LOCUS       NZ_CP086421             4052 bp    DNA     circular CON 28-MAY-2024
DEFINITION  Klebsiella pneumoniae strain AE-2247421-T20-ESBL plasmid
            p2247421-T20-ESBL_5, complete sequence.
ACCESSION   NZ_CP086421
VERSION     NZ_CP086421.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN22108735
            Assembly: GCF_022759985.1
KEYWORDS    RefSeq.
SOURCE      Klebsiella pneumoniae
  ORGANISM  Klebsiella pneumoniae
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Klebsiella/Raoultella group; Klebsiella.
REFERENCE   1  (bases 1 to 4052)
  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  JOURNAL   Unpublished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 4052)
  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                   :: 299x
            Sequencing Technology :: Illumina NovaSeq; Oxford Nanopore MiniION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_022759985.1-RS_2024_05_28
            Annotation Date                   :: 05/28/2024 04:47:52
            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)                     :: 5,834
            CDSs (total)                      :: 5,713
            Genes (coding)                    :: 5,548
            CDSs (with protein)               :: 5,548
            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)              :: 165
            CDSs (without protein)            :: 165
            Pseudo Genes (ambiguous residues) :: 0 of 165
            Pseudo Genes (frameshifted)       :: 63 of 165
            Pseudo Genes (incomplete)         :: 98 of 165
            Pseudo Genes (internal stop)      :: 28 of 165
            Pseudo Genes (multiple problems)  :: 20 of 165
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP086421.1.
            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..4052
                     /organism="Klebsiella pneumoniae"
                     /mol_type="genomic DNA"
                     /strain="AE-2247421-T20-ESBL"
                     /isolation_source="stool"
                     /host="Homo sapiens"
                     /db_xref="taxon:573"
                     /plasmid="p2247421-T20-ESBL_5"
                     /geo_loc_name="Switzerland"
                     /collection_date="2013"
                     /collected_by="Institute for Infectious Diseases Bern"
     gene            complement(14..226)
                     /locus_tag="LNN42_RS29025"
                     /old_locus_tag="LNN42_29030"
     CDS             complement(14..226)
                     /locus_tag="LNN42_RS29025"
                     /old_locus_tag="LNN42_29030"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000137423.1"
                     /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_000137423.1"
                     /translation="MTELEKQLLTALEQLHQDYSQRLDEWESAFAEWQKMSGLMQRENA
                     ALNERVTRLSQQVANLSRQLQRLSQ"
                     /name="MbeD family mobilization/exclusion protein"
     gene            complement(230..715)
                     /locus_tag="LNN42_RS29030"
                     /old_locus_tag="LNN42_29035"
     CDS             complement(230..715)
                     /locus_tag="LNN42_RS29030"
                     /old_locus_tag="LNN42_29035"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001749519.1"
                     /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_055314654.1"
                     /translation="MSSLLALAKDLEQQSKAQQQSTGEMLKAAFSEHEKSVKAELSASA
                     KRISDAISAHEQGMTAAMQSNRLSVLRMVGRTWLTITLVSVLLIAMSGSILWWQGQQIT
                     GNYQTIRAQERTQAMLSEKNHGVQLSLCGEKKLSCVKVNPKAGAYGEEGNWMVLERK"
                     /name="MbeB family mobilization protein"
     gene            complement(<753..1430)
                     /locus_tag="LNN42_RS29220"
                     /old_locus_tag="LNN42_29040"
                     /pseudo=""
     CDS             complement(<753..1430)
                     /locus_tag="LNN42_RS29220"
                     /old_locus_tag="LNN42_29040"
                     /inference="COORDINATES: protein motif:HMM:NF015397.4"
                     /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(1393..1734)
                     /locus_tag="LNN42_RS29040"
                     /old_locus_tag="LNN42_29045"
     CDS             complement(1393..1734)
                     /locus_tag="LNN42_RS29040"
                     /old_locus_tag="LNN42_29045"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_006122514.1"
                     /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_057172823.1"
                     /translation="MADKRNKMLTMWVTEDEHRRLLERCDGRQLAAWMRQSCLDEKPAR
                     ACRLPSISPALLRQLAGMGNNLNQIARKVNAVGAGHDRVQIVAALMAIDAGLERLRHAV
                     LEKGGDDDR"
                     /name="MobC family plasmid mobilization relaxosome protein"
     gene            3100..3558
                     /locus_tag="LNN42_RS29045"
                     /old_locus_tag="LNN42_29050"
     CDS             3100..3558
                     /locus_tag="LNN42_RS29045"
                     /old_locus_tag="LNN42_29050"
                     /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_016245712.1"
                     /translation="MIETTLLAVLTGALSNLTSDAIKGIIGKLASKHPEVEQQASLLET
                     PLPFDEVDKLFSQMQGAIQAAAANGEIQLDGAELKALSGIKFDHQAGTVLINGSQVQAS
                     ILVTGGGQHATGKTIIQGDTTMTSQGTSIKMSGGAQIVMTGGARIIQN"
                     /name="hypothetical protein"
     Typing          complement(1822..2001)
                     /name="MOB_unknown"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="93.407"
                     /coverage="83.0"
                     /evalue="1.57e-69"
     Typing          1978..2464
                     /name="ColRNAI_rep_cluster_1987"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="88.235"
                     /coverage="93.0"
                     /evalue="5.96e-162"
     Typing          complement(4..1403)
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="94.433"
                     /coverage="99.0"
                     /evalue="0.0"
ORIGIN
        1 tcatgccgct gcactactgg ctcaaacgct gtaactgcct gctcaagttc gccacctgct
       61 gactcaagcg cgtgacgcgc tcgttcagcg ccgcgttctc ccgttgcata agaccagaca
      121 tcttctgcca ttccgcgaag gcgctctccc actcgtccag cctttgcgag tagtcctgat
      181 gtagctgctc taatgcggtc agcaactgtt tttccagttc cgtcatgggc tatttcctct
      241 ccagtaccat ccagttccct tcctccccgt aagctcccgc tttcgggttc actttgacgc
      301 aggacagttt cttctccccg cagagcgaca gctgaacgcc gtggtttttc tccgacaaca
      361 tggcctgcgt ccgctcctgc gcccggatag tctggtaatt cccggtgatc tgctgcccct
      421 gccaccacag aatgctcccg ctcatggcga tcagcagtac cgagaccagg gtgatggtca
      481 gccacgtccg gccgaccata cgcagcacgc tcaggcggtt cgactgcatc gccgcggtca
      541 taccctgctc gtgggcgctg atggcgtcgc tgattctctt cgcgcttgcg ctcagttccg
      601 cttttacaga tttctcgtgc tcgctgaatg cggctttcag catctcgccg gtactctgct
      661 gctgcgcttt cgattgctgc tccaagtcct tcgccagcgc taaaagactg ctcataaatg
      721 gctcccttca gtcggatgtt tcgccccccg tccgggtcgg caatgctgat actgtttttt
      781 gtagtgcgga ccacctcaaa acctgccgct gtgagcgcac ctgtgacgtc ctcgcgagtt
      841 ttgagctccc cggatgaggc taaggccagc aacccacgtg taatcgcctg agcggcttcc
      901 agcttcgttt ccggcagtgc ggacggcgta accagtaacc gccggttctc cggggcgttt
      961 ggatcatgca gtcccagtct gccgttcacc acggtctgcc aggcatcgat gcgcggccgg
     1021 tcggcgcgat cgtaatacgg ctgcaggcgt ttcccggtca gcagttcagt gttggggatc
     1081 aggaaattca gctccagccg ccccttgtcg gtgtgctcca cccacagaat gctgtactgg
     1141 tctttatcga gcccgggcat cagaacccgc tcaaagctgg ccatgatctg ctcccgctgc
     1201 ccgggcagca gttcagcctc cgcgaacgac agcacgccgg aggtgtactt tttcgcatac
     1261 ggcgaggcat cgataagctc ccggacttcc tccggttttc cctgcagcac ggtcgccccc
     1321 tcgcgctgcc ggtcttttcc cagcaggtaa tccaccggac cggcaccacc accgcgcccc
     1381 cggggatgaa atttaacgat catcatcccc ccctttttcc agcaccgcat gccgcagccg
     1441 ctccagtccc gcgtctattg ccatcagggc ggccacaatc tgcacccgat catgaccggc
     1501 accaacggca ttcactttcc gggcgatctg gttcaggttg ttacccatac cggcaagctg
     1561 gcgcagcagc gccggcgata ttgacggcag tctgcaggca cgcgccggct tctcatcgag
     1621 gcaggactga cgcatccacg ccgccagctg cctgccgtcg caccgctcga gcagccgccg
     1681 gtgttcgtct tccgtcaccc acatcgtgag catcttgttg cgtttgtctg ccagagtagc
     1741 ctcctgataa caccgggacg ggcgggaaat gtttcccggt cggcacggtg ttggacaagc
     1801 cgcaggcgcg tcagtggctt ttagcgggtt tcggggcgca gccctgaacc agtcacgtag
     1861 cgctagcgga gtgtatactg gctaaatatg ttacggcgga gtggtaatgt atgaaagtgc
     1921 ttcatgtggg aaggggaaaa tgtggctgac gggcgtaagt gcaacatgct ggtaaaggtg
     1981 aaatgacgcc tcctcgctca ctcagtcgct gcgctcctgc cgtgagactg cggcgggcgt
     2041 taccagctca cagatgacgg gatacgcaag cagcgctcaa atcaggagaa gccgggaaga
     2101 ggatgcggcg ttgccgtttt tccataggct ccgcccccct gacgagtatc ataaaatctg
     2161 acgctcaaat cagtggtggc gaaacccgac aggactataa agatcccagg cgtttccccc
     2221 tggtagctcc ctcgtgcgct ctcctgttcc tgccattcgg tttaccggtg tcattccgct
     2281 gttatggccg cgtttgtctc attccacgcc tgacactcag ttccgggtag gcagttcgct
     2341 ccaagctgga ctgtatgcac gatccccccg ttcagtccga ctaccacgct cttttcggta
     2401 actatcgtct tgagtccaac ccgaaaaggc acgacaaatc gccattggca gtagccactg
     2461 gtaaacagga tgtgcgagag atgtattcag agttcttgaa gtggtggcct tactgcggct
     2521 acactggaag gacagctttg gtgacatgtc tcgcacaaga ctgttaccac ggttagtaaa
     2581 tctgccagga ttaactaacc ttcgaaaaac cacctgccag ggtggttttt tcgtttacag
     2641 agcaaaagac tacgctcaga aagagattat ctcaagaaga tcatctcttt ctcttactca
     2701 agtcaaagca aaaaaacacc actccatcac aaactcaggt tatagtcggt atgcaactaa
     2761 taacactgta atttctgtgc aaaatcgagg ttatgcatat gcaaatcaac atcaactgca
     2821 agagtatccc aacatctttc gatgttgtct gctcgaattg tgaatggacc ggcgtggcta
     2881 cattagatta tccggaaaac gtaaaaaccc tatctgtcgg aggagaaata aatttcactc
     2941 ataatgacga gacgccaaaa tgtccacaat gtagcgttgg atatatatat ggtaaaagtg
     3001 gcacttataa acgtaatagt gcaactaacc atatggacag aatcggagat tataaagagt
     3061 aaataatacg catcacagca atctaacgag ggaaatataa tgattgaaac cacactactt
     3121 gccgttctca ctggcgcatt aagcaatctt acttctgatg caatcaaagg catcataggg
     3181 aagttagcaa gtaaacatcc tgaagttgaa caacaagcct cactgcttga aacaccatta
     3241 ccttttgacg aagttgataa attattttct cagatgcagg gggccattca ggctgcagca
     3301 gccaatggtg aaattcagct agatggagct gaattaaaag cattgagcgg aataaaattt
     3361 gatcaccaag ccggaactgt tttgataaat ggatctcaag tacaagcgtc aattttagtc
     3421 actggtggag gtcaacatgc tactggaaaa acgatcatac aaggtgatac gacaatgact
     3481 agccagggta caagtataaa aatgtcaggt ggtgctcaaa tagtaatgac tggtggagcc
     3541 cgaatcattc agaactaata tgatttacca taacatctct tgcccgcacc gctccggaca
     3601 tgttcgtcac aaacggggcg gcagtcaggt aaaaccggca acaaaccacc cgatacaccg
     3661 ccccgttcgt gacagataaa ttttacccgg ctgcatggtc atgcagccag atgcatacgg
     3721 tctgatttca ggccagaatc tggatgaacg ccttaaaaac aggaaaatgc ttctccagcc
     3781 agtcccagat ctccagcgcc atgtacaggc agttcagcac cgtctcaatc acgttaaaca
     3841 gtctcataat ccctccgttg tatacgccgt gatgttttca tcacgaccgt atttagcggg
     3901 aaatttatga gcccttcttc gtggggtttg tcactggtga agcctgtcag cccagcgtcg
     3961 gaccgttata gctccgctga cgggaacggg cttccgccag ctctttttcg tgctgtcgct
     4021 gctcgtatgc ccgttcggcg gccaccgcca tt
//
