LOCUS       NZ_AP021913             4163 bp    DNA     circular CON 28-NOV-2023
DEFINITION  Klebsiella pneumoniae strain WP2-S17-ESBL-02 plasmid
            pWP2-S17-ESBL-02_4, complete sequence.
ACCESSION   NZ_AP021913
VERSION     NZ_AP021913.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMD00194339
            Sequence Read Archive: DRR199175
            Assembly: GCF_014168575.1
KEYWORDS    RefSeq.
SOURCE      Klebsiella pneumoniae
  ORGANISM  Klebsiella pneumoniae
            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 pneumoniae str.
            WP2-S17-ESBL-02 isolated from wastewater treatment plant effluent
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 4163)
  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                   :: 276x
            Sequencing Technology             :: Sequel; NextSeq 500
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 11/28/2023 08:49:01
            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)                     :: 5,350
            CDSs (total)                      :: 5,232
            Genes (coding)                    :: 5,115
            CDSs (with protein)               :: 5,115
            Genes (RNA)                       :: 118
            rRNAs                             :: 9, 8, 8 (5S, 16S, 23S)
            complete rRNAs                    :: 9, 8, 8 (5S, 16S, 23S)
            tRNAs                             :: 84
            ncRNAs                            :: 9
            Pseudo Genes (total)              :: 117
            CDSs (without protein)            :: 117
            Pseudo Genes (ambiguous residues) :: 0 of 117
            Pseudo Genes (frameshifted)       :: 52 of 117
            Pseudo Genes (incomplete)         :: 60 of 117
            Pseudo Genes (internal stop)      :: 24 of 117
            Pseudo Genes (multiple problems)  :: 15 of 117
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            AP021913.1.
            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..4163
                     /organism="Klebsiella pneumoniae"
                     /mol_type="genomic DNA"
                     /strain="WP2-S17-ESBL-02"
                     /isolation_source="wastewater"
                     /db_xref="taxon:573"
                     /plasmid="pWP2-S17-ESBL-02_4"
                     /geo_loc_name="Japan:Tokyo"
                     /lat_lon="35.6640 N 139.4378 E"
                     /collection_date="2017-07-10"
     gene            complement(101..400)
                     /locus_tag="H7R06_RS26585"
     CDS             complement(101..400)
                     /locus_tag="H7R06_RS26585"
                     /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_125564845.1"
                     /translation="MSNPPFEFVIRYHDLSPEQVRSFIDDAFHRVDLVLEKQLSDRPGF
                     FIPTCKSLTTNPSLSEIAIAVYNTYAVTEMIKDQLLRQSSNITLIKDIREIFVS"
                     /name="hypothetical protein"
     gene            complement(491..751)
                     /locus_tag="H7R06_RS26590"
     CDS             complement(491..751)
                     /locus_tag="H7R06_RS26590"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_010891192.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="protein L"
                     /protein_id="WP_072016306.1"
                     /translation="MAAYTEKTEQFLQRVTHTQTWWTSTYDPSDTVPVSGIYRCTVCGK
                     EITSNKNDPFPPQNHHQHSQKQNVKWQLIVRTDTNGDKFGN"
                     /name="protein L"
     gene            1229..1564
                     /locus_tag="H7R06_RS26595"
                     /old_locus_tag="WP2S17E02_P40010"
     CDS             1229..1564
                     /locus_tag="H7R06_RS26595"
                     /old_locus_tag="WP2S17E02_P40010"
                     /inference="COORDINATES: protein motif:HMM:NF017757.3"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="type II toxin-antitoxin system RelE/ParE family
                     toxin"
                     /protein_id="WP_077255464.1"
                     /translation="MSASEMKEICLDVTGVDKELKSLPIDKALAFLHNLKLVAAGIEPE
                     LKVEHLKVVAPGVIELKINGSPAYRCVYTIKSPGKVIVLRVFKKTTNGPARKDLEVVKQ
                     RLKNLKI"
                     /name="type II toxin-antitoxin system RelE/ParE family
                     toxin"
     gene            complement(1584..1895)
                     /locus_tag="H7R06_RS26600"
                     /old_locus_tag="WP2S17E02_P40020"
     CDS             complement(1584..1895)
                     /locus_tag="H7R06_RS26600"
                     /old_locus_tag="WP2S17E02_P40020"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_017134632.1"
                     /GO_function="GO:0003677 - DNA binding [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="helix-turn-helix transcriptional regulator"
                     /protein_id="WP_039817123.1"
                     /translation="MSNQNIFEILTSDPVSLNMWNLKSNLILAIHKTVRDNGWNQTEAA
                     AHLGISQPRVSNMLKGKLDKFSTDSLLEIMFKLGYKLDMQVHPSSEVILEMGMKKAML"
                     /name="helix-turn-helix transcriptional regulator"
     gene            complement(2253..2366)
                     /locus_tag="H7R06_RS26975"
     CDS             complement(2253..2366)
                     /locus_tag="H7R06_RS26975"
                     /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_072016307.1"
                     /translation="MHEPPVQSDCCALSGNYHLESNPVRHAKAPLAAAIGN"
                     /name="replication initiation protein"
     gene            2775..2966
                     /locus_tag="H7R06_RS26605"
                     /old_locus_tag="WP2S17E02_P40030"
     CDS             2775..2966
                     /locus_tag="H7R06_RS26605"
                     /old_locus_tag="WP2S17E02_P40030"
                     /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_000166328.1"
                     /translation="MTKQQKTALNMAKFIQNQSLLLLEKLNELDLDAEADLCEKLHDDA
                     EHLFRTLSSRLDALQDGN"
                     /name="Rop family plasmid primer RNA-binding protein"
     gene            2966..3367
                     /locus_tag="H7R06_RS26610"
                     /old_locus_tag="WP2S17E02_P40040"
     CDS             2966..3367
                     /locus_tag="H7R06_RS26610"
                     /old_locus_tag="WP2S17E02_P40040"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_009310048.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="transcriptional regulator"
                     /protein_id="WP_039817125.1"
                     /translation="MARVSISEASRLTGKSRTTLHRLIKAGDLSTCSGERNAKMVDTSE
                     LLRVFGPFEQPKSEHHSGQVSEQRDTASADQSEQVIRHLKQEIEHLNTLLLSKDSHIDS
                     LKQAMLLLENHQAKLTESPAPWWKFWKKS"
                     /name="transcriptional regulator"
     Typing          complement(2254..2727)
                     /name="ColRNAI_rep_cluster_1987"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="89.627"
                     /coverage="92.0"
                     /evalue="9.83e-170"
ORIGIN
        1 ccacctcccg gcgacctgtt cggaaactcc ctctgcgcca gtcttgtttg gccaaataag
       61 ctgttatgag ataagcactt gtggtgtggt agagaagatc ctagctgaca aagatctctc
      121 ttatgtcttt aatgagagtg atattggaag attgtcgaag caattggtcc tttatcattt
      181 cagtaacggc atatgtgttg taaacagcga tagctatttc agataaagac ggattagtag
      241 ttagtgactt acatgtagga ataaaaaagc ctggacgatc ggataactgt ttttctagaa
      301 cgagatcaac acgatgaaaa gcatcgtcaa taaagctccg cacttgctct ggagacaggt
      361 catgataacg aatgacaaat tcaaaaggtg gattagacat aagacctcag atcgtggatt
      421 gtttggtacg agtgagtaat gagactttct ggtaaatcac tgagggaaag ccccgaaggg
      481 cttccgtgtc tcagttacca aatttatcac cgtttgtgtc tgtcctcaca attagctgcc
      541 atttaacatt ttgtttttga ctatgttgat gatggttttg tggggggaaa ggatcgtttt
      601 tattactagt tatctcttta ccgcatacgg tacagcgata aatgcctgat actggaactg
      661 tatcgcttgg atcgtatgtt gatgtccacc aagtctgtgt gtgtgtaact cgctgtaaga
      721 actgctctgt tttttccgta tatgcagcca ttcttttacc tttcttatcg tttattttct
      781 tggttttcct gcgtctgagc gttttttgcg caccgttccg tcattgtttc tgtctctggg
      841 ctgggttccg ccaccaggct ttggcactac cacatctttg tttagcggtc ttctatctgc
      901 catctcttaa ctccttcttt cagttgtgat gctttacgga gacttttagc ttcgatggag
      961 gattactttc gtaaacagct gatagcttat ttattgagct aacggcatgc gcaagcgaag
     1021 cggcatattg ttagtttata caacttagag tatattgatg caatggatat tgcctaaagc
     1081 agtgtcctga accactgaaa ttaaatgcct ctacctggtg aatctcatca ggcgtagagg
     1141 tttggttttt tagtgaggtt tttttaatcg gagtatcaaa tgagaaattt aattgttcga
     1201 ccactaaacc ccaacaaagg aggacactat gtccgcaagc gaaatgaaag agatttgtct
     1261 agacgtaact ggtgttgata aagagctaaa gtctttacct attgataaag ctttagcttt
     1321 tttgcacaac ttgaagttgg ttgccgctgg aattgaacca gaactgaaag ttgaacacct
     1381 gaaagtagtt gctccaggcg tgattgagtt gaagataaat ggtagccctg cttatcgttg
     1441 tgtgtacacg ataaaatcac ccggcaaggt gatcgtgtta cgtgtcttca agaaaacgac
     1501 taacggacct gcacgcaaag acttagaagt cgtgaagcaa cggctgaaaa atctcaaaat
     1561 atagtatcca ctcaaggcga tgttcacagc atcgcctttt tcatgcccat ctctaaaatt
     1621 acttcagagg atgggtgtac ttgcatgtct aatttgtaac ccagcttgaa catgatttcc
     1681 agtagtgaat ctgtagaaaa cttgtccagc ttccctttca gcatgttgct aaccctaggt
     1741 tggcttatgc ctagatgtgc ggccgcctct gtttggttcc agccgttatc tcttaccgtc
     1801 ttatgtatgg cgaggatcag gtttgatttc aggttccaca tgtttaggga taccggatca
     1861 ctcgttagta tttcgaatat gttttgattg ctcataattt tcatctccta tctgaatgcg
     1921 agcatttagt tgtcacaaga caataggaac gattattagc ttacactaaa gtttgcggat
     1981 tatacaagtt acagtatgca tgacaagatg tagatggggt tttatttgta aatttaaagc
     2041 attctaacaa cacttgttga ctggatcttg gtcgtcagcg tagtcttcat ttgttttaaa
     2101 aagaaaaacc gcctggggag gcggtttttc aaggttcatc aaaccggcaa gtttatgaac
     2161 cgaggtaact ggcttagagg agcacagtca ccaaatctgt tttatcagtg tagccgtata
     2221 gtacgtgtct tttcaagact tcactcctct aatcagttac caatggctgc tgccagtggc
     2281 gcttttgcat gtcttaccgg gttggactca agatgatagt taccggataa ggcgcagcag
     2341 tcggactgaa cggggggttc gtgcatacag tccagcttgg agcgaactgc ctacccggaa
     2401 ctgagtgtca ggcgtggaat gagataaacg cggccataac tgcggaatga caccggtaaa
     2461 ccgaaaggca ggaacaggag agcgcacgag ggagccatca gggggaaacg cctggtatct
     2521 ttagagtcct gtcgggtttc gccaccactg atttgagcgt ctgtttttgt gatgcttatc
     2581 aggggggcgg agcctatgga aaaacggcaa cgccgcggcc ttccgttgtc ctttccgagc
     2641 tgtctgtcct atgcccttat gtgtgcgttg cgaccgctcg ccgcagccga acggtaggag
     2701 cgtagcgact gagtgagcga ggaagcggaa aagagaccgg ttttacattg agcactgacg
     2761 ctctgaggcc ctttatgacg aaacaacaga aaacggcgct gaacatggct aagttcatcc
     2821 agaatcagtc cctgctcctg ctggagaagc ttaacgagct tgatctcgat gctgaggctg
     2881 acctttgtga gaaactccac gatgatgcgg agcatctttt ccgtacactg tcctcgagac
     2941 tggatgcatt acaggatggt aactgatggc ccgagtgtct attagtgagg cttcccgact
     3001 gacgggtaag agtagaacaa cactgcacag gttaattaaa gcaggtgacc tgtccacctg
     3061 tagcggtgaa cgtaatgcaa aaatggtaga tacttcagag cttttacgtg tctttggtcc
     3121 ctttgagcaa ccgaagagtg aacaccattc tggacaggtc tctgaacagc gtgatacagc
     3181 ctctgctgac cagagtgaac aggtgattcg tcatctgaaa caggagattg aacacctgaa
     3241 caccttactt ttgtccaagg attcgcacat tgatagcctg aaacaggcca tgctccttct
     3301 tgaaaatcac caggcaaaat taactgaatc cccggcgcca tggtggaaat tctggaaaaa
     3361 atcctgaccc cgtcatgctt cagttttcct ctccggccat cccggggagt tcctgaacct
     3421 tcccaaaaat cgccagatct ctgaacgctc ctcaccacta aaaatatcca caccccacgc
     3481 aaaattaaaa ttttgcagat ttgtatttta tatcagcagc ttacgttcta taaatttcgt
     3541 ttttttaatt ttatttatac agatccgact ctatgacgag tcgtcataga gtccccggcg
     3601 agtcgtcata gagtcggtaa cgactcagga ctataaaaac aataagttaa caacgacccg
     3661 actctagacc cgactccccg tttggttgtt ttttagacgt gacgactctg ggtacgactc
     3721 tagtgaagag tcgccggtga atcgtgtggt gagtcgtccg gcgacttgcc ataacgtgat
     3781 tgccggccgt cgacgaaccc gattcctgaa cgtgctgaaa accggttttc cggctgcgcc
     3841 ggcaacgctt cacggccacg caataaattg cgtccccgtt caccgttttc ggatgggaag
     3901 aacgccggaa acaggactta ccctggctga atggcgtgaa ttttcgcgct atgcacttgc
     3961 gtgcatactc atgcatgccg taaaaacaga gcctgcgcgt ttctggcggg ttttcgggtg
     4021 gtttgttgcc tgttttaccg gtttcccgtc agaaacgccc tgaggccgtt ttagcggtgc
     4081 gtacaatcat acctttatgt taaatgatag atgtaaaaag ccccgattgg tctgatggat
     4141 ttcctgctga ggtgcgaagc ggt
//
