LOCUS       NZ_CP065829             3674 bp    DNA     circular CON 30-NOV-2023
DEFINITION  Klebsiella pneumoniae strain KpPF25 plasmid p4, complete sequence.
ACCESSION   NZ_CP065829
VERSION     NZ_CP065829.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN17016749
            Assembly: GCF_016066025.1
KEYWORDS    RefSeq.
SOURCE      Klebsiella pneumoniae
  ORGANISM  Klebsiella pneumoniae
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Klebsiella/Raoultella group; Klebsiella.
REFERENCE   1  (bases 1 to 3674)
  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  JOURNAL   Unpublished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 3674)
  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                   :: 311x, 154x
            Sequencing Technology             :: Illumina NextSeq, ONT MinION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 11/29/2023 22:52:24
            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)                     :: 5,374
            CDSs (total)                      :: 5,249
            Genes (coding)                    :: 5,122
            CDSs (with protein)               :: 5,122
            Genes (RNA)                       :: 125
            rRNAs                             :: 9, 8, 8 (5S, 16S, 23S)
            complete rRNAs                    :: 9, 8, 8 (5S, 16S, 23S)
            tRNAs                             :: 87
            ncRNAs                            :: 13
            Pseudo Genes (total)              :: 127
            CDSs (without protein)            :: 127
            Pseudo Genes (ambiguous residues) :: 0 of 127
            Pseudo Genes (frameshifted)       :: 55 of 127
            Pseudo Genes (incomplete)         :: 65 of 127
            Pseudo Genes (internal stop)      :: 22 of 127
            Pseudo Genes (multiple problems)  :: 12 of 127
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP065829.1.
            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..3674
                     /organism="Klebsiella pneumoniae"
                     /mol_type="genomic DNA"
                     /strain="KpPF25"
                     /isolation_source="urine"
                     /host="Homo sapiens"
                     /db_xref="taxon:573"
                     /plasmid="p4"
                     /geo_loc_name="USA: Dallas, Texas"
                     /lat_lon="32.77 N 96.79 W"
                     /collection_date="2018-09"
                     /collected_by="UT Southwestern Medical Center/ UT Dallas"
     gene            complement(293..439)
                     /locus_tag="I8N74_RS26975"
     CDS             complement(293..439)
                     /locus_tag="I8N74_RS26975"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001717510.1"
                     /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_073545459.1"
                     /translation="MHEPPVQSDCCTLSGNYHLESNPVRHAQAPLAAATGKKVYKRLLI
                     QSS"
                     /name="replication initiation protein"
     gene            855..1046
                     /locus_tag="I8N74_RS26695"
                     /old_locus_tag="I8N74_26695"
     CDS             855..1046
                     /locus_tag="I8N74_RS26695"
                     /old_locus_tag="I8N74_26695"
                     /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_023317861.1"
                     /translation="MTKQQKTALNMAKFIQNQSLLLLEKLNELDLDVEADLCEKLHDDA
                     EHLFRTLSSRLDALQDGY"
                     /name="Rop family plasmid primer RNA-binding protein"
     gene            1046..1447
                     /locus_tag="I8N74_RS26700"
                     /old_locus_tag="I8N74_26700"
     CDS             1046..1447
                     /locus_tag="I8N74_RS26700"
                     /old_locus_tag="I8N74_26700"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_009310048.1"
                     /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_023317862.1"
                     /translation="MARVSISEAARLTGKSRTTLHRLIKEGDLSTCSGERNAKMVDTSE
                     LLRVFGPFEQPKGEHHSGQVSEQRDTASADQGEQVIRHLKQEIEHLNTLLLSKDSHIDS
                     LKQAMLLLENHQAKLTESPAPWWKFWKKS"
                     /name="helix-turn-helix domain-containing protein"
     gene            complement(2231..2533)
                     /locus_tag="I8N74_RS26705"
                     /old_locus_tag="I8N74_26705"
     CDS             complement(2231..2533)
                     /locus_tag="I8N74_RS26705"
                     /old_locus_tag="I8N74_26705"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_006326557.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="DUF3892 domain-containing protein"
                     /protein_id="WP_023317863.1"
                     /translation="MVDFYISAIKMDSAGQHIEFVKVHKINRDGSWNTAGSISSRKFIS
                     ELISMGKASFMTVVKNSSTGKWNLGAKVEAMNDGYITTDPNKTKLDNLGNLPKFV"
                     /name="DUF3892 domain-containing protein"
     gene            complement(2597..2890)
                     /locus_tag="I8N74_RS26710"
                     /old_locus_tag="I8N74_26710"
     CDS             complement(2597..2890)
                     /locus_tag="I8N74_RS26710"
                     /old_locus_tag="I8N74_26710"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000609279.1"
                     /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="HigA family addiction module antitoxin"
                     /protein_id="WP_023317864.1"
                     /translation="MINLYDPVHPGEFIREMFMEPFEIPAAELADKLDVSQSTLSRLLN
                     GKTDLSYEMALRLSKVVGRSAESWVNMQTQFSLSKSRKSLAAELEHLHPMFP"
                     /name="HigA family addiction module antitoxin"
     gene            3228..3509
                     /locus_tag="I8N74_RS26715"
                     /old_locus_tag="I8N74_26715"
     CDS             3228..3509
                     /locus_tag="I8N74_RS26715"
                     /old_locus_tag="I8N74_26715"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000594459.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="type II toxin-antitoxin system RelE/ParE family
                     toxin"
                     /protein_id="WP_032440460.1"
                     /translation="MIKNIKHKGLRSFAEEGSTAGIQPSMAKRLRMILTTLSTATCIQD
                     VVDVRALGCHPLKGERKGEYSVEVNGNWRVVFKVEEPNVLDVDLEDYH"
                     /name="type II toxin-antitoxin system RelE/ParE family
                     toxin"
     Typing          complement(331..734)
                     /name="ColRNAI_rep_cluster_1987"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="95.309"
                     /coverage="99.0"
                     /evalue="0.0"
ORIGIN
        1 gctggggatg gttcttgtta gctgctgtac tttgtgcagg ggctgatact gtccagaagc
       61 atgtgtctac caataaaaag gagcctgctg gtgagtgagc tgtcttggtt cttccttgac
      121 tgctttgaat gataaagcgt atcttactcg ccgagacgaa aaaaccgcct ggggaggcgg
      181 ttttttcgag ggttcagtaa gttggggaac ttctgaaccg tggtaacagg gtgtacaaga
      241 ccgctgaaac caaattctgt cctttcagtt tagccgtagt tgggctgaga cttcaagaac
      301 tctgtatcag taatctcttg tacaccttct taccagtggc tgctgccagt ggcgcttgtg
      361 cgtgtcttac cgggttggac tcaagatgat agttaccgga taaggtgcag cagtcggact
      421 gaacgggggg ttcgtgcata cagtccagct tggagcgaac tgcctacccg gaactgagtg
      481 tctggcgtgg aatgagataa acgcggccat aacagcggaa tgacaccggt aaaccgaaag
      541 gcaggaacag gagagcgcac gagggagcca tcagggggaa actcctgata tctttatagt
      601 cctgtcgggt ttcgccacca ctgatttgag cgtccgtttc tgtgatgctt gtcagggggg
      661 cggagcctat ggaaaaacgg ccgctttgcg gcctttcctt ttccccgcta cgcgaccgct
      721 cggttttctc gagcttttac acgcatgctc ctgccgctcg ccgcagccga acggcaggag
      781 catagcgact gagtgagcga ggaagcggaa aagagaacat ccctacactg agcactgacg
      841 ctctgaggcc tcttatgacg aaacaacaga aaacagcgct gaacatggct aaattcatcc
      901 agaatcagtc tctgctcctg ctggagaagc ttaacgagct tgatctcgat gtcgaggccg
      961 acctttgtga gaaactccac gatgatgcgg agcatctttt ccgtacactg tcctcgagac
     1021 tggatgcatt acaggatggt tactgatggc cagagtgtct attagtgagg ctgcccgact
     1081 gacgggtaag agtagaacaa cactgcacag gttaattaaa gaaggtgacc tgtccacctg
     1141 tagcggtgag cgtaatgcaa aaatggtaga tacttcagag cttttacgtg tctttggtcc
     1201 ctttgagcaa ccgaagggtg aacaccattc tggacaggtc tctgaacagc gtgatacagc
     1261 ctctgctgac cagggtgaac aggtgattcg tcatctgaaa caggagattg aacacctgaa
     1321 taccttactt ttgtccaagg attcgcacat tgacagcctg aaacaggcca tgctccttct
     1381 tgaaaatcac caggcaaaat taactgaatc cccggcgcca tggtggaaat tctggaaaaa
     1441 atcctgaccg cgtcatgctt cagttttcct ctccggtcat tccggggagt tcctgaacct
     1501 tcccaaaaat cgccagatct ctgagcactc ctcaccacga aaaataccca caccccacgc
     1561 aaaattaaaa ttttgcagat agacctttag tttcaattag ttatctattg taaattacgc
     1621 aattttattt tttgtaaggt gaatccgagt cgtgggcgac tctatggcga atcgctgacg
     1681 aattgcccac gattcatatg tgaatcacgc tttattatca tatggttatg atgaattgac
     1741 tcttgattca attcatcact ttgggtgttt tttgttcatg gtgactcttg attcaattca
     1801 cgagtcgaat cgccggtgaa tcgtgtggtg agtcgtccgg cgacttgcca taacgtgatt
     1861 gccggccgtc gacgaacccg attcctgaac gtgctgaaaa cgggttttcc ggctgcgccg
     1921 gcaacggctc acgaccacgc aataaattgc gtccccgttc accgttttcg gatggaaaga
     1981 acgccggaaa caggacttac cctggctgaa tggcgtgaat tttcgcgcta tgcacttgcg
     2041 tgcatactca tgcatgccgt aaaaacagag cctgcgcgtt tctggcgggt tttcgggtgg
     2101 tttgttgcct gttttaccgg tttcccgtca gaaacgccat gaggccgttt tagcggtgcg
     2161 tacaattatg actttatgtt aaatcattag ggaggggatt ctgctggaac ttagtggatg
     2221 ttattgcata tcagacaaat ttcggcagat ttcccaagtt atcgagttta gttttgtttg
     2281 gatctgtggt tatgtagcca tcgttcatcg cttccacttt ggctcctagg ttccacttac
     2341 cagtagagct gttctttaca actgtcataa agctggcttt tcccatgctg atcagctcgc
     2401 tgatgaattt gcgagagctg attgagccgg cagtgttcca tgagccatct cggtttattt
     2461 tatgaacttt tacgaattcg atgtgctgac cagcactgtc cattttgatt gctgagatat
     2521 agaaatctac catggttgcc tcctgatggc tgctgggtgt tttacgtaac aaaagcccgc
     2581 gttctgcggg cttttttcat ggaaacattg gatgcaagtg ttccagctct gccgctaaag
     2641 atttgcgact ttttgacagg ctgaattggg tctgcatgtt tacccacgac tctgcagagc
     2701 ggcctacgac cttcgacaat ctaagtgcca tttcatagct taagtctgtt ttcccattta
     2761 acagtctact taaggtagac tgggatacat caagtttatc ggctaactct gcggcaggta
     2821 tttcgaacgg ttccatgaac atttctctga taaactcacc aggatgaaca ggatcgtaaa
     2881 gatttatcat gccttcctct gtttgttttg tatttgatta tacaaaaaaa attactgcct
     2941 ttcagtatgc gcattgcaca atgtgcaagt tcatgatatt gacaaaaaaa gcagtcagct
     3001 ttaggatact cgttggagtc aaagctactg cgtatgtatg ggcttttatg gccttttcaa
     3061 ggcgcagtat tttaccctta ggattcgttg aagtcaaatg aggtgattga cctcaagaac
     3121 aaacttacgt caattgtttt aataaagcaa gggggcaaaa tggaactaat taaaatgatt
     3181 ttaaaatata gatacaggta tagacgaaaa aaatatgggg attgtagatg ataaaaaaca
     3241 taaaacataa aggacttagg agctttgctg aagaaggtag caccgccggt attcagccca
     3301 gtatggcgaa aagacttcgc atgattttga ctacgctaag cacagcaact tgcattcaag
     3361 acgttgttga cgttagggcg ttagggtgcc accccctaaa gggggagcgt aaaggcgagt
     3421 attccgttga agttaatggg aactggcggg tagttttcaa ggttgaggaa ccaaacgtct
     3481 tagacgttga tcttgaagat tatcattagt tatcaataag taagttgcta atccatccaa
     3541 gtgaaagtac ggatggatta gggactttat taaaaaagta acctctggag aaagtatgag
     3601 atcctttatg gttttattgt tcccgttgat tagcgtaact attgctggag tcctagcttt
     3661 tcgtggtatt gatg
//
