LOCUS       NZ_CP041951             3733 bp    DNA     circular CON 26-NOV-2023
DEFINITION  Klebsiella pneumoniae strain KP2 plasmid pKP2_5, complete sequence.
ACCESSION   NZ_CP041951
VERSION     NZ_CP041951.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN12307651
            Assembly: GCF_009720445.1
KEYWORDS    RefSeq.
SOURCE      Klebsiella pneumoniae
  ORGANISM  Klebsiella pneumoniae
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Klebsiella/Raoultella group; Klebsiella.
REFERENCE   1  (bases 1 to 3733)
  AUTHORS   Khan,A., Shropshire,W.C., Hanson,B., Dinh,A.Q., Wagner,A.,
            Ostrosky-Zeichner,L., Arias,C.A. and Miller,W.R.
  TITLE     Simultaneous Infection with Enterobacteriaceae and Pseudomonas
            aeruginosa harboring Multiple Carbapenemases in a Returning Traveler
            colonized with Candida auris
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 3733)
  AUTHORS   Khan,A., Shropshire,W.C., Hanson,B., Dinh,A.Q., Wagner,A.,
            Ostrosky-Zeichner,L., Arias,C.A. and Miller,W.R.
  TITLE     Direct Submission
  JOURNAL   Submitted (18-JUL-2019) Epidemiology, Human Genetics and
            Environmental Sciences, The University of Texas Health Science
            Center at Houston, 1200 Pressler Street, Houston, TX 77030, USA
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: Celera Assembler v. 1.8
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 448x
            Sequencing Technology             :: Oxford Nanopore GridION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 11/26/2023 04:10:46
            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)                     :: 5,759
            CDSs (total)                      :: 5,632
            Genes (coding)                    :: 5,471
            CDSs (with protein)               :: 5,471
            Genes (RNA)                       :: 127
            rRNAs                             :: 9, 8, 8 (5S, 16S, 23S)
            complete rRNAs                    :: 9, 8, 8 (5S, 16S, 23S)
            tRNAs                             :: 89
            ncRNAs                            :: 13
            Pseudo Genes (total)              :: 161
            CDSs (without protein)            :: 161
            Pseudo Genes (ambiguous residues) :: 0 of 161
            Pseudo Genes (frameshifted)       :: 84 of 161
            Pseudo Genes (incomplete)         :: 79 of 161
            Pseudo Genes (internal stop)      :: 16 of 161
            Pseudo Genes (multiple problems)  :: 18 of 161
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP041951.1.
            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..3733
                     /organism="Klebsiella pneumoniae"
                     /mol_type="genomic DNA"
                     /strain="KP2"
                     /isolation_source="urine"
                     /host="Homo sapiens"
                     /db_xref="taxon:573"
                     /plasmid="pKP2_5"
                     /geo_loc_name="USA:Houston"
                     /lat_lon="29.712470 N 95.397690 W"
                     /collection_date="2017-09-29"
                     /collected_by="William R. Miller"
                     /genotype="ST16"
     gene            complement(join(3627..3733,1..85))
                     /locus_tag="FOZ68_RS27815"
                     /old_locus_tag="FOZ68_28645"
     CDS             complement(join(3627..3733,1..85))
                     /locus_tag="FOZ68_RS27815"
                     /old_locus_tag="FOZ68_28645"
                     /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_087812789.1"
                     /translation="MRKEQKTALNMAKFIQNQSLLLLEKLNELDLDVEADLCEKLHDDA
                     EHLFRTLSSRLDELQDGN"
                     /name="Rop family plasmid primer RNA-binding protein"
     gene            complement(769..1236)
                     /locus_tag="FOZ68_RS27820"
                     /old_locus_tag="FOZ68_28660"
     CDS             complement(769..1236)
                     /locus_tag="FOZ68_RS27820"
                     /old_locus_tag="FOZ68_28660"
                     /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="transcriptional regulator"
                     /protein_id="WP_087812786.1"
                     /translation="MRKASLGSEGIGGLIENLPQMLHGFSEQLHSVSILMSACMEPVTD
                     DHDLQERMAIIDELYSCAEDIDHVAIKFADLVTDRVYEYEKKNRNVPNVSPSEALSYFI
                     KERGLRQADLKSVASQSIISELINGKRVMNIDQVKGFAAFFDVPVETFMGT"
                     /name="transcriptional regulator"
     gene            complement(1240..1611)
                     /locus_tag="FOZ68_RS27825"
                     /old_locus_tag="FOZ68_28665"
     CDS             complement(1240..1611)
                     /locus_tag="FOZ68_RS27825"
                     /old_locus_tag="FOZ68_28665"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_008086990.1"
                     /GO_component="GO:0110001 - toxin-antitoxin complex
                     [Evidence IEA]"
                     /GO_function="GO:0004519 - endonuclease activity [Evidence
                     IEA]; GO:0016788 - hydrolase activity, acting on ester
                     bonds [Evidence IEA]; GO:0003723 - RNA binding [Evidence
                     IEA]"
                     /GO_process="GO:0090305 - nucleic acid phosphodiester bond
                     hydrolysis [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="type II toxin-antitoxin system HigB family toxin"
                     /protein_id="WP_087812785.1"
                     /translation="MRVVTARTITDAMTVHAQWKVGLKLWLDVFDKQSLIFESFSQLRD
                     VWLSKSGWNVDRIPCSLLKAESKKGPLDIYVFDIHKNQCRVVVWLNPKSGTFFVKDVCS
                     HAEYDRWWRGQTKSQRSKG"
                     /name="type II toxin-antitoxin system HigB family toxin"
     gene            complement(1672..2241)
                     /locus_tag="FOZ68_RS27830"
                     /old_locus_tag="FOZ68_28670"
     CDS             complement(1672..2241)
                     /locus_tag="FOZ68_RS27830"
                     /old_locus_tag="FOZ68_28670"
                     /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_124982953.1"
                     /translation="MSSDDSKISTDAIGDVNEYLLSPTKGGALKVTIPDDLNDDLSAYA
                     AGYNTSKSEVVRNSVASFMGNDLRWTHRQYFFRPRRKLVSFEDLRMCTGFVQVACFPKD
                     LPRNASGVTVKLLKYEKNFSIITFDLGNGVVPHPPYPIQGGDIDLGPGSLVMPTVEQST
                     NIYTMNIIYYRINNDLIWGVCPAISN"
                     /name="hypothetical protein"
     gene            complement(3205..3627)
                     /locus_tag="FOZ68_RS27835"
                     /old_locus_tag="FOZ68_28680"
     CDS             complement(3205..3627)
                     /locus_tag="FOZ68_RS27835"
                     /old_locus_tag="FOZ68_28680"
                     /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_045265535.1"
                     /translation="MARVSISEAARLVKVSRPTIYKMINSGKLSYTSVVKHGKAIKVID
                     TSELIRVFGSLDGVIDTVKYDVKSDAESTGVNSVGLHDLQHRIALLEAENDGLKGAVKA
                     RDEHIDSLRQAMQLLEHKHEPSSPPHSPWWKFWKKS"
                     /name="helix-turn-helix domain-containing protein"
     Typing          207..614
                     /name="ColRNAI_rep_cluster_1987"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="94.377"
                     /coverage="99.0"
                     /evalue="1.26e-177"
ORIGIN
        1 gctcgttaag cttctccaac aagagcagag actgattctg gatgaattta gccatgttca
       61 gcgctgtttt ctgttctttc ctcataaagg gcctcagagc gtcagtgctc aatgtcagac
      121 aggtctcttt tccgcttcct cgctcactca gtagctacgc tcctgccgtt cggctgcggc
      181 gagcggcagg agcatgcgta gaaacgctcg agaaaaccga gcaatcgtat gatggagaga
      241 aggaaaggcc gcacggcggc cgtttttcca taggctccgc ccccctgacg agcatcacgg
      301 aatctgacgc tcaaatcagt ggtggcgaaa cccgacagga ctataaagat accaggcgtt
      361 tccccctgat ggctccctcg tgcgctctcc tgttcctgcc tttcggttta ccggtgtcat
      421 tccgctgtta tggccgcgtt tgtctcattc cacgcctgac actcagttcc gggtaggcag
      481 ttcgctccaa gctggactgt atgcacgaac cccccgttca gtccgaccgc tgcgccttct
      541 ccggtaacta tcgtcttgag tccaacccgg taagacatgc aaaagcgcca ctggcagcag
      601 ccactggtaa ctgatttaga ggagttagtc ttgaagttat gcatcaatta aagctaaact
      661 gaaaggacca atttggtgac taagctcctc caagctcgtt accgcaggtt ttatgagttg
      721 ctagctcaac gaacctaaaa aaaccaccgc taccaacggt ggtttttttt atgtccccat
      781 aaacgtttcc acaggaacat caaaaaacgc agcaaatcct ttcacctgat ctatgttcat
      841 aacccttttt ccattgatga gttcagatat gatgctctga ctagcaacag atttaaggtc
      901 agcttgtcga agcccccgtt cctttatgaa ataagacaac gcctcactgg ggctgacgtt
      961 aggaacgtta cgatttttct tctcgtactc atagactcga tcggttacaa gatcggcaaa
     1021 ttttatagcg acatgatcga tatcttctgc acaagaatac aattcatcaa taatcgccat
     1081 acgttcttgg aggtcatgat catcggtgac tggctccata catgcagaca ttaagataga
     1141 cactgaatgc aactgttcag aaaaaccatg taacatctgc ggtaaatttt cgatgagccc
     1201 accaattcct tcagaaccga gtgatgcttt tctcataatt cacccttttg acctttgaga
     1261 tttagtttgc cccctccacc atcgatcata ttcggcatga gaacaaacat ctttgacaaa
     1321 aaaagtacca gacttagggt tcaaccagac aacaactctg cattgattct tgtgtatatc
     1381 aaaaacatat atatcaagag gccccttctt actttctgcc tttaacaggc tacaaggtat
     1441 gcgatcgaca ttccatcctg atttactaag ccaaacatcc cgaagttgag aaaatgactc
     1501 aaaaatcaaa gattgcttat caaagacatc aagccataat ttgagtccaa ctttccactg
     1561 ggcatgaaca gtcatagcat cagtgatagt tctagccgta acaacgcgca taacctaccc
     1621 ctataatatc gcaatttgcg atatttgcaa aataaagcga tttaaattta ttcaattact
     1681 aatcgctgga cacacacccc agattaagtc attgtttatt ctgtaatata taatgttcat
     1741 tgtatagata ttggtactct gttctacggt gggcataact aaagaaccag gtccgagatc
     1801 gatatccccc ccctgaatcg gatagggtgg gtgaggtaca acaccatttc caagatcaaa
     1861 agttataatc gaaaaatttt tctcatattt aagtaactta actgtaactc cagaggcatt
     1921 ccttggaaga tcttttggaa aacaagcgac ttgaacaaag ccagtacaca ttctaagatc
     1981 ttcaaaacta actaatttcc tacgtggtcg gaaaaagtat tgccgatgag tccagcgtag
     2041 atcgttcccc atgaaactag ctacgctatt cctcactact tcagactttg atgtgttgta
     2101 accagctgcg taggctgata agtcatcatt tagatcatca gggatggtta ccttcaacgc
     2161 ccccccttta gtcggagata aaagatattc atttacatcc ccgatggcat cggtagaaat
     2221 ttttgaatca tcgctagaca tataccaccc cgcaaaaaga acaagaacgg acacatagtg
     2281 gaacttttta gtccacatgt aaacacttta aagatcataa aagaataatt caactaatca
     2341 catccatata aaactgaact gaataaaatg gtcacgaaag ggtctgagga aaggtcgcca
     2401 agaagccagc cgcttagtcc ctcagcagaa agtcccttta gccccttcaa tggcatttta
     2461 cgattattat ttaacataaa gccctgattg tacgcaccgc taaaacggcc tcagggcgtt
     2521 tctgacggga aaccggtaaa acaggcaaca aaccacccga aaacccgcca gaaacgcgca
     2581 ggctctgttt ttacggcatg catgagtatg cgcgcaagtg catagcgcgg aaattcacgc
     2641 cattcagcca gggtaagtcc tgtttccggc gttcttctga tccgaaaacg gtgaacgggg
     2701 acgcaattta ttgcgtggcc gtgaggcgtt gccggcgcag ccggaaaacc ggttttcagc
     2761 acgttcagga atcgggttcg tcgacggccg gcaatcacgt tatggcaagt cgccggacga
     2821 ctcaccacac gattcaccgg cgattcgaat cgtgaattga atcaagagtc accatgaaca
     2881 aaaacgccca aattgatgaa ttgaatcaag agtcgattca tcataacaac atgataataa
     2941 agcgtgattc acatatgaat cgtgggcaat tcgtaaacga ttcgccatag agtcgtccac
     3001 gacttggatc tgcactttgt aacacatcac tgcacattaa tttttcatta acaaattgtt
     3061 ttaaataagg aatctgcaaa attttaattt tgcgtagtgt gtgggtattt ttagtggtga
     3121 ggagcgttca gagatctggc gattttttgg aaggttcagg aactccccgg aatggccgga
     3181 gaggaaaact gaagcatgac ggggtcagga ttttttccag aatttccacc acggggaatg
     3241 gggtggtgaa gaaggttcgt gcttgtgctc cagaagctgc atagcttgac gaagggaatc
     3301 aatatgctca tctcgagcct taacagcccc tttaagacca tcgttttcag cttctagtaa
     3361 agcgattcta tgttgtaaat catgtaaacc aacgctgtta acacctgtag attctgcgtc
     3421 actttttaca tcatatttta cagtatcgat gacaccatca agagagccaa acactctaat
     3481 aagctctgaa gtatcaataa ctttaatagc cttcccgtgc tttacaacag aggtgtaact
     3541 taacttccca ctgttaatca tcttgtaaat tgtggggcga ctaaccttaa caagccgtgc
     3601 cgcttcacta atagacactc tggccatcag ttaccatcct gtaattcatc cagtctcgag
     3661 gacagtgtac ggaaaagatg ctccgcatca tcgtggagtt tctcacaaag gtcggcctcg
     3721 acatcgagat caa
//
