LOCUS       CP128742                2933 bp    DNA     circular BCT 03-JUL-2023
DEFINITION  Klebsiella pneumoniae strain CRE-231 plasmid pCRE-231_6, complete
            sequence.
ACCESSION   CP128742
VERSION     CP128742.1
DBLINK      BioProject: PRJNA788509
            BioSample: SAMN35878155
KEYWORDS    .
SOURCE      Klebsiella pneumoniae
  ORGANISM  Klebsiella pneumoniae
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Klebsiella/Raoultella group; Klebsiella.
REFERENCE   1  (bases 1 to 2933)
  AUTHORS   Kochan,T.
  TITLE     Klebsiella pneumoniae Clinical Isolates with Features of Both
            Multidrug-Resistance and Hypervirulence Have Unexpectedly Low
            Virulence
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 2933)
  AUTHORS   Kochan,T.
  TITLE     Direct Submission
  JOURNAL   Submitted (23-JUN-2023) Microbiology & Immunology, Northwestern
            University, 303 E Chicago Ave, Ward 6-035, Chicago, IL 60611, USA
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: trycycler v. v0.4.1
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 55.5478900268573x
            Sequencing Technology :: Oxford Nanopore MinION/GridION, Illumina
            NovaSeq/MiSeq
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI
            Annotation Date                   :: 06/26/2023 14:00:09
            Annotation Pipeline :: NCBI Prokaryotic Genome Annotation Pipeline
            (PGAP)
            Annotation Method :: Best-placed reference protein set; GeneMarkS-2+
            Annotation Software revision      :: 6.5
            Features Annotated                :: Gene; CDS; rRNA; tRNA; ncRNA
            Genes (total)                     :: 6,219
            CDSs (total)                      :: 6,092
            Genes (coding)                    :: 5,927
            CDSs (with protein)               :: 5,927
            Genes (RNA)                       :: 127
            rRNAs                             :: 9, 8, 8 (5S, 16S, 23S)
            complete rRNAs                    :: 9, 8, 8 (5S, 16S, 23S)
            tRNAs                             :: 90
            ncRNAs                            :: 12
            Pseudo Genes (total)              :: 165
            CDSs (without protein)            :: 165
            Pseudo Genes (ambiguous residues) :: 0 of 165
            Pseudo Genes (frameshifted)       :: 61 of 165
            Pseudo Genes (incomplete)         :: 104 of 165
            Pseudo Genes (internal stop)      :: 26 of 165
            Pseudo Genes (multiple problems)  :: 23 of 165
            CRISPR Arrays                     :: 1
            ##Genome-Annotation-Data-END##
            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/
FEATURES             Location/Qualifiers
     source          1..2933
                     /organism="Klebsiella pneumoniae"
                     /mol_type="genomic DNA"
                     /strain="CRE-231"
                     /isolation_source="urine"
                     /host="Homo sapiens"
                     /db_xref="taxon:573"
                     /plasmid="pCRE-231_6"
                     /geo_loc_name="USA: Chicago"
                     /lat_lon="41.8945 N 87.6208 W"
                     /collection_date="2015-09"
     gene            1..144
                     /locus_tag="QU719_31070"
     CDS             1..144
                     /locus_tag="QU719_31070"
                     /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="replication initiation protein"
                     /protein_id="WJU91109.1"
                     /translation="MHEPPVQSDCCALSGNYRLESNPERHDLSPLAAATGNGFAEQRSV
                     EV"
                     /name="replication initiation protein"
     gene            434..811
                     /locus_tag="QU719_31075"
     CDS             434..811
                     /locus_tag="QU719_31075"
                     /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="WJU91110.1"
                     /translation="MIHNHPTWVIKSMIYRLGILSISLLTVGCVSTSNVLELGRDTYTV
                     SATADGFRDAASARQSAFKTGSEKCNSLGKKFLLTNENVANTRMGIDTTVTLYFRCLDE
                     RDSEYVRPNLQKAPDLRIESK"
                     /name="hypothetical protein"
     gene            826..1173
                     /locus_tag="QU719_31080"
     CDS             826..1173
                     /locus_tag="QU719_31080"
                     /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="WJU91111.1"
                     /translation="MIMILWWISSFITHMMKVGNVREYGPTKSHLLLMVTTLPAGVGVF
                     IYPIVEVIWGDLSLLKVAGYTFLSLIVGGLLANIIVRGLSATTFGILLVNPLAMICSIA
                     GLIVLAIQHLP"
                     /name="hypothetical protein"
     gene            1311..1553
                     /locus_tag="QU719_31085"
     CDS             1311..1553
                     /locus_tag="QU719_31085"
                     /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="WJU91112.1"
                     /translation="MHSAEIHTIQPGEVLFPAFFSSENGERGRNLLRGREALPAQPENR
                     FSAPSGIGFVDGRQSRYGKSPDDSPHDSPAIRIVN"
                     /name="hypothetical protein"
     gene            complement(1905..2327)
                     /locus_tag="QU719_31090"
     CDS             complement(1905..2327)
                     /locus_tag="QU719_31090"
                     /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="WJU91107.1"
                     /translation="MARVSISEAARLVKVSRPTIYKMINSGKLSYTSVVKHGKDIKVID
                     VSELIRVFGSLDGVTDTVKYDVKSDAESTGINSVGLHDLQHRIALLEAENDGLKGAVKA
                     RDEHIDSLRQAMQLLEHKHEPSSPSHSPWWKFWKKS"
                     /name="helix-turn-helix domain-containing protein"
     gene            complement(2327..2518)
                     /locus_tag="QU719_31095"
     CDS             complement(2327..2518)
                     /locus_tag="QU719_31095"
                     /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="WJU91108.1"
                     /translation="MTKQQKTALNMAKFIQNQSLLLLEKLNELDLDAEADLCEKLHDDA
                     EHLFRTLSSRLDSLQDGN"
                     /name="Rop family plasmid primer RNA-binding protein"
     Typing          2..291
                     /name="rep_cluster_2374"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="83.828"
                     /coverage="98.0"
                     /evalue="7.09e-71"
     Typing          2677..2933
                     /name="rep_cluster_2373"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="96.124"
                     /coverage="85.0"
                     /evalue="2.43e-115"
ORIGIN
        1 atgcacgaac cccccgttca gtccgactgc tgcgccttat ccggtaacta tcgtcttgag
       61 tccaatccgg aaagacacga cttatcgcca ctggcagcag ccactggtaa cggattcgca
      121 gaacaaagaa gtgttgaagt gtgaggtgaa gtacagctac actgtaataa ctaatttggt
      181 ttctgtgctc tgcgaaagcc agttacctcg gttcaaagag ttgctgctct aagaaccttc
      241 gaaaaaaccg ccttgctggg cggttttttc gtttccaggg caagagatta cgacgcaaca
      301 gaaaggatct caagaggatc ctattccatc cctctccccc ccaaagggaa accagcacca
      361 ctccacgaca ccagttcttt gaagaaaatt attgaacccc ttgattttaa taataaaaaa
      421 aacagatata atcatgatcc acaatcaccc aacttgggta ataaaatcaa tgatttatag
      481 gttaggtatt ttatcaatat cgctgcttac agttggttgt gtttctacca gcaacgttct
      541 tgagttaggt agggatacat atacggtttc agcaactgct gatggtttta gagatgcggc
      601 atcagcacgt caaagtgcct ttaaaacagg ttctgagaaa tgtaatagcc tcggtaaaaa
      661 attcctgctc actaacgaaa acgtggctaa cacaagaatg gggatagata ccacagtaac
      721 actctacttc cgttgtcttg acgaaagaga cagcgagtat gtacgaccaa atctacagaa
      781 agcacctgat ctacgcatcg agagtaaata attatgaatt tccttatgat catgatccta
      841 tggtggatat cgtcattcat cacacacatg atgaaagttg gaaatgtcag agagtacggt
      901 cccactaaaa gccatttact gttgatggtt actacgcttc ctgctggcgt tggtgttttt
      961 atctatccga tagtagaggt gatatgggga gatctgtcgt tactgaaagt tgctggttat
     1021 acctttttat ccctcattgt tggcggactt cttgccaata tcattgttcg cggattatct
     1081 gcgacaacat tcggcatttt gctcgtaaat ccattagcaa tgatatgtag cattgccgga
     1141 ctgatagtcc ttgctatcca acatttacca taacatccgt tatcagcacc gcctgagagg
     1201 ccctcagggc gtttctgacg ggaaaccggt aaaacaggca acaaaccacc cgaaaacccg
     1261 ccagaaacgc gcaggctctg tttttacggc atgcatgagt atgcgcgcaa gtgcatagcg
     1321 cggaaattca caccattcag ccaggggaag tcctgtttcc ggcgttcttc tcctccgaaa
     1381 acggtgaacg gggacgcaat ttattgcgtg gccgtgaagc gttgccggcg cagccggaaa
     1441 accggttttc agcaccttca ggaatcgggt tcgtcgacgg ccggcaatca cgttatggca
     1501 agtcgccgga cgactcacca cacgattcac cggcgattcg aatcgtgaat tgaatcaaga
     1561 gtcaccatga gcaaaaaaca cccaaagtga tgaattgaat caagagtcga ttcatcataa
     1621 caatatgata ataaagcgtg attcacatat gaatcgtggg caattcgtca gcgattcgcc
     1681 atagagtcgt ccacgacttg gatctgcact ttgtaacaca tcaccgcaca tttatttttc
     1741 attaacccat tgttgtaaat aatgaatctg caaaatttta attttgcgtg gggtgtgggt
     1801 atgggtattt ttagtggtga ggagcgttca gagatctggc gatttttggg aaggttcaga
     1861 aactctccgg gatggccgga gaggaaaact caagcatggc aggatcagga ttttttccag
     1921 aatttccacc acggggaatg ggatggtgaa gaaggttcgt gcttgtgctc cagaagctgc
     1981 atagcctgac gaagggaatc aatatgctca tctcgagcct taacagcccc tttaagacca
     2041 tcgttttcag cttcaagtaa agcgattcta tgttgtaaat catgtaaacc aacgctgtta
     2101 atacctgtag attctgcgtc actttttaca tcatatttta cagtatcagt tacaccatca
     2161 agagaaccaa acaccctaat aagctcggat acatcaataa ctttaatatc cttcccgtgc
     2221 tttacaacag aggtataact taacttcccg ctgttaatca tcttgtaaat agtgggacga
     2281 ctaaccttaa caagccgtgc agcttcacta atagacactc tggccatcag ttaccatcct
     2341 gtaatgaatc cagtctcgag gagagtgtac ggaaaagatg ctctgcatca tcgtggagtt
     2401 tctcacaaag gtcggcctca gcatcaagat caagctcgtt aagcttctcc agcaggagca
     2461 gagactgatt ctggatgaat ttagccatgt tcagcgccgt tttctgttgt ttcgtcataa
     2521 agggcctcag agcgtcagtg ctcagtgtaa aacctgtctc ttttccgctt cctcgctcac
     2581 tcagtcgcta cgctccggtc gttcggctgc ggcgagcggc aggagcatgc atagaaaagc
     2641 tcgagaaaac cgagcggtca aaggaggaaa aaaaggaaag gccacggcgt tgccgttttt
     2701 ccataggctc cgcccccctg acaagcatcg cagaaacgga cgctcaaatc agtggtggcg
     2761 aaacccgaca ggactataaa gataccaggc gtttccccct ggcggctccc tcgtgcgctc
     2821 tcctgttcct gcctttcggt ttaccggtgt cactccgctg ttatggccgc gtttatctca
     2881 ttccacgcct gacactcagt tccgggtagg cagttcgctc caagctggac tgt
//
