LOCUS       NZ_CP024560             4660 bp    DNA     circular CON 26-DEC-2023
DEFINITION  Klebsiella pneumoniae strain INF164 plasmid unnamed4, complete
            sequence.
ACCESSION   NZ_CP024560
VERSION     NZ_CP024560.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN07211280
            Assembly: GCF_002753555.1
KEYWORDS    RefSeq.
SOURCE      Klebsiella pneumoniae
  ORGANISM  Klebsiella pneumoniae
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Klebsiella/Raoultella group; Klebsiella.
REFERENCE   1  (bases 1 to 4660)
  AUTHORS   Gorrie,C.L., Mirceta,M., Wick,R., Judd,L.M., Wyres,K.L.,
            Thomson,N.R., Strugnell,R.A., Pratt,N.F., Garlic,J.S., Watson,K.M.,
            Hunter,P.C., McGloughlin,S.A., Spelman,D.W., Jenney,A.W.J. and
            Holt,K.E.
  TITLE     Antimicrobial resistant Klebsiella pneumoniae carriage and infection
            in specialized geriatric care wards linked to acquisition in the
            referring hospital
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 4660)
  AUTHORS   Gorrie,C.L., Mirceta,M., Wick,R., Judd,L.M., Wyres,K.L.,
            Thomson,N.R., Strugnell,R.A., Pratt,N.F., Garlic,J.S., Watson,K.M.,
            Hunter,P.C., McGloughlin,S.A., Spelman,D.W., Jenney,A.W.J. and
            Holt,K.E.
  TITLE     Direct Submission
  JOURNAL   Submitted (26-OCT-2017) Biochemistry and Molecular Biology,
            University of Melbourne, Flemington Road, Parkville, Victoria 3052,
            Australia
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Date                     :: 19-JUN-2017
            Assembly Method                   :: Unicycler v. 0.4.0
            Assembly Name                     :: INF164
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 91x
            Sequencing Technology             :: Illumina HiSeq and ONT
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 12/26/2023 04:24:03
            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)                     :: 5,731
            CDSs (total)                      :: 5,609
            Genes (coding)                    :: 5,445
            CDSs (with protein)               :: 5,445
            Genes (RNA)                       :: 122
            rRNAs                             :: 9, 8, 8 (5S, 16S, 23S)
            complete rRNAs                    :: 9, 8, 8 (5S, 16S, 23S)
            tRNAs                             :: 86
            ncRNAs                            :: 11
            Pseudo Genes (total)              :: 164
            CDSs (without protein)            :: 164
            Pseudo Genes (ambiguous residues) :: 0 of 164
            Pseudo Genes (frameshifted)       :: 55 of 164
            Pseudo Genes (incomplete)         :: 109 of 164
            Pseudo Genes (internal stop)      :: 16 of 164
            Pseudo Genes (multiple problems)  :: 16 of 164
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP024560.1.
            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..4660
                     /organism="Klebsiella pneumoniae"
                     /mol_type="genomic DNA"
                     /strain="INF164"
                     /db_xref="taxon:573"
                     /plasmid="unnamed4"
     gene            384..497
                     /locus_tag="CTI75_RS31845"
                     /old_locus_tag="CTI75_29480"
     CDS             384..497
                     /locus_tag="CTI75_RS31845"
                     /old_locus_tag="CTI75_29480"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_005761324.1"
                     /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_080882241.1"
                     /translation="MHEPPVQSDCCVLSGNYHLESNPVRHAKAPLAAATGN"
                     /name="replication initiation protein"
     gene            complement(701..2401)
                     /locus_tag="CTI75_RS29685"
                     /old_locus_tag="CTI75_29490"
     CDS             complement(701..2401)
                     /locus_tag="CTI75_RS29685"
                     /old_locus_tag="CTI75_29490"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001697690.1"
                     /GO_function="GO:0019239 - deaminase activity [Evidence
                     IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="anti-phage dCTP deaminase"
                     /protein_id="WP_225368539.1"
                     /translation="MSLARKLREKRSNPIHSANEDSSGGDSINQITSRQSMDLVIGFCG
                     AVGSGIKSIVDVTEEELDDLGYDVYRIRVSELMQKLFSEWRDDIVTPFDRYHKLQDFGD
                     ALRNKYYPHILSEAVIHEIKIEKGIDTSSKKNKKAFLVDQLKHQDEIELLRMVYQHNFY
                     LLGVIRSEVERKRNLRDEGLSKSEVDIVIHHDRKSESDYGQQTAKAILDSDYFVKNNQG
                     QRAHLKAKVKRFIGLIHGLNGLTPTTYEKGMYAAHSASLQSACLSRQVGAAILDVNGNL
                     ISVGRNDVPKFNGGLYSADDGVNDHRCVYKGGKCYNEVRKLKIKSKISQILMSESACEL
                     GVKLTEDQAEQLADVIYKKTPVSSIIEYSRSIHAEMDAITSLARLGNGGFSDKVLYTTT
                     FPCHNCARHIVAVGITKVVYIEPYEKSLALELHDDAITEVNEHGKVIFESFEGVSPRRY
                     QKFFFSTDERKDSFGNAEKYSTKYKNHIDIQFIDSYLDFENRVVDIFRTNTNIDSGNHV
                     GRTDSTINLSSQPVPPVPPVPPVPPVPPVPPVPPVPPVPPVPPVPPDSK"
                     /name="anti-phage dCTP deaminase"
     gene            complement(2414..2596)
                     /locus_tag="CTI75_RS29690"
                     /old_locus_tag="CTI75_29495"
     CDS             complement(2414..2596)
                     /locus_tag="CTI75_RS29690"
                     /old_locus_tag="CTI75_29495"
                     /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_080882243.1"
                     /translation="MGKELSLNKIYDKNSRYINDSRGHELGKEKKVFDFEVEMIKKRRE
                     DAIRKIIEDSKSLKW"
                     /name="hypothetical protein"
     gene            2984..3193
                     /locus_tag="CTI75_RS29695"
                     /old_locus_tag="CTI75_29500"
     CDS             2984..3193
                     /locus_tag="CTI75_RS29695"
                     /old_locus_tag="CTI75_29500"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:YP_005227293.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="YdgH/BhsA/McbA-like domain containing protein"
                     /protein_id="WP_009310047.1"
                     /translation="MKSIKTFVAVAALSMMSFGAFAQSVSATASTLDRAEAKIAAQAAE
                     QGASYKITSAQFNNRVHMTAELTK"
                     /name="YdgH/BhsA/McbA-like domain containing protein"
     gene            complement(4036..4437)
                     /locus_tag="CTI75_RS29705"
                     /old_locus_tag="CTI75_29505"
     CDS             complement(4036..4437)
                     /locus_tag="CTI75_RS29705"
                     /old_locus_tag="CTI75_29505"
                     /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_009310048.1"
                     /translation="MARVSISEAARLTGKSRTTLHRLIKAGDLSTCSGERNAKMVDTSE
                     LLRVFGPFEQPKGEHHSGQVSEQRDTASADQSEQVIRHLKQEIEHLNTLLLSKDSHIDS
                     LKQAMLLLENHQAKLTESPAPWWKFWKKS"
                     /name="helix-turn-helix domain-containing protein"
     gene            complement(4437..4628)
                     /locus_tag="CTI75_RS29710"
                     /old_locus_tag="CTI75_29510"
     CDS             complement(4437..4628)
                     /locus_tag="CTI75_RS29710"
                     /old_locus_tag="CTI75_29510"
                     /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"
     Typing          90..497
                     /name="ColRNAI_rep_cluster_1987"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="95.355"
                     /coverage="99.0"
                     /evalue="0.0"
ORIGIN
        1 gaacagtctc ttttccgctt cctcgctcac tcagtcgcta cgctcctgcc gttcggctgc
       61 ggcgagcggc aggagcatgc gtgtaaaagc tcgagaaaac cgagcggtct cgtgatgggg
      121 aaaaggaaag gccgcacagc ggccgttttt ccataggctc cgcccccctg acgagcatca
      181 cggaatctga cgctcaaatc agtggcggcg aaacccgaca ggactataaa gataccaggc
      241 gtttccccct gatggctccc tcgtgcgctc tcctgttcct gccattcggt ttaccggtgt
      301 cattccgctg ttatggccgc gtttgtctca ttccacgcct gacactcagt tccgggtagg
      361 cagttcgctc caagctggac tgtatgcacg aaccccccgt tcagtccgac tgctgcgtct
      421 tatccggtaa ctatcatctt gagtccaacc cggtaagaca tgcaaaagca ccactggcag
      481 cagccaccgg taactgattt agaggagtta gtcttgaagt tatgcgccag ttaaggctaa
      541 actgaaagaa caagttttgg tgactgcgct cctctaagcc agttaccttg gttcatagag
      601 ccgcaaactc tagaacctta aaaaaaccgc cccgcaaagg cggttttttt ctttctcgtc
      661 tcaaggttaa gctctgtata acatcagagt caacagatct tcatttcgag tctggtggta
      721 ctggtggtac tggtggtact ggcggtactg gcggtactgg cggtactggc ggtacgggcg
      781 gtacgggcgg tacgggcggt acgggcggta cgggctggga agataaatta atagtcgaat
      841 cagttctccc gacatgattg ccagaatcaa tatttgtgtt agttctaaaa atatcaacga
      901 ctcgattttc gaaatctaaa tagctatcaa taaactgtat atcaatgtga tttttatatt
      961 tagtggagta cttttctgcg ttaccgaaac tatctttcct ttcatctgta gaaaagaaga
     1021 atttttgata cctacgaggt gatacacctt caaaggattc aaatataacc ttcccatgct
     1081 cattcacctc ggttatagca tcatcatgca attctaaagc gaggcttttt tcatatggct
     1141 ctatataaac aacttttgtt attccaacag cgacaatatg tctcgcgcag ttatgacaag
     1201 gaaatgtggt tgtatataaa actttatcag aaaaacctcc attacctagt ctagctaatg
     1261 atgtaatagc atccatctct gcatgaattg agcgagagta ctctataata gaagatactg
     1321 gtgttttttt atatattaca tcagccagtt gctctgcttg atcttctgtt aatttaacac
     1381 caagttcaca agcgctttcc gacataagta tttgtgaaat tttgctttta atctttagtt
     1441 ttctaacttc attataacat ttaccacctt tgtatacaca acgatgatca ttgacaccat
     1501 catccgcact ataaagccca ccattgaatt taggtacatc attacgccca acggaaatca
     1561 gattcccatt aacatccaat atagcagcac caacttgacg agaaaggcat gcagattgca
     1621 gagatgctga atgagctgca tacatacctt tttcatacgt ggttggagtt aaaccattta
     1681 gcccatgtat caagccaata aaacgcttaa ccttagcctt aaggtgcgcc ctttgtcctt
     1741 gattattctt aacaaaataa tcagagtcaa gtatagcttt cgcagtctgc tgaccataat
     1801 cgctctctga ttttctatcg tgatgaataa ctatatcgac ttctgactta ctcagccctt
     1861 catctctaag attacgcttt ctttctactt cacttctaat tacacctagt aaataaaaat
     1921 tatgttggta gaccatcctt aaaagttcaa tttcatcctg atgcttcaac tgatcgacca
     1981 aaaaagcctt tttgtttttt ttacttgagg tgtcaatgcc tttttctatt tttatttcat
     2041 ggattacagc ttcagatagt atatgtgggt aatatttatt tcttaacgca tcaccaaaat
     2101 cttgcagctt atgatatcta tcaaacggag taacaatatc atcacgccat tctgaaaaaa
     2161 gtttttgcat aagctcgcta actcttatgc gataaacatc atatcctaga tcatctagtt
     2221 cttcttcagt cacatcaaca attgacttta ttcctgagcc aacagcaccg caaaatccta
     2281 taacaagatc catagactgt ctggaggtta tttggtttat gctatcccct ccagaggagt
     2341 cctcgttagc actatgaatc ggattacttc ttttttctct taactttcta gccaggctca
     2401 taaaagacct cacttaccat tttaatgatt ttgaatcctc aattatcttc cttatagcgt
     2461 cctctcttct ttttttaatc atttcaactt caaaatcgaa aactttcttt tcctttccca
     2521 gctcatgccc tctagaatca ttaatatatc tagaattctt atcataaatt ttatttagag
     2581 atagctcttt acccatcaca ccctcctgca agacgcatgg attttactgt tatctttata
     2641 acaggcaata gccaagaaac gtaatcgata gagatttttt tttcttatcc taaacattag
     2701 gaaattcggc aagagaaaag caagagagat tacgccaaac taaccattat ttttcaattt
     2761 gttaaaataa aatcatcaat gttaacattt ctatccacca cctcatttgg tacctaaaat
     2821 ccagagataa acctctggtc ttgatgcgct caattcttgt tctttttttt tgaatgatat
     2881 ccgcaaattg tttcgatttt aatcaactaa tggtcgtcct atcatttatc acatcagggc
     2941 aacaacgccc catacagaac aaaatcactt aaggaatacg accatgaaat ccatcaaaac
     3001 tttcgttgca gttgccgctc tatccatgat gtctttcggt gcttttgctc agagcgtcag
     3061 cgctaccgcc tccaccctgg atcgtgctga agcaaaaatt gccgcacagg ccgctgaaca
     3121 aggtgcgtca tacaaaatca ccagcgctca gttcaataac cgtgtccaca tgacggctga
     3181 actgaccaaa taagatggtc gcaaagggag ctgccgaaca ggccgccggg aggcggcccg
     3241 tttcgtccct tagcaggaaa accttcaggc cccttctggg gcttttttgc atctgttatt
     3301 taacataaag gcatgattgt acgcaccgct aaaacggcct cagggcgttt ctgacggaaa
     3361 accggtaaaa caggcaacaa accacccgaa aacccgccag aaacgcgcag gctctgtttt
     3421 tacggcatgc atgagtatgc acgcaagtgc atagcgcgaa aattcacgcc attcagccag
     3481 agtaagtcct gtttccggcg ttctttccat ccgaaaacgg tgaacgggga cgcaatttat
     3541 tgcgtggccg tgaagcgttg ccggcgcagc cggaaaaccg gttttcagca cgttcaggaa
     3601 tcgggttcgt cgacggccgg caatcacgtt atggcaagtc gccggacgac tcaccacacg
     3661 attcaccggc gactcttcac tagagtcgta cccagagtcg ccgcgtctaa aaaacaacca
     3721 aacggggagt cgtgtctaga gtcgggtcgt tattaactta ttgtttttat agtcctgagt
     3781 cgttaccgac tctatgacga ctcgccgggg actctatgac gagtcgtcat agagtcggat
     3841 ctatataaat aaaatttaaa aaacgaaatt tcaggaaagt aacccactga tattaaatac
     3901 aaatctgcaa aatattaatt ttgcgtgggg tgtgggtatt tttagtggtg aggagcgttc
     3961 agagatctga cgatttttgg gaaggttcag gaactccccg ggatggccgg agaggaaaac
     4021 ggaagcatga cggggtcagg attttttcca gaatttccac catggcgccg gggattcagt
     4081 taattttgcc tggtgatttt cgagaaggag catggcctgt ttcaggctgt caatgtgcga
     4141 atccttggac aaaagtaagg tattcaggtg ttcaatctcc tgtttcagat gacgaatcac
     4201 ctgttcactc tggtcagcag aggctgtatc acgctgttca gagacctgtc cagaatggtg
     4261 ttcacccttc ggttgctcaa agggaccaaa gacacgtaaa agctctgaag tatctaccat
     4321 ttttgcattg cgttcaccgc tacaggtgga caggtcacct gctttaatca acctgtgcag
     4381 tgttgttcta ctcttacccg tcagtcgggc agcctcacta atagacactc tggccatcag
     4441 ttaccatcct gtaattcatc cagtctcgag gacagtgtac ggaaaagatg ctccgcatca
     4501 tcgtggagtt tctcacaaag gtcggcctca acatcgagat caagctcgtt aagcttctcc
     4561 agcaggagca gagactgatt ctggatgaat ttagccatgt tcagcgctgt tttctgttgt
     4621 ttcgtcataa gaagcctcag agcgtcagtg ctcagtgtaa
//
