LOCUS       NZ_CP067258             3991 bp    DNA     circular CON 05-JAN-2024
DEFINITION  Klebsiella pneumoniae strain ESBL_DR09 plasmid pESBL_DR09c, complete
            sequence.
ACCESSION   NZ_CP067258
VERSION     NZ_CP067258.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN17214843
            Assembly: GCF_017639065.1
KEYWORDS    RefSeq.
SOURCE      Klebsiella pneumoniae
  ORGANISM  Klebsiella pneumoniae
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Klebsiella/Raoultella group; Klebsiella.
REFERENCE   1  (bases 1 to 3991)
  AUTHORS   Biggel,M.
  TITLE     Characterization of fosA carrying plasmids from multidrug resistant
            Enterobacteriaceae food and environmental isolates
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 3991)
  AUTHORS   Biggel,M.
  TITLE     Direct Submission
  JOURNAL   Submitted (05-JAN-2021) Institute for Food Safety and Hygiene,
            University of Zurich, Winterthurerstrasse 272, Zurich 8057,
            Switzerland
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: Unicycler v. 0.4.8
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 100x
            Sequencing Technology :: Illumina MiniSeq, Oxford Nanopore MinIon
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 01/05/2024 07:55:03
            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)                     :: 5,450
            CDSs (total)                      :: 5,328
            Genes (coding)                    :: 5,207
            CDSs (with protein)               :: 5,207
            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)              :: 121
            CDSs (without protein)            :: 121
            Pseudo Genes (ambiguous residues) :: 0 of 121
            Pseudo Genes (frameshifted)       :: 54 of 121
            Pseudo Genes (incomplete)         :: 69 of 121
            Pseudo Genes (internal stop)      :: 16 of 121
            Pseudo Genes (multiple problems)  :: 17 of 121
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP067258.1.
            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..3991
                     /organism="Klebsiella pneumoniae"
                     /mol_type="genomic DNA"
                     /strain="ESBL_DR09"
                     /isolation_source="imported food: chilli pepper"
                     /db_xref="taxon:573"
                     /plasmid="pESBL_DR09c"
                     /geo_loc_name="Switzerland: Zurich"
                     /collection_date="2014"
                     /collected_by="ILS, University of Zurich"
     gene            join(3589..3991,1..20)
                     /locus_tag="JJB15_RS27095"
                     /old_locus_tag="JJB15_27100"
     CDS             join(3589..3991,1..20)
                     /locus_tag="JJB15_RS27095"
                     /old_locus_tag="JJB15_27100"
                     /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_040214596.1"
                     /translation="MAIVSISEAARLVKVSRPTIYKMINSGKLSYTSVVKHGKAIKVID
                     TSELIRVFGSLDGVIDTVKYDVKSDAESTGINSVGLHDLQHRIALLEAENDGLKGAVKA
                     RDEHIDSLRQAMQLLEHKHEPSSPPHSPWWKFWKKS"
                     /name="helix-turn-helix domain-containing protein"
     gene            824..1096
                     /locus_tag="JJB15_RS27100"
                     /old_locus_tag="JJB15_27105"
     CDS             824..1096
                     /locus_tag="JJB15_RS27100"
                     /old_locus_tag="JJB15_27105"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_004897311.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_019405140.1"
                     /translation="MATDAQVKEINALIKKYPDSCSICHEVYDEDDVTYTVFGYDRKGK
                     IQVTTGCCAGMLTEPVLLGVCGCFDPEERDEIMQNHPMAKQFFTE"
                     /name="hypothetical protein"
     gene            1677..2651
                     /locus_tag="JJB15_RS27105"
                     /old_locus_tag="JJB15_27110"
     CDS             1677..2651
                     /locus_tag="JJB15_RS27105"
                     /old_locus_tag="JJB15_27110"
                     /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_114269875.1"
                     /translation="MAFFNLLFVASLICFGGVMGSYSRGCRDSQNKFSKDKDENNKRAS
                     VYRFGIASAFICVPFISSFLHVDYSSIIFPVADGGGTKFIEQILLLISVSGISAYLGYA
                     LLDGLANKVLKEQVDGIDKKQQDLEAEQDEFKDELDRSKELIEQLEMDKKTTKFELGYF
                     KAISAVDKAESMMSIPDEALSVKKKLTEALDAVTESLSLVKREDVAKDDYDKLLVLKAY
                     ILKRLDRIDDALSITDELLMSNEDNPILIYNKACYQYILRRCQADNSDIKDMIRRALTI
                     KVTDPEFIRRQEKIRTKVIGNKDNDLEGLFTDAELEELKVAIK"
                     /name="hypothetical protein"
     gene            complement(2878..2990)
                     /locus_tag="JJB15_RS27335"
                     /pseudo=""
     CDS             complement(2878..2990)
                     /locus_tag="JJB15_RS27335"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_005761324.1"
                     /note="frameshifted; Derived by automated computational
                     analysis using gene prediction method: Protein Homology."
                     /pseudo=""
                     /codon_start=1
                     /transl_table=11
                     /product="replication initiation protein"
                     /name="replication initiation protein"
     gene            3398..3589
                     /locus_tag="JJB15_RS27110"
                     /old_locus_tag="JJB15_27115"
     CDS             3398..3589
                     /locus_tag="JJB15_RS27110"
                     /old_locus_tag="JJB15_27115"
                     /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_040198051.1"
                     /translation="MTKQQKTALNMAKFIQNQSLLLLDKLNELDLDVEADLCEKLHDDA
                     EHLFRTLSSRLDELQDGN"
                     /name="Rop family plasmid primer RNA-binding protein"
     Typing          complement(2879..3350)
                     /name="ColRNAI_rep_cluster_1987"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="86.777"
                     /coverage="92.0"
                     /evalue="7.8799999999999974e-146"
ORIGIN
        1 aattctggaa aaaatcctga tcccgccatg cttccatttt gctctccggc cattccgggg
       61 agttcctgaa ccttcccaaa aatcgtcaga tccctgaacg ctcctcacca ctaaaaatac
      121 ccacacacta cgcaaaatta aaattttgca gatagacctt tattttcaat cagttatcta
      181 ttttaaatta cgcaatttta ttttttgtaa ggtgaatccg agtcgtggac gactctatgg
      241 cgaatcgccg atgacttgcc cacgattcat atgtgaatca cgccatataa tcagtacgtt
      301 atgatgactt gactctagag tcgacttgcc gggttggtgg ctttttgacc atggcgactc
      361 tagagtcaag tcacgagtcg aatcgccggt gaatcgtgtg gtgagtcgtc cggcgacttg
      421 ccataatgtg attgctggtc tcgacaaacc cgattcctga acgtgctgaa aaccggtttt
      481 ccggctgcgc cggcaacgct tcacggccac gcaataaatt gcgcacccgt tcaccgtttt
      541 cagtctggtt tggtgcgggt tttgagttgc ctggcctgaa ttcaggctga aatccccaga
      601 cagtcagtca agtgcataac gattcatgcc cgtaaaacgc cctggagcga ttttgaggcg
      661 ttttcagggg gtaagacgta ggatttaatg ggttacgccc cagaatcgtt ctgaggccgt
      721 tttagcggtg cgtgtaatgg gacgttatgg taaatcaacg gcggatgcct gagtctgtgt
      781 tagagtcagc ggattgtgat aatcagtgac tcagggagat gttttggcta ctgacgctca
      841 ggtaaaagaa attaatgcac tcatcaaaaa atacccggac tcatgctcca tctgtcatga
      901 agtctatgat gaggatgatg tgacctacac cgtttttggg tatgaccgga aaggtaaaat
      961 acaggtcacc acgggatgct gtgccggaat gctgacagag ccggttctgc tgggtgtctg
     1021 tgggtgcttt gacccggaag aacgtgacga gatcatgcag aatcacccca tggcaaagca
     1081 gtttttcaca gagtgattcc gtatctgttg agtctgaagc ccgccttgtg cgggcttttt
     1141 catatctgcg tgaaatgagg cgttatggta aatgcacgca ttcattcttt tgaaaaatcc
     1201 agaatgacga atacatgggg catgtttata tgactattga gaggaaggat gttattgtaa
     1261 aaaaatcctt taaattcaat catttaatta tggtagccaa aggggcgggg cttcgcttat
     1321 tcctaaggaa taagcgaagc cccgcccctt ggctaccagt gcattatact tttttttttc
     1381 acccaatgtc aatacatggg ttgattttat cattttaagc atttttgttg ttgtgagtgc
     1441 tgggtttatg ccctatattc agcgctaagc aagcatgggc ttgcaaagga acaattaatg
     1501 agaggtgctc tatgaaaaaa atcaaacttc acgatgagcg tccagacttg taagtgtcaa
     1561 gtcagcagaa aaaggcagcc aaggctgcct tttttgttat tggttagtat atgattgagc
     1621 ttatcttaac ttacctgaac aaagttttat tgtttgcttt gcgcaaggat tctctcatgg
     1681 ctttttttaa cctattgttt gttgcatctc taatttgttt tggtggtgtt atggggagct
     1741 attccagagg ttgccgagac tcccaaaata aattttcaaa agataaggat gagaataata
     1801 aaagagctag tgtttataga tttggtatag catccgcatt tatttgtgtt cctttcatat
     1861 catcatttct tcatgttgat tactcaagta taatatttcc tgtggctgat ggtggtggaa
     1921 ctaagttcat agaacaaata ttgcttctta tttctgtttc ggggatctct gcgtatcttg
     1981 ggtacgcatt actggatggt cttgccaaca aagtattaaa agagcaagta gacggtatag
     2041 ataaaaagca acaagatttg gaggctgaac aagatgagtt taaagatgag cttgatagga
     2101 gcaaggagct gatagaacag cttgaaatgg ataagaaaac aacaaaattc gagctaggat
     2161 actttaaagc catttcagct gtggataaag cagaatcaat gatgtccatt ccggatgagg
     2221 ctctttctgt taagaaaaaa ctaactgagg cattagatgc tgtaacggaa tcattgtctc
     2281 ttgttaaaag agaggatgta gctaaggatg actacgacaa gctcttagtg cttaaagctt
     2341 atattttgaa aagacttgat cgtattgatg atgctctgtc aattacggat gagttactta
     2401 tgagtaatga ggataaccct atacttattt acaataaggc ttgctatcaa tatattttgc
     2461 gtcgttgcca agctgataac tccgatatta aggatatgat tcgcagggct ctgactatta
     2521 aagttacaga tcctgaattc attcgcaggc aagaaaaaat aagaaccaag gtcataggaa
     2581 ataaagataa tgatcttgaa gggttgttta ctgacgctga gctggaggaa ttaaaggtgg
     2641 ctatcaaata ggcagtggct agctctatga attccaaaaa gatccttgac gatcctttga
     2701 ggtgcagcgt actctacccc tcaaacgaaa aaaccacccg gcaaggtggt ttttcgaagg
     2761 ttcagtaacc ggcaagtttc tgaaccgagg taactggctt agaggagcgc agtcaccaaa
     2821 acagttcgtt tagtttagcc ttaactggcg cataacttca agactaactc ctctaaatca
     2881 attaccagtg gctgctgcca atggcgataa gtcgtgtctt tccgggttgg actcaagaga
     2941 tagttactgg aacgggcgca gcagtcggac tgaacggggg gttcgtgcat acagtccagc
     3001 ttggagcgaa ctgccttccc ggagccgagt atcaggcatg gaatgagaaa acgcggccat
     3061 aacagcggaa tgacaccggt aaaccgaaag gcaggaacag gagagcgcac gagggagcca
     3121 ccagggggaa acgcctggta tctttaagtc ctgtcgggtt tcgccaccac tgatttgagc
     3181 gtccgtttcc gcgatgcttg tcaggggggc ggagcctatg gaaaaacagc cgttcggcgg
     3241 cctttgcttt tctgcctcat atcttggttg cctacgtttt tatgtacacg ctcctgccgc
     3301 tcgccgcagc cgaacggctg gagcgtagcg actgagtgag cgaggaagcg gaaaagagac
     3361 tagtttgaca ttgagcactg acgctctgag gcttcttatg acaaaacaac agaaaacagc
     3421 gctgaacatg gctaaattca tccagaatca gtctctgctc ctgctggata agcttaacga
     3481 gcttgatctc gatgtcgagg ccgacctttg tgagaaactc catgatgatg cggagcatct
     3541 tttccgtaca ctgtcctcga gactggatga attacaggat ggtaactgat ggccatagtg
     3601 tctattagtg aagcggcacg gcttgttaag gttagtcgcc ccacaattta caagatgatt
     3661 aacagtggga agttaagtta cacctctgtg gtaaagcacg ggaaagctat taaagttatt
     3721 gatacttcag agctaattag agtgtttggt tctcttgatg gtgtaatcga tactgtaaaa
     3781 tatgatgtaa aaagtgacgc agaatctaca ggtattaaca gcgttggttt acatgattta
     3841 caacatagaa tcgctttact tgaagctgaa aacgatggtc ttaaaggggc tgttaaggct
     3901 cgagatgagc atattgattc ccttcgtcag gctatgcagc ttctggagca caagcacgaa
     3961 ccttcttcac caccccattc cccgtggtgg a
//
