LOCUS       NZ_CP147634             3549 bp    DNA     circular CON 05-APR-2024
DEFINITION  Klebsiella pneumoniae strain GN03826 plasmid unnamed3, complete
            sequence.
ACCESSION   NZ_CP147634
VERSION     NZ_CP147634.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN40123789
            Assembly: GCF_037289385.1
KEYWORDS    RefSeq.
SOURCE      Klebsiella pneumoniae
  ORGANISM  Klebsiella pneumoniae
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Klebsiella/Raoultella group; Klebsiella.
REFERENCE   1  (bases 1 to 3549)
  AUTHORS   Parsons,J.B., Sidders,A.E., Velez,A.Z., Hanson,B.M.,
            Angeles-Solano,M., Ruffin,F., Rowe,S.E., Arias,C.A., Fowler,V.G.
            Jr., Thaden,J.T. and Conlon,B.P.
  TITLE     In-patient evolution of a high-persister Escherichia coli strain
            with reduced in vivo antibiotic susceptibility
  JOURNAL   Proc Natl Acad Sci U S A 121 (3), e2314514121 (2024)
   PUBMED   38190524
REFERENCE   2  (bases 1 to 3549)
  AUTHORS   Hanson,B.M., Parsons,J.B. and Conlon,B.P.
  TITLE     Direct Submission
  JOURNAL   Submitted (26-FEB-2024) Center for Antimicrobial Resistance and
            Microbial Genomics, The University of Texas Health Sciences Center,
            1200 Pressler St, Houston, TX 77030, USA
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Date                     :: NOV-2021
            Assembly Method                   :: Flye v. v2.8.3
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 100x
            Sequencing Technology :: Illumina NextSeq and Oxford Nanopore
            GridION X5
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_037289385.1-RS_2024_04_05
            Annotation Date                   :: 04/05/2024 19:16:32
            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)                     :: 5,800
            CDSs (total)                      :: 5,673
            Genes (coding)                    :: 5,511
            CDSs (with protein)               :: 5,511
            Genes (RNA)                       :: 127
            rRNAs                             :: 9, 8, 8 (5S, 16S, 23S)
            complete rRNAs                    :: 9, 8, 8 (5S, 16S, 23S)
            tRNAs                             :: 88
            ncRNAs                            :: 14
            Pseudo Genes (total)              :: 162
            CDSs (without protein)            :: 162
            Pseudo Genes (ambiguous residues) :: 0 of 162
            Pseudo Genes (frameshifted)       :: 77 of 162
            Pseudo Genes (incomplete)         :: 98 of 162
            Pseudo Genes (internal stop)      :: 32 of 162
            Pseudo Genes (multiple problems)  :: 35 of 162
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP147634.1.
            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..3549
                     /organism="Klebsiella pneumoniae"
                     /mol_type="genomic DNA"
                     /strain="GN03826"
                     /isolation_source="bloodstream"
                     /host="Homo sapiens"
                     /db_xref="taxon:573"
                     /plasmid="unnamed3"
                     /geo_loc_name="USA: Durham"
                     /lat_lon="36.0070 N 78.9371 W"
                     /collected_by="Duke Bloodstream Infection Biorepository"
     gene            complement(join(3228..3549,1..>20))
                     /locus_tag="WCU51_RS27810"
                     /old_locus_tag="WCU51_27805"
                     /pseudo=""
     CDS             complement(join(3228..3549,1..>20))
                     /locus_tag="WCU51_RS27810"
                     /old_locus_tag="WCU51_27805"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_004178052.1"
                     /note="incomplete; partial in the middle of a contig;
                     missing N-terminus; Derived by automated computational
                     analysis using gene prediction method: Protein Homology."
                     /pseudo=""
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /name="hypothetical protein"
     gene            <19..621
                     /locus_tag="WCU51_RS27815"
                     /old_locus_tag="WCU51_27810"
                     /pseudo=""
     CDS             <19..621
                     /locus_tag="WCU51_RS27815"
                     /old_locus_tag="WCU51_27810"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_004178051.1"
                     /note="incomplete; partial in the middle of a contig;
                     missing N-terminus; Derived by automated computational
                     analysis using gene prediction method: Protein Homology."
                     /pseudo=""
                     /codon_start=1
                     /transl_table=11
                     /product="klebicin B-related nuclease bacteriocin"
                     /name="klebicin B-related nuclease bacteriocin"
     gene            623..880
                     /locus_tag="WCU51_RS27820"
                     /old_locus_tag="WCU51_27815"
     CDS             623..880
                     /locus_tag="WCU51_RS27820"
                     /old_locus_tag="WCU51_27815"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_013365855.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="bacteriocin immunity protein"
                     /protein_id="WP_025714833.1"
                     /translation="MAGNKISDFTEEEFTAFVSKIIAADFPTDKENDDAIYSFAQLTEH
                     PAGWNLIFKPKVGEDSSAKGIVKTVKEWRAANGKPGFKKA"
                     /name="bacteriocin immunity protein"
     gene            988..1143
                     /locus_tag="WCU51_RS27825"
                     /old_locus_tag="WCU51_27820"
     CDS             988..1143
                     /locus_tag="WCU51_RS27825"
                     /old_locus_tag="WCU51_27820"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_008323621.1"
                     /GO_component="GO:0019867 - outer membrane [Evidence IEA]"
                     /GO_process="GO:0019835 - cytolysis [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="colicin release lysis protein"
                     /protein_id="WP_071561715.1"
                     /translation="MKKLLFLGVVTVSVVLAACQVNNVRDTGGGAVSPSSTVTGVTLDS
                     GTNGNP"
                     /name="colicin release lysis protein"
     gene            complement(1301..1462)
                     /locus_tag="WCU51_RS27830"
                     /old_locus_tag="WCU51_27825"
     CDS             complement(1301..1462)
                     /locus_tag="WCU51_RS27830"
                     /old_locus_tag="WCU51_27825"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001326446.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_049165871.1"
                     /translation="MHEPPVQSDCCVLSGNYHLESNPERHDKAPLAAATGNGFRGVGLE
                     VMRLLRLN"
                     /name="hypothetical protein"
     gene            1867..2058
                     /locus_tag="WCU51_RS27835"
                     /old_locus_tag="WCU51_27830"
     CDS             1867..2058
                     /locus_tag="WCU51_RS27835"
                     /old_locus_tag="WCU51_27830"
                     /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            2058..2480
                     /locus_tag="WCU51_RS27840"
                     /old_locus_tag="WCU51_27835"
     CDS             2058..2480
                     /locus_tag="WCU51_RS27840"
                     /old_locus_tag="WCU51_27835"
                     /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"
     Typing          complement(1350..1819)
                     /name="ColRNAI_rep_cluster_1987"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="89.834"
                     /coverage="92.0"
                     /evalue="2.73e-170"
ORIGIN
        1 gtgaaatcta gtgcacttga cgcacctggt gcaaacggac cactgacgct aagcgggccg
       61 gtaccactac cggagcgtat tctgcatacc ggtgatcaga tttcggcgcc acaggctaca
      121 gataaaaccg tgacgccggt agcggatgac ctcgattttg acgatattat tctggtgttt
      181 cctccggaat ccggcctaaa accgctgtat gtgatgtacc gtagccctcg taacatgccc
      241 ggtacagtga gcggcaaagg gcagaacgtt ggcaataact ggatgggggg ggccagtacc
      301 ggggatggtg ctcctgttcc ttcccagatt gcggataaat tacgcgggaa gactttcggt
      361 agttttgatt ctttccgtcg ggcgttctgg aaagcggttg ctgacgattc tgcactgagc
      421 aagcaattta gtgaagctga tattaatcag atgaaagctg gaagggcacc tactgcggac
      481 tttttagaat cagtagggaa acgtgttaaa attgaattac accacgaaaa agaaatatct
      541 caaggagggg ctgttatgga tgtcgataac attaaggcgc taacacctaa aaatcatatt
      601 gagacacata aaggaaaata aaatggctgg taataaaatt tcagatttta cggaagaaga
      661 atttactgct tttgttagta aaataatcgc tgctgatttt ccaactgaca aagagaacga
      721 tgatgctatt tattcgttcg cccaactaac agagcatcct gctggttgga acctcatctt
      781 caagcctaag gtaggcgaag attcttcggc gaaaggaatt gttaaaaccg taaaggaatg
      841 gcgagctgct aacggtaagc caggttttaa aaaagcgtga ttgaatttgc gggttcaagt
      901 tatgagcccg ctcatttgta actctggatt tgaagaataa ttactagata tccatttgcc
      961 tagaataata aaaataaaag gtgatatatg aaaaaattac ttttcctagg ggttgttacc
     1021 gtttctgtgg ttctggcagc atgtcaggtc aataatgttc gagacaccgg aggtggggct
     1081 gtttcacctt catcgacggt gaccggagtc acgcttgata gcggtacgaa cggcaatccg
     1141 taaaggatct tcttgagatc ccatttggat cgtcgtaatc tcttgctctg taaacgaaaa
     1201 aaccgccttg cagggcggtt tttccgaagg ttcaaacact tgcaggtgat tgaaccaagg
     1261 taactggctt ggaggagcgc agtcaccaaa acttgttctt tcagtttagc cttaacaggc
     1321 gcatgacttc aagaccaact cctctaaatc cgttaccagt ggctgctgcc agtggcgctt
     1381 tgtcgtgtct ttccgggttg gactcaagat gatagttacc ggataagacg cagcagtcgg
     1441 actgaacggg gggttcgtgc atacagtcca gcttggagcg aactgcctac ccggaactga
     1501 gtgtcaggcg tggaatgaga caaacgcggc cataacagcg gaatgacacc ggtaaaccga
     1561 atggcaggaa caggagagcg cacgagggag ccatcagggg gaaacgcctg gtatctttat
     1621 agtcctgtcg ggtttcgcca ccactgattt gagcgtcaaa ttctgtgatg cttgtcaggg
     1681 gggcggagcc tatggaaaaa cggccgctgt gctgccttct ccctctccga gctgtctgct
     1741 ctatgtcgtt atgtgcgcgt tgcgaccgct cgccgcagcc gaacggcagg agcgtagcga
     1801 ctgagtgagc gaggaagcgg aaaagagatc tgtctgacat tgagcactga cgctctgagg
     1861 ccctttatga cgaaacaaca gaaaacagcg ctgaacatgg ctaaattcat ccagaatcag
     1921 tctctgctcc tgctggagaa gcttaacgag cttgatctcg atgttgaggc cgacctttgt
     1981 gagaaactcc acgatgatgc ggagcatctt ttccgtacac tgtcctcgag actggatgaa
     2041 ttacaggatg gtaattgatg gccagagtgt ctattagtga agcggcacgg cttgttaagg
     2101 ttagccgtcc cacaatttac aagatgatta acagtgggaa gttaagttac acctctgttg
     2161 taaagcacgg gaaggctatt aaagttattg atacttcaga gcttattaga gtgtttggtt
     2221 ctcttgatgg tgtcatcgat actgtaaaat atgatgtaaa aagtgacgca gaatctacaa
     2281 gtattaacag cgttggttta catgatttac aacatagaat cgctctactt gaagctgaaa
     2341 acgatggtct taaaggggct gttaaggctc gagatgagca tattgattcc cttcgtcagg
     2401 ctatgcagct tctggagcac aagcgcgagc cttcttcacc accccattcc ccgtggtgga
     2461 aattctggaa aaaatcctga tcctgccatg cttgagtttt cctctccggc catcccaggg
     2521 agttcctgaa ccttcccaaa aatcgccaga tctctgaacg ctcctcacga ctaaaaatac
     2581 ccacacacta cgcaaaatta aaattttgca gattccttat ttaaaacaat tggttaatga
     2641 aaaattaatg tgcagtgatg tgttacaaag tgcagatcca agtcgtggac gactctatgg
     2701 cgaatcgttt acgaattgcc cacgattcat atgtgaatca cgctttatta tcatgttgtt
     2761 atgatgaatc gactcttgat tcaattcatc aatttgggcg ttttttgttc atggtgactc
     2821 ttgattcaat tcacgattcg aatcgccggt gaatcgtgtg gtgagtcgtc cggcgacttg
     2881 ccataacgtg attgccggcc gtcgacgaac ccgattcctg aacgtgctga aaaccggttt
     2941 tccggctgcg ccggcaacgc ctcacggcca cgcaataaat tgcgtccccg ttcaccgttt
     3001 tcggatcaga agaacgccgg aaacaggact taccctggct gaatggcgtg aatttccgcg
     3061 ctatgcactt gcgcgcatac tcatgcatgc cgtaaaaaca gagcctgcgc gtttctggcg
     3121 ggttttcggg tggtttgttg cctgttttac cggtttcccg tcagaaacgt cctgaggccg
     3181 ttttagcggt gcgtacaatt aagggattat ggtaaatggt gacttggtta atcataaaca
     3241 tcctggggga tggcatacac cagttggata tccggtgcat cgttgagcca tcgacctgat
     3301 tttttcatta agtagccacc aatttcttcg gtagtcagcc gggcatgaaa caatgcttca
     3361 tcattgaacc agcagtcagg gtgatagatg agatccagtg ggtttgcctt gaaattaatc
     3421 tccagtaact ggagtgcata gctgtggtca gatgcactac cttctgcttt gcgtatgaag
     3481 ttgataacgt cgttcagttc tttccatgta aagtcatcga ggtatttttc ctgattaagc
     3541 gccatcctg
//
