LOCUS       NZ_CP065836             4165 bp    DNA     circular CON 30-NOV-2023
DEFINITION  Klebsiella pneumoniae strain KpC5 plasmid p3, complete sequence.
ACCESSION   NZ_CP065836
VERSION     NZ_CP065836.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN17016747
            Assembly: GCF_016066475.1
KEYWORDS    RefSeq.
SOURCE      Klebsiella pneumoniae
  ORGANISM  Klebsiella pneumoniae
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Klebsiella/Raoultella group; Klebsiella.
REFERENCE   1  (bases 1 to 4165)
  AUTHORS   Venkitapathi,S., Sharon,B.M., Ratna,T.A., Arute,A.P., Zimmern,P.E.
            and De Nisco,N.J.
  TITLE     Complete Genome Sequences of Six Uropathogenic Klebsiella pneumoniae
            Strains Isolated from Postmenopausal Women with Recurrent Urinary
            Tract Infection (rUTI)
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 4165)
  AUTHORS   Sharon,B.M., Venkitapathi,S., Ratna,T.A., Arute,A.P., Zimmern,P.E.
            and De Nisco,N.J.
  TITLE     Direct Submission
  JOURNAL   Submitted (07-DEC-2020) Biological Sciences, University of Texas at
            Dallas, 800 W Campbell Road, Richardson, TX 75080, USA
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: Unicycler v. v.0.4.8
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 284x, 150x
            Sequencing Technology             :: Illumina NextSeq, ONT MinION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 11/29/2023 23:01:13
            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)                     :: 5,329
            CDSs (total)                      :: 5,212
            Genes (coding)                    :: 5,072
            CDSs (with protein)               :: 5,072
            Genes (RNA)                       :: 117
            rRNAs                             :: 9, 8, 8 (5S, 16S, 23S)
            complete rRNAs                    :: 9, 8, 8 (5S, 16S, 23S)
            tRNAs                             :: 83
            ncRNAs                            :: 9
            Pseudo Genes (total)              :: 140
            CDSs (without protein)            :: 140
            Pseudo Genes (ambiguous residues) :: 0 of 140
            Pseudo Genes (frameshifted)       :: 56 of 140
            Pseudo Genes (incomplete)         :: 80 of 140
            Pseudo Genes (internal stop)      :: 32 of 140
            Pseudo Genes (multiple problems)  :: 25 of 140
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP065836.1.
            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..4165
                     /organism="Klebsiella pneumoniae"
                     /mol_type="genomic DNA"
                     /strain="KpC5"
                     /isolation_source="urine"
                     /host="Homo sapiens"
                     /db_xref="taxon:573"
                     /plasmid="p3"
                     /geo_loc_name="USA: Dallas, Texas"
                     /lat_lon="32.77 N 96.79 W"
                     /collection_date="2018-05"
                     /collected_by="UT Southwestern Medical Center/ UT Dallas"
     gene            complement(290..481)
                     /locus_tag="I8N78_RS26470"
                     /old_locus_tag="I8N78_26470"
     CDS             complement(290..481)
                     /locus_tag="I8N78_RS26470"
                     /old_locus_tag="I8N78_26470"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001041614.1"
                     /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_022631206.1"
                     /translation="MNKQQKTAVNMAKFIQAQSLLLLDRLNDLDLDHEADFCEKLHEDA
                     ERLYRSLSARLNEQQDGA"
                     /name="Rop family plasmid primer RNA-binding protein"
     gene            complement(859..1509)
                     /locus_tag="I8N78_RS26475"
                     /old_locus_tag="I8N78_26475"
     CDS             complement(859..1509)
                     /locus_tag="I8N78_RS26475"
                     /old_locus_tag="I8N78_26475"
                     /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_064176659.1"
                     /translation="MRYVKISLSVATFLLFWYVSSFFTGCSDGWGSSSIGLRGACSYHG
                     GVSKLPIIIIFLGLIASFFVFFLFPDSESATSKKDTFPVVNKESNESIPKIKTNTHNEI
                     KVKRELKIEIENLNDKKFSKIFIYSDGLFIKEFNPENKMKVSTKRINKNKILKISNLLR
                     EGKGGAINPILDVEAKGYLVRLFENHAHESKTYFIDRSEKQAFSDIKELINSV"
                     /name="hypothetical protein"
     gene            complement(1526..2461)
                     /locus_tag="I8N78_RS26480"
                     /old_locus_tag="I8N78_26480"
     CDS             complement(1526..2461)
                     /locus_tag="I8N78_RS26480"
                     /old_locus_tag="I8N78_26480"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_016494266.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="replication initiation protein"
                     /protein_id="WP_048290526.1"
                     /translation="MTKPPLDLFNDRLPNKPYFSDDLHFGVRIAGKERAILAKYIQFNQ
                     PHAMFWLGFDVDRTGAAIDWSDRNAPAPTLTITNPENGHAHLLYALETPVRTAPDGKMK
                     PLRYAAAVENALRKKLEADEGYSGLICKNPNHGHWKIAVWQPELYTLDWLADSLDLSAA
                     NDKEIVADYGLGRNCTLFDKTRKWAYRAIRQGWPEYEQWLQACYERASAYNLQFSSPLD
                     ENEVNGIAKSIAKWTHSNFDEASFKKYVEDTHSSYIQSLRGKKSRGGGRKKMPEDKILA
                     IKEMVSEGMSYREISKLENVSIGFISKHCK"
                     /name="replication initiation protein"
     gene            complement(3382..3792)
                     /locus_tag="I8N78_RS26485"
                     /old_locus_tag="I8N78_26485"
     CDS             complement(3382..3792)
                     /locus_tag="I8N78_RS26485"
                     /old_locus_tag="I8N78_26485"
                     /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_025714791.1"
                     /translation="MARVSISEAARLVKVSRPTIYKMINSGKLSYTSVVKHGKSIKVID
                     TSELIRVFGSLDGVIDDVKSDAESTGINSVGLHDLQHRIALLEAENDGLKGAVKARDEH
                     IDSLRQAMQLLEHKHEPSSPPHSPWWKFWKKS"
                     /name="helix-turn-helix domain-containing protein"
     gene            complement(3792..3983)
                     /locus_tag="I8N78_RS26490"
                     /old_locus_tag="I8N78_26490"
     CDS             complement(3792..3983)
                     /locus_tag="I8N78_RS26490"
                     /old_locus_tag="I8N78_26490"
                     /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_025714792.1"
                     /translation="MTKQQKTALNMAKFIQNQSLLLLEKLNELDLDAEADLCEKLHDDA
                     EHLFRTLSSRLDELLDGN"
                     /name="Rop family plasmid primer RNA-binding protein"
ORIGIN
        1 ggaaaaataa tccgttcatg caggcatgaa cgatacagtg aggaacgctt tttttgtcac
       61 gatctaccct taacctgcgt aaatcacccg ccatgattga ttatttttca acctcaaaat
      121 ggtcatacac ctaacgcagc tgcgattttc atcgcaactt catgaaaaat aaataaaaaa
      181 gaaaaaatac agggattctg ggtattaccg gggtaataat gttaagcgct aacacaatga
      241 aaattaaggc gatgccggta ttactccggt aatacttaga acggagacat tacgcaccgt
      301 cctgctgctc attcaggcgc gctgacaggc ttcggtaaag gcgttccgca tcctcatgga
      361 gtttctcgca gaaatcagcc tcatgatcca gatccaggtc attaagcctg tccagaagaa
      421 gcagggactg agcctggatg aatttagcca tgttaacggc tgtcttttgt tgtttgttca
      481 tgaaggcccc ggcgcgacag tgcttactgt acgttctgat ggttttccgc ttcctcgctc
      541 attcgctcac tccgttcggt catgagactg cggcgagcgt taccggctaa tcacggtgag
      601 aatattcgca gtgaatgtgg gaataattcg caaaagattc gcaccattct cacgggggtt
      661 tcgggggatg caatcccctg aaccagtcac ggtggaccct cgccagaggg gactccgtgt
      721 gtactggctt aaagggtagt gcagtatgtc aggttctgtg ctggctgcaa aaaaaagccc
      781 tctgctagag agggctgtta tctgatatag gttgtttatg aacaccttcg ataaaagggt
      841 tcataaacaa ccttcccatt agacgctatt gatgagttct ttaatgtccg aaaaggcttg
      901 tttctccgat ctatcaataa aataagtttt actttcatgc gcatgatttt cgaacaaacg
      961 cacaagatac ccttttgctt ccacatcgag aatgggattt atagcccccc ccttcccttc
     1021 acgaagaaga ttacttattt ttaatatttt atttttatta atccttttgg tactcacctt
     1081 cattttattt tcaggattga actctttaat aaaaagacca tcagaataaa taaatatttt
     1141 agagaatttc ttatcgttta aattctctat ttctattttc aattcgcgct taacttttat
     1201 ttcgttatgc gtattggttt ttatttttgg aatagactca ttactttcct tgtttacaac
     1261 agggaaagta tcctttttgc tagtagcact ttcactatca gggaaaagaa aaaaaacaaa
     1321 aaaactagcg atgaggccca aaaagataat gattataggt agcttactaa cgccgccatg
     1381 atatgaacac gctcctctca accctatgga tgaagaaccc cagccatcag aacaccctgt
     1441 gaaaaagcta gagacatacc aaaacaataa aaaagtagct actgaaaggg aaatctttac
     1501 gtaacgcata aatcaccaat tcatttcatt tgcaatgttt gctaataaac cctatggata
     1561 cattttctaa tttggagatc tctctataag acatgccttc agaaaccatc tcttttattg
     1621 caagaatctt atcttctggc attttcttcc gcccccctcc acgactcttt tttcctctta
     1681 atgattgaat gtaactactg tgtgtatctt ccacatactt cttaaatgaa gcttcatcaa
     1741 aattactatg agtccattta gcaatacttt tcgcaatacc gttcacctca ttttcatcaa
     1801 gagggctcga aaattgcaga ttgtaggcac tggcacgttc atagcaggct tgcagccact
     1861 gctcatactc cggccagccc tggcggatcg cccggtatgc ccacttgcgg gttttatcga
     1921 acagagtgca gttacggcct aaaccatagt cggcgacgat ttctttgtcg ttcgcggcac
     1981 tcaggtcgag cgagtcggcc agccagtcca gcgtgtagag ttccggctgc cacacggcga
     2041 ttttccagtg gccgtggttc ggatttttgc agattagtcc cgaatacccc tcgtcagcct
     2101 ctaatttttt acgcagcgcg ttctccacgg cggcggcgta gcgcagcggc ttcatttttc
     2161 cgtcaggagc ggtgcgtacc ggggtttcca gcgcgtacag caggtgcgca tgtccgtttt
     2221 ccgggttggt gatggtcagc gtgggcgcag gcgcgttccg gtcgctccag tcgatggccg
     2281 caccggtgcg atcgacgtcg aatcccagcc agaacatggc gtgcggctgg ttgaactgga
     2341 tgtatttcgc caggatcgcg cgctctttcc cggcgatgcg cacgccgaag tgcaaatcgt
     2401 ccgagaagta cggtttgttt gggagacggt cgttaaaaag atcgaggggg ggcttagtca
     2461 ctcacgcctg aacttatggc gggctgttgt cttgctgggt gcatgtgcta gtatccttct
     2521 taggaattta gtcctgcgcc ctcgttatcg tgatcttccg ccaagttgat tgcacgattt
     2581 cgggggcgtt tgctttctgg ggttaaaact acacccagtt caggcacttg tcgacctccc
     2641 cccgatttac cataacatct gttatcagca ccgcctcagg cgccctcagc gcgtttctga
     2701 cgggaaaccg gcaaaacagg cagcaaacca cccgaaaacc cgccagaaac gcgcaggctc
     2761 tgtttttacg gcatgcatga gtatgcgcgc aagtgcatag cgcggaaatt cacgccattc
     2821 agccggggta agtcctgttt ccgatgttct tcttacccga aaacggtgaa cggggacgca
     2881 atttattgcg tggccgtgaa gcgttgccgg cgcagccgga aaaccggttt tcagcacgtt
     2941 caggaatcgg gttcgtcgac ggccggcaat cacgttatgg caagacgccg gacgactcac
     3001 cacacgattc accggcgatt cgactcgtga cttgactcta gagtcaccac ggtcaaaaaa
     3061 acgccaaagc gacgattcga ctctagagtc aagtcgtcat aagttactga tagtgtggag
     3121 tgagtcgtcg atgactctat gacgagtcgt cggtaagtcg tacacgaatc accgacgact
     3181 tggattgacc ttacagaagg taatactgcg taatttaata aaacctaacc aactgataat
     3241 aaggagttat ctgcaaaatt ttaattttgc gtggtgtgtg ggtatttttc gtggtgagga
     3301 gtgttcccgg atctggcgat ttttgggaag gttcaggaac gccccgggat ggccggagag
     3361 gaaaactcaa gcatggcggg atcaggattt tttccagaat ttccaccacg gggaatgggg
     3421 tggtgaagaa ggttcgtgct tgtgctccag aagctgcata gcctgacgaa gggaatcaat
     3481 atgctcatct cgagccttaa cagccccttt aagaccatcg ttttcagctt caagtaaagc
     3541 gattctatgt tgtaaatcat gtaaaccaac gctgttaata cctgtagatt ctgcgtcact
     3601 ttttacatca tcgatgacac catcaagaga accaaacacc ctaataagct ctgatgtatc
     3661 aataacttta atactcttcc cgtgctttac aacagaggtg taacttaact taccactgtt
     3721 aatcatcttg taaatagtag ggcgactaac cttaacaagc cgtgctgctt cactaataga
     3781 cactctggcc atcagttacc atccagtaat tcatccagtc tcgaggacag tgtacggaaa
     3841 agatgctccg catcatcgtg gagtttctca caaaggtcgg cctcagcatc gagatcaagc
     3901 tcgttaagct tctccagcag gagcagagac tgattctgga tgaatttagc catgttcagc
     3961 gctgttttct gttgtttcgt cataagggac ctcagagcat cagtgctcag tgtaaaaccg
     4021 gtaagggggt cggatgtacg aatggttcag agaacggatc tgaggtaatc ctgtagttat
     4081 tttgtagttt atctgtagtc atcgcactaa aaatcaggat taagtcatca acttttgtag
     4141 tcttcctgta gtttacctgt agtcc
//
