LOCUS       NZ_CP059305             3958 bp    DNA     circular CON 10-JAN-2024
DEFINITION  Klebsiella pneumoniae strain Kp46596 plasmid pKp46596-7, complete
            sequence.
ACCESSION   NZ_CP059305
VERSION     NZ_CP059305.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN15578212
            Assembly: GCF_013694405.1
KEYWORDS    RefSeq.
SOURCE      Klebsiella pneumoniae
  ORGANISM  Klebsiella pneumoniae
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Klebsiella/Raoultella group; Klebsiella.
REFERENCE   1  (bases 1 to 3958)
  AUTHORS   Chen,L.
  TITLE     Genome sequencing of Kp46564 and Kp46596
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 3958)
  AUTHORS   Chen,L.
  TITLE     Direct Submission
  JOURNAL   Submitted (19-JUL-2020) HMH-CDI, Hackensack-Meridian Health Center
            for Discovery and Innovation, 340 Kingsland Street, Building 102,
            Nutley, NJ 07110, USA
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Date                     :: 01-SEP-2019
            Assembly Method                   :: Unicycler v. v0.4.8
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 100x
            Sequencing Technology             :: Oxford Nanopore MiniION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 01/10/2024 01:29:58
            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)                     :: 5,730
            CDSs (total)                      :: 5,608
            Genes (coding)                    :: 5,473
            CDSs (with protein)               :: 5,473
            Genes (RNA)                       :: 122
            rRNAs                             :: 9, 8, 8 (5S, 16S, 23S)
            complete rRNAs                    :: 9, 8, 8 (5S, 16S, 23S)
            tRNAs                             :: 86
            ncRNAs                            :: 11
            Pseudo Genes (total)              :: 135
            CDSs (without protein)            :: 135
            Pseudo Genes (ambiguous residues) :: 0 of 135
            Pseudo Genes (frameshifted)       :: 57 of 135
            Pseudo Genes (incomplete)         :: 79 of 135
            Pseudo Genes (internal stop)      :: 22 of 135
            Pseudo Genes (multiple problems)  :: 18 of 135
            CRISPR Arrays                     :: 1
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP059305.1.
            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..3958
                     /organism="Klebsiella pneumoniae"
                     /mol_type="genomic DNA"
                     /strain="Kp46596"
                     /host="Homo sapiens"
                     /db_xref="taxon:573"
                     /plasmid="pKp46596-7"
                     /collection_date="2009"
                     /collected_by="CDI"
     gene            454..609
                     /locus_tag="H1D28_RS00005"
                     /old_locus_tag="H1D28_00005"
     CDS             454..609
                     /locus_tag="H1D28_RS00005"
                     /old_locus_tag="H1D28_00005"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_010251985.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="DUF1508 domain-containing protein"
                     /protein_id="WP_064761103.1"
                     /translation="MNDTWDFYTDGKGEWRWRRTASNGRIVGASSQGYVNRADCIANAR
                     RNGYTG"
                     /name="DUF1508 domain-containing protein"
     gene            complement(1473..1895)
                     /locus_tag="H1D28_RS00010"
                     /old_locus_tag="H1D28_00010"
     CDS             complement(1473..1895)
                     /locus_tag="H1D28_RS00010"
                     /old_locus_tag="H1D28_00010"
                     /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_025714834.1"
                     /translation="MARVSISEAARLVKVSRPTIYKMINSGKLSYTSVVKHGKAIKVID
                     TSELIRVFGSLDGVIDTVKYDVKSDAESTSINSVGLHDLQHRIALLEAENDGLKGAVKA
                     RDEHIDSLRQAMQLLEHKREPSSPPHSPWWKFWKKS"
                     /name="helix-turn-helix domain-containing protein"
     gene            complement(1895..2086)
                     /locus_tag="H1D28_RS00015"
                     /old_locus_tag="H1D28_00015"
     CDS             complement(1895..2086)
                     /locus_tag="H1D28_RS00015"
                     /old_locus_tag="H1D28_00015"
                     /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_023302508.1"
                     /translation="MTKQQKTALNMAKFIQNQSLLLLEKLNELDLDVEADLCEKLHDDA
                     EHLFRTLSSRLDELQDGN"
                     /name="Rop family plasmid primer RNA-binding protein"
     gene            2975..3148
                     /locus_tag="H1D28_RS00020"
                     /old_locus_tag="H1D28_00020"
     CDS             2975..3148
                     /locus_tag="H1D28_RS00020"
                     /old_locus_tag="H1D28_00020"
                     /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_155765196.1"
                     /translation="MDIKTKLKRSLSSVESAISSLKRARGQTTDAYHEISKAIRELEDA
                     EYNIRKSIREME"
                     /name="hypothetical protein"
     gene            complement(3169..3936)
                     /locus_tag="H1D28_RS00025"
                     /old_locus_tag="H1D28_00025"
     CDS             complement(3169..3936)
                     /locus_tag="H1D28_RS00025"
                     /old_locus_tag="H1D28_00025"
                     /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_134881114.1"
                     /translation="MRFLWRPLPYSRLRECDFLNCIDENDSSSWIAALKIFICIVIKSD
                     LDENGEYCAMITYPQIQKMTGMSRQLICCGFDKLRFYKIISSEGVRKKKHSLLTCEKGS
                     TRQKPLTKRFDGLSAGRWCKLPLKGLIDDDGVIPSFLAMSNRNINDLHALRLFIYLLSV
                     RRHGDVFIVVKAETLMKKLRLKRVQLTLALAHMSALGLIVKERYREGDFLSLNKTPAYA
                     FLLCGWDVLEWNHNRIKESNWRNDYLESFDNWA"
                     /name="hypothetical protein"
     Typing          2310..2787
                     /name="rep_cluster_2358"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="89.157"
                     /coverage="94.0"
                     /evalue="3.6e-169"
ORIGIN
        1 aagataccaa gaaattatta ataacgtcac agagattaca agctgggtta actcaccaga
       61 aatcgctgca actctctcga gcaacttcac atacttttct agacccatga cactctcctc
      121 ccgaaaacac ctctgctcaa atcttgaaaa aatcatgaca cataataaaa agacttataa
      181 gtctttttat tataatcttt ctagaataaa caaaaagata aaaagcttta aaatcaacaa
      241 aataacaatt aaagatagtc tattaagata ccaagatagt ctatgtgcat cacaagaagc
      301 ctttagacct aatgagacgg cattgcatgg gtaacatgta acagaaattc ctatcgtact
      361 cgcatcgcaa aacacactct tatcgattga aaaagaggag aaatgcttta tatcaatctt
      421 ggggatcccc acacagcaca ggataaaaac agaatgaacg atacatggga tttttatact
      481 gatggtaaag gcgaatggcg ctggcgcaga acggccagca atggtcgtat tgttggtgca
      541 tccagtcagg gctatgtaaa ccgagcggat tgtatcgcta atgcccgccg caatggttac
      601 accggctagt cttggatcag gtatacgact ggaatgtggc tgtcagtcgg taacgggtac
      661 tgtcaaacag gtcaccagtt tttcctccct acagaaaaac cttaagcctc ttcgggggct
      721 ttttttactt ctgtcattta acataacccc ctgattgtac gcaccgctaa aacggcctca
      781 gggcgtttct gacgggaaac cggtaaaaca ggcaacaaac cacccgaaaa cccgccagaa
      841 acgcgcaggc tctgttttta cggtatgcat gagtatgcgc gcaagtgcat agcgcggaaa
      901 ttgacaccat tcagccaggg taagtcctgt ttccgacgtt ctttccatcc gaaaacggtg
      961 aacggggacg caatttattg cgtggccgtg aagcgttgcc ggcgcagccg gaaaaccggt
     1021 tttcagcacg ttcaggaatc cggttcgtcg acggccggca atcacgttat ggcaagtcgc
     1081 cggacgactc accacacgat tcaccggcga ctcttcacta gagtcgtacc cagagtcgcc
     1141 gcgtctaaaa aacaaccaaa cggggagtcg tgtctagagt cgggtcgtta ttaacttatt
     1201 gttttatagt cctgagtcgt caccgactct atgacgactc gccggcgact ctatgacgag
     1261 tcgtcataga gtcggatcta tataaataaa atttaaaaag cgaaatttca ggaaagtaac
     1321 ccactgatat taaatacaaa tctgaaaaat tttaattttg cgtggggtgt gggtattttt
     1381 agtggtgagg agcgttcaga gatctgacga tttttgggaa ggttcaggaa ctccccggga
     1441 tggccggaga ggaaaacaga agcatgacgg ggtcaggatt ttttccagaa tttccaccac
     1501 ggggaatggg gtggtgaaga aggctcgcgc ttgtgctcca gaagctgcat agcctgacga
     1561 agggaatcaa tatgctcatc tcgagcctta acagcccctt taagaccatc gttttcagct
     1621 tcaagtaaag cgattctatg ttgtaaatca tgtaaaccaa cgctgttaat acttgtagat
     1681 tctgcgtcac tttttacatc atattttaca gtatcgatca caccatcaag agaaccaaac
     1741 actctaataa gctctgaagt atcaataact ttaatagcct tcccgtgctt tacaacagag
     1801 gtgtaactta acttcccact gttaatcatc ttgtaaattg tgggacggct aaccttaaca
     1861 agccgtgccg cttcactaat agacactctg gccatcaatt accatcctgt aattcatcca
     1921 gtctcgagga cagtgtacgg aaaagatgct ccgcatcatc gtggagtttc tcacaaagat
     1981 cggcctcaac atcgagatca agctcgttaa gcttctccag caggagcaga gactgattct
     2041 ggatgaattt agccatgttc agcgctgttt tctgttgttt cgtcataaag ggcctcagag
     2101 cgtcagtgct caatgtcaga cagatctctt ttccgcttcc tcgctcactc agtcgctacg
     2161 ctcctgccgt tcggctgcgg cgagcggtcg caacgcgcac ataacgacat agagcagaca
     2221 gctcggagag ggagaaggca gcacaacggc cgtttttcca taggctccgc ccccctgaca
     2281 agcatcacag aatttgacgc tcaaatcagt ggtggcgaaa cccgacagga ctataaagat
     2341 accaggcgtt tccccctgat ggctccctcg tgcgctctcc tgttcctgcc attcggttta
     2401 ccggtgtcat tccgctgtta tggccgcgtt tgtctcattc cacgcctgac actcagttcc
     2461 gggtaggcag ttcgctccaa gctggactgt atgcacgaac cccccgttca gtccgactgc
     2521 tgcgtcttat ccggtaacta tcatcttgag tccaacccgg aaagacacga caaagcgcca
     2581 ctggcagcag ccactggtaa acaggatgtg cgagagatgt atttgagttc ttgaagtgaa
     2641 gacctaactg aggctacact ggaaggacgg atttggtgac acgtctcgca caagactgtt
     2701 accacggttc ataaacttgc cggttaatga accttcgaaa aaccaccttg ccgggtggtt
     2761 ttttcgttta cagagcaaga gactacgacg ccgaggaaag gatcacaagc aaatccgtta
     2821 gatacataga cataaatcaa acccaaacca gcaccactta acaacaccaa cagacctcag
     2881 aaaaagactt atttcattga ttttattgta ataaaatcca tccactaggg tgttgcacaa
     2941 tcaccctagc agcagataaa aacagaggtt caatatggat atcaagacaa agcttaaacg
     3001 ttctttaagt tctgtggaaa gtgcaatttc atctttaaag cgtgcaagag ggcaaactac
     3061 ggatgcatac catgaaataa gcaaagcaat tcgtgaactt gaggatgccg agtacaacat
     3121 aaggaaatcc attcgtgaga tggagtgagt tatatagata actgggcttc aagcccagtt
     3181 atcaaacgac tctaaataat catttctcca gttgctctct tttattctat tgtgattcca
     3241 ttcaagaaca tcccacccac acaataaaaa agcatatgca ggtgttttat ttaaactcaa
     3301 aaaatcgccc tccctatatc gctctttaac tatcaacccc aaagctgaca tatgagccaa
     3361 agccaatgtt agctgaactc ttttaagtcg taattttttc atcagcgttt ctgcttttac
     3421 aacaataaaa acatcaccat gccgtctcac tgacaacaaa tagataaaca accgaagtgc
     3481 atgaaggtcg ttaatatttc tattgctcat tgccagaaac gaagggatta caccatcatc
     3541 atcaatcaat ccttttaacg ggagtttaca ccatcgcccc gctgacagcc catcaaacct
     3601 tttcgtcaaa ggtttttgtc ttgtagagcc tttttcacaa gttaataatg aatgcttttt
     3661 tttcctaaca ccttcgctag atattatttt ataaaacctc aacttatcaa aaccacaaca
     3721 tattaactgc ctactcatcc ctgtcatttt ctggatttgt ggatacgtaa tcattgcaca
     3781 atactctcca ttctcatcca gatcagattt aataacaatg caaatgaata ttttcaatgc
     3841 agctatccat gaagacgaat cattttcatc aatacagttt aaaaaatcac attctcttaa
     3901 cctagagtaa ggcaaaggcc tccataaaaa ccgcatagct tcaccttaat tatttaaa
//
