LOCUS       NZ_CP086444             5359 bp    DNA     circular CON 28-MAY-2024
DEFINITION  Klebsiella pneumoniae strain AE-2247421-T5-MAC plasmid
            p2247421-T5-MAC_5, complete sequence.
ACCESSION   NZ_CP086444
VERSION     NZ_CP086444.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN22108732
            Assembly: GCF_022759925.1
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  JOURNAL   Unpublished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                   :: 452x
            Sequencing Technology :: Illumina NovaSeq; Oxford Nanopore MiniION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_022759925.1-RS_2024_05_28
            Annotation Date                   :: 05/28/2024 04:43:56
            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)                     :: 5,930
            CDSs (total)                      :: 5,809
            Genes (coding)                    :: 5,641
            CDSs (with protein)               :: 5,641
            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)              :: 168
            CDSs (without protein)            :: 168
            Pseudo Genes (ambiguous residues) :: 0 of 168
            Pseudo Genes (frameshifted)       :: 64 of 168
            Pseudo Genes (incomplete)         :: 100 of 168
            Pseudo Genes (internal stop)      :: 28 of 168
            Pseudo Genes (multiple problems)  :: 20 of 168
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP086444.1.
            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-MAC"
                     /isolation_source="stool"
                     /host="Homo sapiens"
                     /db_xref="taxon:573"
                     /plasmid="p2247421-T5-MAC_5"
                     /geo_loc_name="Switzerland"
                     /collection_date="2013"
                     /collected_by="Institute for Infectious Diseases Bern"
     gene            join(5168..5359,1..72)
                     /locus_tag="LNN53_RS29465"
                     /old_locus_tag="LNN53_29470"
     CDS             join(5168..5359,1..72)
                     /locus_tag="LNN53_RS29465"
                     /old_locus_tag="LNN53_29470"
                     /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(622..834)
                     /locus_tag="LNN53_RS29470"
                     /old_locus_tag="LNN53_29475"
     CDS             complement(622..834)
                     /locus_tag="LNN53_RS29470"
                     /old_locus_tag="LNN53_29475"
                     /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(838..1323)
                     /locus_tag="LNN53_RS29475"
                     /old_locus_tag="LNN53_29480"
     CDS             complement(838..1323)
                     /locus_tag="LNN53_RS29475"
                     /old_locus_tag="LNN53_29480"
                     /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_064147840.1"
                     /translation="MSSLLALAKDLEQQSKAQQQSTGEMLKAAFSEHEKSVKAELSASA
                     KRISDAISAHEQGMTAAMQSNRLSVLRMVGRTWLTITLVSVLLIATSGSILWWQGQQIT
                     GNYRTIRAQERTQAMLSEKNHGVQLSLCGEKKLSCVKVNPKAGAYGEDGNWMVLERK"
                     /name="MbeB family mobilization protein"
     gene            complement(<1361..2038)
                     /locus_tag="LNN53_RS29705"
                     /old_locus_tag="LNN53_29485"
                     /pseudo=""
     CDS             complement(<1361..2038)
                     /locus_tag="LNN53_RS29705"
                     /old_locus_tag="LNN53_29485"
                     /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(2001..2321)
                     /locus_tag="LNN53_RS29485"
                     /old_locus_tag="LNN53_29490"
     CDS             complement(2001..2321)
                     /locus_tag="LNN53_RS29485"
                     /old_locus_tag="LNN53_29490"
                     /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(3312..3986)
                     /locus_tag="LNN53_RS29490"
                     /old_locus_tag="LNN53_29495"
     CDS             complement(3312..3986)
                     /locus_tag="LNN53_RS29490"
                     /old_locus_tag="LNN53_29495"
                     /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            4334..4750
                     /locus_tag="LNN53_RS29495"
                     /old_locus_tag="LNN53_29500"
     CDS             4334..4750
                     /locus_tag="LNN53_RS29495"
                     /old_locus_tag="LNN53_29500"
                     /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"
     Typing          complement(2430..2610)
                     /name="MOB_unknown"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="87.978"
                     /coverage="83.0"
                     /evalue="2.08e-53"
     Typing          2560..3070
                     /name="ColRNAI_rep_cluster_1987"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="93.359"
                     /coverage="98.0"
                     /evalue="0.0"
     Typing          complement(507..2011)
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="94.821"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 cagcaacaag caatcaaatg gcaattgatt gtcagaacgg acactaaagg tgaccgtttc
       61 ggaatcaaat gattgagagc cctccggggc tttttttgta cctgaagctc gaagatattt
      121 accataacat cccttgcccg caccgctccg gacaggttcg ccacaaacgg gacggcagtc
      181 aggtaaaacc ggcaacaaac cacccgatac accgccccgt tcgtgacaga taaattttcc
      241 ccggctgcat ggtcatgcag ccagatgcat acagtctgat ttcaggccag aatccggatg
      301 aacgccttaa aaacaggaaa atgcttctcc agccagtccc acagctcggt cgccagatac
      361 aggcagttaa gtacagcttc aatgacgtta agcaatttca taattccccc taggtatagg
      421 ccgtgctctt tttgatcacg aacctattta gcgggagaaa taagagccct tcttcgtgcg
      481 gcctgtcacc ggatgatact gttcagccca gtgtcggacc gtcataactc cgctgacggg
      541 aacgggcttc cgccagctct ttttcgtgct gtcgctgctc gtatgcccgt tcggcggcca
      601 ccgccatttc atgccgctgc actactggct caaacgctgt aactgcctgc tcaagttcgc
      661 cacctgctga ctcaagcgcg tcacgcgctc gttcagtgcc gcgttctccc gttgcataag
      721 cccagacatc ttctgccatt ccgcgaaggc gctctcccac tcgtccagcc tttgcgagta
      781 gtcctgatgt agctgctcta atgcggtcag caactgtttt tccagttccg tcatgggcta
      841 tttcctctcc agtaccatcc agttcccgtc ctccccgtaa gctcccgctt tcgggttcac
      901 tttgacgcag gacagtttct tctccccgca gagcgacagc tgcacgccgt ggttcttctc
      961 cgacagcatg gcctgcgtcc gctcctgcgc ccggatagtc cggtaattcc cggtgatctg
     1021 ctgcccctgc caccacagaa tgctcccgct cgtggcgatc agcagtaccg agaccagggt
     1081 gatggtcagc cacgtccggc cgaccatacg cagcacgctc aggcggttcg actgcatcgc
     1141 cgcggtcata ccctgctcgt gggcgctgat ggcgtcgctg attctcttcg cgcttgcgct
     1201 cagttccgct tttacagact tctcgtgctc gctgaatgcg gctttcagca tctcgccggt
     1261 actctgctgc tgcgctttcg attgctgctc caagtccttc gccagcgcta aaagactgct
     1321 cataaatggc tcccttcagt cggatgtttc gccccccgtc cgggtcggca atgctgatac
     1381 tgttttttgt ggtgcggacc acctcaaaac ctgccgctgt gagcgcccct gtgacgtcct
     1441 cgcgcgtttt gagctccccg gatgaggcta aggccagcaa cccccgtgta atcgcctgag
     1501 cggcttccag cttcgtttcc ggcagtgcgg acggcgtgac cagtaaccgc cggttctccg
     1561 gggcgtttgg atcatgcagc cccagtctgc cgttcaccac ggtctgccag gcatcgatgc
     1621 gcggccggtc ggcgcgatcg tagtacggct gcaggcgttt cccggtcagc agttcagtgt
     1681 tggggatcag gaaattcagc tccagcctcc ccttgtcggt atgctccacc cacagaatgc
     1741 tgtactggtc tttatcgagc ccgggcatca gaacccgctc aaagctggcc atgatctgct
     1801 cccgctgccc gggcggcagt tcagcctccg cgaacgacag cacgccggag gtgtactttt
     1861 tcgcatacgg cgaggcatcg ataagctccc ggacttcctc cggttttccc tgcagcacgg
     1921 tcgccccctc gcgctgccgg tcttttccca gcaggtaatc caccggaccg gcaccaccac
     1981 cgcgcccccg ggggtgaaat ttaacgatca tcatcccccc ctttttccag caccgcatgc
     2041 cgcagccgct ccagtcccgc gtcgattgcc atcagggcgg ccacaatctg cacccggtca
     2101 tgaccggcac caccggcatt cactttccgg gcgatctggt tcaggttgtt ccccataccg
     2161 gcaagctggc gcagcagcgc cggcgatatc gacggcagtc tgccggcacg cgccggcttc
     2221 tcatcgaggc aggtctgacg catccacgcc gccagctgcc tgccgtcgca ccgctcgagc
     2281 agccgccggt gttcgtcttc cgtcacccac atcgtgagca tcttgttgcg tttgtctgcc
     2341 agagtagcct cctgagaaca ccgggacggg cgggaaatgt ttcccggtcg gcacggtgtt
     2401 ggacaagccg caggcgcgtc agtggctttt agcgggtttc ggggcgcagc cctgaaccag
     2461 tcacgtagcg ctagcggagt gtatactggc tcaatatgtt acggaggagt aacactttat
     2521 gaaagtgctt catgtgacag ggggaaaatg cagctacagg gcgtacagga gaaaatggag
     2581 gttacggtga tatgacgcct cctcgctcac tcggtcgctt ccgctcctgc cgttcggctg
     2641 cggcgggcgt tacgcacaca cggataagag caaaggcata tgacatgaca agcagggcgg
     2701 gaaaaggatg cggcgctgcc gtttttccat aggctccgcc cccctgacaa gcatcacgaa
     2761 atctgacgct caaatcagtg gtggcgaaac ccgacaggac tataaagata ccaggcgttt
     2821 ccccctggtg gctccctcgt gcgctctcct gttcctgcct ttcggtttac cggtgtcatt
     2881 ccgctgttat ggccgcgttt gtctcattcc acgcctgaca ctcagttccg ggtaggcagt
     2941 tcgctccaag ctggactgta tgcacgaacc ccccgttcag tccgaccgct gcgccttttc
     3001 cggtaactat cgtcttgagt ccaatccgga aagacacgca aaaacgccac tggcagcagc
     3061 cactggtaac aggattcacg gagcagagta gtagagtgct tctacagagt tcttgaagtg
     3121 gtggcctgac tgcggctaca ctggaaggac agttttggta tctgcgctcc gtgaaagcca
     3181 gttaccttcg ggaaaaagag ttggtagctc ttgattccgg caaacgaacc accgttggta
     3241 gcggtggttt ttttgtttgc agggcatgag attacgacga gagtaaaagg atcacaagaa
     3301 gatccggctg tttaccagtg atttggcttc agtattggct tccgcctagt ggggacttta
     3361 tctggcaata aagctaatct taaggcttca taggatacat atggcaagct ccaatcccct
     3421 aaactagcca gattactaat cactcgacta gtatcctgtt cccttggcac tacgattcct
     3481 atttttaact caggccgatc agcttttatc atttctattg gcggtatcat atctgagtcg
     3541 ttagtgcaga gaaccaattg ttctacttca ccacgaatcg catcgcgata catttctaaa
     3601 gccattctaa cgtctgtctg cttttcttct aacttccaga ccgttgttct atccgttttt
     3661 gatggaggat gcccctcatt aaaggtcatt gcacattcct gacgctctga gtaataacct
     3721 tttattatct gtagcttatc gccatagatc tgtactaatg ctcgatggta ggcttgctga
     3781 gcttggtgcg ccaattcacc ccgagaagca aactttgcct tgatctcagc agtaaagaac
     3841 ttcacctgaa tcaactgtga ttctcgtgct cttatcggaa gcagttgttc ttcaaagagc
     3901 ttataaaggt ctaaccactt atatcccgaa cgcttaacca atccgtgata aaaattgaac
     3961 ccatctacgt aaactattgt tctcatttta tttcgcgcat aaaaaaaccg cctctaaggg
     4021 cggttttaac aacaaaaact aacgttagca aacagtttaa gttgtagtac ctcagggtta
     4081 aaactaaccg agagggcggt ttcaagctcc tgaaggaaga cgcgtaactt aatcgctgcc
     4141 cacctaaagg gaggtttaga gcctcaaggg agctgcgtaa cttaatcgcg ctaccaagag
     4201 gtgagtgtag attaagtata gttaaatata atgatattat aagcgcactg gtgtcgtact
     4261 aattatatga attaatttac caacctgcta agctgaagtc ttctaagaag acttcagctt
     4321 agcaggttgg tatatgtcag atcaaaaaaa taatttagac attcaaaaac agacacttga
     4381 gtctaaatgg gggaaggaag cgttaagcat gggatggtca gccattccta catccctttt
     4441 cttcctgcag ggcgcactca atatgacccc cacaacattc aatgtgctac ttcatctaat
     4501 tatccactgg tggaaaccct atgattggcc acatccatct caagagagca tcgcggttag
     4561 aatgggagtt tcatcaagaa cagttcaacg ctcactccaa gaacttgaaa attacggatt
     4621 gcttacaaaa attcgtacaa gcaaggacaa ccctaagtac aaagggcgaa acatttacga
     4681 tatgtctctt ttagttaagt cactaaacat tcttacgcca gacctcaacg ccaaactaaa
     4741 cgaaaagtaa ccaaaaattc cgacagccaa agcgcgcaca tcactgtaca aaaggtgttc
     4801 agcatcacat ttctagaaaa tgacaacagc tccctattga aagctaattt ctaaactaaa
     4861 catcagtatc gctacacaaa cagcaatacg gacaaaacac aaaaagagga attagcatgt
     4921 ctaaagcacc aattggtacg actgcttcta ccggacaaaa gtgtcctgaa agtggtgtct
     4981 ggaaagtcgt aggaacccct tccactacag ccccgatagc aaaaggtaat gtaatgcctc
     5041 cgtacgcagg aaaggctgta acctggatgt taacccaata tgcttgatat ttagactggc
     5101 aacgaaaagc cgccccagcg ggcggctttt ctatctctgc cctataaatt cagaaaagga
     5161 aagctaaatg gctgcatata ccagcgaaac agagaagttt ttacaaagcg tcagtagcga
     5221 tcaaacatgg tggaagtcac gatataatcc aggagacagc gttccccatt ctggaattta
     5281 tcgatgtacc gtctgcggaa aagagatcac cagtaacggc agcgacccgt tcccgccgca
     5341 aaaccatcat cagcacagt
//
