcc caaaaatcgc cagatctctg aacgctcctc
     1201 accactaaaa atacccacac cccacgcaaa attaaaattt tgcagattcc ttatttacaa
     1261 caatggttta atgaaaaata aatgtgcggt gatgtgttac aaagtgcaga tccaagtcgt
     1321 ggacgactct atggcgaatc gctgacgaat tgcccacgat tcatatgtga atcacgcttt
     1381 attatcatat tgttatgatg aatcgactct tgattcaatt catcactttg ggtgtttttt
     1441 gttcatggtg actcttgatt caattcacga ttcgaatcgc cggtgaatcg tgtgctaagt
     1501 cgtccggtga cttgccataa cgtgattgcc ggccgtcgac gaacccgatt cctgaacgtg
     1561 ctgaaaaccg gttttccggc tgcgccggca acgcttcacg gccacgcaat aaattgcgtc
     1621 cccgttcacc gttttcggat gggaagaacg ccggaaacag gacttacccc ggctgaatgg
     1681 tgtgaatttc cgcgctatgc acttgcgcgc atactcatgc atgccgtaaa aacagagcct
     1741 gcgcgtttct ggcgggtttt cgggtggttt gttgcctgtt ttaccggttt cccgtcagaa
     1801 acgcgctgag ggcctctcag gcggtgctga taacggatgt tatggtaaat gttggatagc
     1861 aaggactatc agtccggcaa tgctacatat cattgctaat ggatttacga gcaaaatgcc
     1921 gaatgttgtc gcagataatc cgcgaacaat gatattggca agaagtccgc caacaatgag
     1981 ggataaaaag gtataaccag caactttcag taacgacaga tctccccata tcacctctac
     2041 tatcggatag ataaaaacac caacgccagc aggaagcgta gtaaccatca acagtaaatg
     2101 gcttttagtg ggaccgtact ctctgacatt tccaactttc atcatgtgtg tgatgaatga
     2161 cgatatccac cataggatca tgatcataag gaaattcata attatttact ctcgatgcgt
     2221 agatcaggtg ctttctgtag atttggtcgt acatactcgc tgtctctttc gtcaagacaa
     2281 cggaagtaga gtgttactgt ggtatctatc cccattcttg tgttagccac gttttcgtta
     2341 gtgagcagga attttttacc gaggctatta catttctcag aacctgtttt aaaggcactt
     2401 tgacgtgctg atgccgcatc tctaaaacca tcagcagttg ctgaaaccgt atatgtatcc
     2461 ctacctaact caagaacgtt gctggtagaa acacaaccaa ctgtaagcag cgatattgat
     2521 aaaataccta acctataaat cattgatttt attacccaag ttgggtgatt gtggatcatg
     2581 attatatctg ttttttttat tattaaaatc aaggggttca ataattttct tcaaagaact
     2641 ggtgtcgtgg agtggtgctg gtttcccttt gggggggaga gggatggaat aggatcctct
     2701 tgagatcctt tctgttgcgt cgtaatctct tgccctggaa acgaaaaaac cgcccagcaa
     2761 ggcggttttt tcgaaggttc ttagagcagc aactctttga accgaggtaa ctggctttcg
     2821 cagagcacag aaaccaaatt agttattaca gtgtagctgt acttcacctc acacttcaac
     2881 atttctttgt tctgcgaatc cgttaccagt ggctgctgcc agtggcgata agtcgt
//
