LOCUS       NZ_CP086436             5359 bp    DNA     circular CON 28-MAY-2024
DEFINITION  Klebsiella pneumoniae strain AE-2247421-T5-ESBL plasmid
            p2247421-T5-ESBL_5, complete sequence.
ACCESSION   NZ_CP086436
VERSION     NZ_CP086436.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN22108733
            Assembly: GCF_022759945.1
KEYWORDS    RefSeq.
SOURCE      Klebsiella pneumoniae
  ORGANISM  Klebsiella pneumoniae
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Klebsiella/Raoultella group; Klebsiella.
REFERENCE   1  (bases 1 to 5359)
  AUTHORS   Moser,A.I., Endimiani,A., Campos-Madueno,E.I. and Vallone,A.
  TITLE     Genome plasticity in E. coli and K. pneumoniae: SNV accumulation
            over time
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 5359)
  AUTHORS   Moser,A.I., Endimiani,A., Campos-Madueno,E.I. and Vallone,A.
  TITLE     Direct Submission
  JOURNAL   Submitted (04-NOV-2021) Institute for Infectious Diseases,
            University of Bern, Friedbuehlstrasse 51, Bern 3001, Switzerland
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: Unicycler v. 0.4.8
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 269x
            Sequencing Technology :: Illumina NovaSeq; Oxford Nanopore MiniION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_022759945.1-RS_2024_05_28
            Annotation Date                   :: 05/28/2024 04:47:14
            Annotation Pipeline :: NCBI Prokaryotic Genome Annotation Pipeline
            (PGAP)
            Annotation Method :: Best-placed reference protein set; GeneMarkS-2+
            Annotation Software revision      :: 6.7
            Features Annotated                :: Gene; CDS; rRNA; tRNA; ncRNA
            Genes (total)                     :: 5,915
            CDSs (total)                      :: 5,794
            Genes (coding)                    :: 5,632
            CDSs (with protein)               :: 5,632
            Genes (RNA)                       :: 121
            rRNAs                             :: 9, 8, 8 (5S, 16S, 23S)
            complete rRNAs                    :: 9, 8, 8 (5S, 16S, 23S)
            tRNAs                             :: 87
            ncRNAs                            :: 9
            Pseudo Genes (total)              :: 162
            CDSs (without protein)            :: 162
            Pseudo Genes (ambiguous residues) :: 0 of 162
            Pseudo Genes (frameshifted)       :: 61 of 162
            Pseudo Genes (incomplete)         :: 97 of 162
            Pseudo Genes (internal stop)      :: 28 of 162
            Pseudo Genes (multiple problems)  :: 20 of 162
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP086436.1.
            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..5359
                     /organism="Klebsiella pneumoniae"
                     /mol_type="genomic DNA"
                     /strain="AE-2247421-T5-ESBL"
                     /isolation_source="stool"
                     /host="Homo sapiens"
                     /db_xref="taxon:573"
                     /plasmid="p2247421-T5-ESBL_5"
                     /geo_loc_name="Switzerland"
                     /collection_date="2013"
                     /collected_by="Institute for Infectious Diseases Bern"
     gene            complement(431..751)
                     /locus_tag="LNN54_RS29400"
                     /old_locus_tag="LNN54_29410"
     CDS             complement(431..751)
                     /locus_tag="LNN54_RS29400"
                     /old_locus_tag="LNN54_29410"
                     /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_042863636.1"
                     /translation="MLTMWVTEDEHRRLLERCDGRQLAAWMRQTCLDEKPARAGRLPSI
                     SPALLRQLAGMGNNLNQIARKVNAGGAGHDRVQIVAALMAIDAGLERLRHAVLEKGGDD
                     DR"
                     /name="MobC family plasmid mobilization relaxosome protein"
     gene            complement(1742..2416)
                     /locus_tag="LNN54_RS29405"
                     /old_locus_tag="LNN54_29415"
     CDS             complement(1742..2416)
                     /locus_tag="LNN54_RS29405"
                     /old_locus_tag="LNN54_29415"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001259273.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="NYN domain-containing protein"
                     /protein_id="WP_032419561.1"
                     /translation="MRTIVYVDGFNFYHGLVKRSGYKWLDLYKLFEEQLLPIRARESQL
                     IQVKFFTAEIKAKFASRGELAHQAQQAYHRALVQIYGDKLQIIKGYYSERQECAMTFNE
                     GHPPSKTDRTTVWKLEEKQTDVRMALEMYRDAIRGEVEQLVLCTNDSDMIPPIEMIKAD
                     RPELKIGIVVPREQDTSRVISNLASLGDWSLPYVSYEALRLALLPDKVPTRRKPILKPN
                     HW"
                     /name="NYN domain-containing protein"
     gene            2764..3180
                     /locus_tag="LNN54_RS29410"
                     /old_locus_tag="LNN54_29420"
     CDS             2764..3180
                     /locus_tag="LNN54_RS29410"
                     /old_locus_tag="LNN54_29420"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001283459.1"
                     /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 domain-containing protein"
                     /protein_id="WP_032419562.1"
                     /translation="MSDQKNNLDIQKQTLESKWGKEALSMGWSAIPTSLFFLQGALNMT
                     PTTFNVLLHLIIHWWKPYDWPHPSQESIAVRMGVSSRTVQRSLQELENYGLLTKIRTSK
                     DNPKYKGRNIYDMSLLVKSLNILTPDLNAKLNEK"
                     /name="helix-turn-helix domain-containing protein"
     gene            3598..3861
                     /locus_tag="LNN54_RS29415"
                     /old_locus_tag="LNN54_29425"
     CDS             3598..3861
                     /locus_tag="LNN54_RS29415"
                     /old_locus_tag="LNN54_29425"
                     /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="hypothetical protein"
                     /protein_id="WP_054175658.1"
                     /translation="MAAYTSETEKFLQSVSSDQTWWKSRYNPGDSVPHSGIYRCTVCGK
                     EITSNGSDPFPPQNHHQHSQQQAIKWQLIVRTDTKGDRFGIK"
                     /name="hypothetical protein"
     gene            complement(4411..4623)
                     /locus_tag="LNN54_RS29420"
                     /old_locus_tag="LNN54_29430"
     CDS             complement(4411..4623)
                     /locus_tag="LNN54_RS29420"
                     /old_locus_tag="LNN54_29430"
                     /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="MbeD family mobilization/exclusion protein"
                     /protein_id="WP_000137423.1"
                     /translation="MTELEKQLLTALEQLHQDYSQRLDEWESAFAEWQKMSGLMQRENA
                     ALNERVTRLSQQVANLSRQLQRLSQ"
                     /name="MbeD family mobilization/exclusion protein"
     gene            complement(4627..5112)
                     /locus_tag="LNN54_RS29425"
                     /old_locus_tag="LNN54_29435"
     CDS             complement(4627..5112)
                     /locus_tag="LNN54_RS29425"
                     /old_locus_tag="LNN54_29435"
                     /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="MbeB family mobilization protein"
                     /protein_id="WP_055314654.1"
                     /translation="MSSLLALAKDLEQQSKAQQQSTGEMLKAAFSEHEKSVKAELSASA
                     KRISDAISAHEQGMTAAMQSNRLSVLRMVGRTWLTITLVSVLLIAMSGSILWWQGQQIT
                     GNYQTIRAQERTQAMLSEKNHGVQLSLCGEKKLSCVKVNPKAGAYGEEGNWMVLERK"
                     /name="MbeB family mobilization protein"
     Typing          complement(860..1040)
                     /name="MOB_unknown"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="87.978"
                     /coverage="83.0"
                     /evalue="2.08e-53"
     Typing          990..1500
                     /name="ColRNAI_rep_cluster_1987"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="93.359"
                     /coverage="98.0"
                     /evalue="0.0"
     Typing          complement(2..441)
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="95.238"
                     /coverage="100.0"
                     /evalue="5.9000000000000005e-87"
     Typing          complement(5034..5359)
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="88.991"
                     /coverage="95.0"
                     /evalue="1.19e-51"
ORIGIN
        1 atcatgcagc cccagtctgc cgttcaccac ggtctgccag gcatcgatgc gcggccggtc
       61 ggcgcgatcg tagtacggct gcaggcgttt cccggtcagc agttcagtgt tggggatcag
      121 gaaattcagc tccagcctcc ccttgtcggt atgctccacc cacagaatgc tgtactggtc
      181 tttatcgagc ccgggcatca gaacccgctc aaagctggcc atgatctgct cccgctgccc
      241 gggcggcagt tcagcctccg cgaacgacag cacgccggag gtgtactttt tcgcatacgg
      301 cgaggcatcg ataagctccc ggacttcctc cggttttccc tgcagcacgg tcgccccctc
      361 gcgctgccgg tcttttccca gcaggtaatc caccggaccg gcaccaccac cgcgcccccg
      421 ggggtgaaat ttaacgatca tcatcccccc ctttttccag caccgcatgc cgcagccgct
      481 ccagtcccgc gtcgattgcc atcagggcgg ccacaatctg cacccggtca tgaccggcac
      541 caccggcatt cactttccgg gcgatctggt tcaggttgtt ccccataccg gcaagctggc
      601 gcagcagcgc cggcgatatc gacggcagtc tgccggcacg cgccggcttc tcatcgaggc
      661 aggtctgacg catccacgcc gccagctgcc tgccgtcgca ccgctcgagc agccgccggt
      721 gttcgtcttc cgtcacccac atcgtgagca tcttgttgcg tttgtctgcc agagtagcct
      781 cctgagaaca ccgggacggg cgggaaatgt ttcccggtcg gcacggtgtt ggacaagccg
      841 caggcgcgtc agtggctttt agcgggtttc ggggcgcagc cctgaaccag tcacgtagcg
      901 ctagcggagt gtatactggc tcaatatgtt acggaggagt aacactttat gaaagtgctt
      961 catgtgacag ggggaaaatg cagctacagg gcgtacagga gaaaatggag gttacggtga
     1021 tatgacgcct cctcgctcac tcggtcgctt ccgctcctgc cgttcggctg cggcgggcgt
     1081 tacgcacaca cggataagag caaaggcata tgacatgaca agcagggcgg gaaaaggatg
     1141 cggcgctgcc gtttttccat aggctccgcc cccctgacaa gcatcacgaa atctgacgct
     1201 caaatcagtg gtggcgaaac ccgacaggac tataaagata ccaggcgttt ccccctggtg
     1261 gctccctcgt gcgctctcct gttcctgcct ttcggtttac cggtgtcatt ccgctgttat
     1321 ggccgcgttt gtctcattcc acgcctgaca ctcagttccg ggtaggcagt tcgctccaag
     1381 ctggactgta tgcacgaacc ccccgttcag tccgaccgct gcgccttttc cggtaactat
     1441 cgtcttgagt ccaatccgga aagacacgca aaaacgccac tggcagcagc cactggtaac
     1501 aggattcacg gagcagagta gtagagtgct tctacagagt tcttgaagtg gtggcctgac
     1561 tgcggctaca ctggaaggac agttttggta tctgcgctcc gtgaaagcca gttaccttcg
     1621 ggaaaaagag ttggtagctc ttgattccgg caaacgaacc accgttggta gcggtggttt
     1681 ttttgtttgc agggcatgag attacgacga gagtaaaagg atcacaagaa gatccggctg
     1741 tttaccagtg atttggcttc agtattggct tccgcctagt ggggacttta tctggcaata
     1801 aagctaatct taaggcttca taggatacat atggcaagct ccaatcccct aaactagcca
     1861 gattactaat cactcgacta gtatcctgtt cccttggcac tacgattcct atttttaact
     1921 caggccgatc agcttttatc atttctattg gcggtatcat atctgagtcg ttagtgcaga
     1981 gaaccaattg ttctacttca ccacgaatcg catcgcgata catttctaaa gccattctaa
     2041 cgtctgtctg cttttcttct aacttccaga ccgttgttct atccgttttt gatggaggat
     2101 gcccctcatt aaaggtcatt gcacattcct gacgctctga gtaataacct tttattatct
     2161 gtagcttatc gccatagatc tgtactaatg ctcgatggta ggcttgctga gcttggtgcg
     2221 ccaattcacc ccgagaagca aactttgcct tgatctcagc agtaaagaac ttcacctgaa
     2281 tcaactgtga ttctcgtgct cttatcggaa gcagttgttc ttcaaagagc ttataaaggt
     2341 ctaaccactt atatcccgaa cgcttaacca atccgtgata aaaattgaac ccatctacgt
     2401 aaactattgt tctcatttta tttcgcgcat aaaaaaaccg cctctaaggg cggttttaac
     2461 aacaaaaact aacgttagca aacagtttaa gttgtagtac ctcagggtta aaactaaccg
     2521 agagggcggt ttcaagctcc tgaaggaaga cgcgtaactt aatcgctgcc cacctaaagg
     2581 gaggtttaga gcctcaaggg agctgcgtaa cttaatcgcg ctaccaagag gtgagtgtag
     2641 attaagtata gttaaatata atgatattat aagcgcactg gtgtcgtact aattatatga
     2701 attaatttac caacctgcta agctgaagtc ttctaagaag acttcagctt agcaggttgg
     2761 tatatgtcag atcaaaaaaa taatttagac attcaaaaac agacacttga gtctaaatgg
     2821 gggaaggaag cgttaagcat gggatggtca gccattccta catccctttt cttcctgcag
     2881 ggcgcactca atatgacccc cacaacattc aatgtgctac ttcatctaat tatccactgg
     2941 tggaaaccct atgattggcc acatccatct caagagagca tcgcggttag aatgggagtt
     3001 tcatcaagaa cagttcaacg ctcactccaa gaacttgaaa attacggatt gcttacaaaa
     3061 attcgtacaa gcaaggacaa ccctaagtac aaagggcgaa acatttacga tatgtctctt
     3121 ttagttaagt cactaaacat tcttacgcca gacctcaacg ccaaactaaa cgaaaagtaa
     3181 ccaaaaattc cgacagccaa agcgcgcaca tcactgtaca aaaggtgttc agcatcacat
     3241 ttctagaaaa tgacaacagc tccctattga aagctaattt ctaaactaaa catcagtatc
     3301 gctacacaaa cagcaatacg gacaaaacac aaaaagagga attagcatgt ctaaagcacc
     3361 aattggtacg actgcttcta ccggacaaaa gtgtcctgaa agtggtgtct ggaaagtcgt
     3421 aggaacccct tccactacag ccccgatagc aaaaggtaat gtaatgcctc cgtacgcagg
     3481 aaaggctgta acctggatgt taacccaata tgcttgatat ttagactggc aacgaaaagc
     3541 cgccccagcg ggcggctttt ctatctctgc cctataaatt cagaaaagga aagctaaatg
     3601 gctgcatata ccagcgaaac agagaagttt ttacaaagcg tcagtagcga tcaaacatgg
     3661 tggaagtcac gatataatcc aggagacagc gttccccatt ctggaattta tcgatgtacc
     3721 gtctgcggaa aagagatcac cagtaacggc agcgacccgt tcccgccgca aaaccatcat
     3781 cagcacagtc agcaacaagc aatcaaatgg caattgattg tcagaacgga cactaaaggt
     3841 gaccgtttcg gaatcaaatg attgagagcc ctccggggct ttttttgtac ctgaagctcg
     3901 aagatattta ccataacatc ccttgcccgc accgctccgg acaggttcgc cacaaacggg
     3961 acggcagtca ggtaaaaccg gcaacaaacc acccgataca ccgccccgtt cgtgacagat
     4021 aaattttccc cggctgcatg gtcatgcagc cagatgcata cagtctgatt tcaggccaga
     4081 atccggatga acgccttaaa aacaggaaaa tgcttctcca gccagtccca cagctcggtc
     4141 gccagataca ggcagttaag tacagcttca atgacgttaa gcaatttcat aattccccct
     4201 aggtataggc cgtgctcttt ttgatcacga acctatttag cgggagaaat aagagccctt
     4261 cttcgtgcgg cctgtcaccg gatgatactg ttcagcccag tgtcggaccg tcataactcc
     4321 gctgacggga acgggcttcc gccagctctt tttcgtgctg tcgctgctcg tatgcccgtt
     4381 cggcggccac cgccatttca tgccgctgca ctactggctc aaacgctgta actgcctgct
     4441 caagttcgcc acctgctgac tcaagcgcgt gacgcgctcg ttcagcgccg cgttctcccg
     4501 ttgcataaga ccagacatct tctgccattc cgcgaaggcg ctctcccact cgtccagcct
     4561 ttgcgagtag tcctgatgta gctgctctaa tgcggtcagc aactgttttt ccagttccgt
     4621 catgggctat ttcctctcca gtaccatcca gttcccttcc tccccgtaag ctcccgcttt
     4681 cgggttcact ttgacgcagg acagtttctt ctccccgcag agcgacagct gaacgccgtg
     4741 gtttttctcc gacaacatgg cctgcgtccg ctcctgcgcc cggatagtct ggtaattccc
     4801 ggtgatctgc tgcccctgcc accacagaat gctcccgctc atggcgatca gcagtaccga
     4861 gaccagggtg atggtcagcc acgtccggcc gaccatacgc agcacgctca ggcggttcga
     4921 ctgcatcgcc gcggtcatac cctgctcgtg ggcgctgatg gcgtcgctga ttctcttcgc
     4981 gcttgcgctc agttccgctt ttacagattt ctcgtgctcg ctgaatgcgg ctttcagcat
     5041 ctcgccggta ctctgctgct gcgctttcga ttgctgctcc aagtccttcg ccagcgctaa
     5101 aagactgctc ataaatggct cccttcagtc ggatgtttcg ccccccgtcc gggtcggcaa
     5161 tgctgatact gttttttgtg gtgcggacca cctcaaaacc tgccgctgtg agcgcccctg
     5221 tgacgtcctc gcgcgttttg agctccccgg atgaggctaa ggccagcaac ccccgtgtaa
     5281 tcgcctgagc ggcttccagc ttcgtttccg gcagtgcgga cggcgtgacc agtaaccgcc
     5341 ggttctccgg ggcgtttgg
//
