LOCUS       NZ_CP024525             4660 bp    DNA     circular CON 18-JUN-2023
DEFINITION  Klebsiella pneumoniae strain INF158 isolate INF158 plasmid unnamed4,
            complete sequence.
ACCESSION   NZ_CP024525
VERSION     NZ_CP024525.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMEA3357080
            Assembly: GCF_002753055.1
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  JOURNAL   Unpublished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                     :: 09-AUG-2017
            Assembly Method                   :: Unicycler v. 0.4.0
            Assembly Name                     :: INF158
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 125x
            Sequencing Technology             :: Illumina HiSeq and ONT
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 06/18/2023 11:23:54
            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)                     :: 5,728
            CDSs (total)                      :: 5,605
            Genes (coding)                    :: 5,446
            CDSs (with protein)               :: 5,446
            Genes (RNA)                       :: 123
            rRNAs                             :: 9, 8, 8 (5S, 16S, 23S)
            complete rRNAs                    :: 9, 8, 8 (5S, 16S, 23S)
            tRNAs                             :: 87
            ncRNAs                            :: 11
            Pseudo Genes (total)              :: 159
            CDSs (without protein)            :: 159
            Pseudo Genes (ambiguous residues) :: 0 of 159
            Pseudo Genes (frameshifted)       :: 50 of 159
            Pseudo Genes (incomplete)         :: 108 of 159
            Pseudo Genes (internal stop)      :: 16 of 159
            Pseudo Genes (multiple problems)  :: 15 of 159
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP024525.1.
            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="INF158"
                     /isolate="INF158"
                     /isolation_source="cerebrospinal fluid"
                     /host="Homo sapiens"
                     /db_xref="taxon:573"
                     /plasmid="unnamed4"
                     /geo_loc_name="Australia"
                     /collection_date="2013-08"
     gene            join(4504..4660,1..35)
                     /locus_tag="CTI59_RS29700"
                     /old_locus_tag="CTI59_29545"
     CDS             join(4504..4660,1..35)
                     /locus_tag="CTI59_RS29700"
                     /old_locus_tag="CTI59_29545"
                     /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"
     gene            35..436
                     /locus_tag="CTI59_RS29705"
                     /old_locus_tag="CTI59_29510"
     CDS             35..436
                     /locus_tag="CTI59_RS29705"
                     /old_locus_tag="CTI59_29510"
                     /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(1279..1488)
                     /locus_tag="CTI59_RS29715"
                     /old_locus_tag="CTI59_29515"
     CDS             complement(1279..1488)
                     /locus_tag="CTI59_RS29715"
                     /old_locus_tag="CTI59_29515"
                     /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            1876..2058
                     /locus_tag="CTI59_RS29720"
                     /old_locus_tag="CTI59_29520"
     CDS             1876..2058
                     /locus_tag="CTI59_RS29720"
                     /old_locus_tag="CTI59_29520"
                     /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            2071..3771
                     /locus_tag="CTI59_RS29725"
                     /old_locus_tag="CTI59_29525"
     CDS             2071..3771
                     /locus_tag="CTI59_RS29725"
                     /old_locus_tag="CTI59_29525"
                     /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"
     Typing          complement(3976..4383)
                     /name="ColRNAI_rep_cluster_1987"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="95.355"
                     /coverage="99.0"
                     /evalue="0.0"
ORIGIN
        1 cctcgagact ggatgaatta caggatggta actgatggcc agagtgtcta ttagtgaggc
       61 tgcccgactg acgggtaaga gtagaacaac actgcacagg ttgattaaag caggtgacct
      121 gtccacctgt agcggtgaac gcaatgcaaa aatggtagat acttcagagc ttttacgtgt
      181 ctttggtccc tttgagcaac cgaagggtga acaccattct ggacaggtct ctgaacagcg
      241 tgatacagcc tctgctgacc agagtgaaca ggtgattcgt catctgaaac aggagattga
      301 acacctgaat accttacttt tgtccaagga ttcgcacatt gacagcctga aacaggccat
      361 gctccttctc gaaaatcacc aggcaaaatt aactgaatcc ccggcgccat ggtggaaatt
      421 ctggaaaaaa tcctgacccc gtcatgcttc cgttttcctc tccggccatc ccggggagtt
      481 cctgaacctt cccaaaaatc gtcagatctc tgaacgctcc tcaccactaa aaatacccac
      541 accccacgca aaattaatat tttgcagatt tgtatttaat atcagtgggt tactttcctg
      601 aaatttcgtt ttttaaattt tatttatata gatccgactc tatgacgact cgtcatagag
      661 tccccggcga gtcgtcatag agtcggtaac gactcaggac tataaaaaca ataagttaat
      721 aacgacccga ctctagacac gactccccgt ttggttgttt tttagacgcg gcgactctgg
      781 gtacgactct agtgaagagt cgccggtgaa tcgtgtggtg agtcgtccgg cgacttgcca
      841 taacgtgatt gccggccgtc gacgaacccg attcctgaac gtgctgaaaa ccggttttcc
      901 ggctgcgccg gcaacgcttc acggccacgc aataaattgc gtccccgttc accgttttcg
      961 gatggaaaga acgccggaaa caggacttac tctggctgaa tggcgtgaat tttcgcgcta
     1021 tgcacttgcg tgcatactca tgcatgccgt aaaaacagag cctgcgcgtt tctggcgggt
     1081 tttcgggtgg tttgttgcct gttttaccgg ttttccgtca gaaacgccct gaggccgttt
     1141 tagcggtgcg tacaatcatg cctttatgtt aaataacaga tgcaaaaaag ccccagaagg
     1201 ggcctgaagg ttttcctgct aagggacgaa acgggccgcc tcccggcggc ctgttcggca
     1261 gctccctttg cgaccatctt atttggtcag ttcagccgtc atgtggacac ggttattgaa
     1321 ctgagcgctg gtgattttgt atgacgcacc ttgttcagcg gcctgtgcgg caatttttgc
     1381 ttcagcacga tccagggtgg aggcggtagc gctgacgctc tgagcaaaag caccgaaaga
     1441 catcatggat agagcggcaa ctgcaacgaa agttttgatg gatttcatgg tcgtattcct
     1501 taagtgattt tgttctgtat ggggcgttgt tgccctgatg tgataaatga taggacgacc
     1561 attagttgat taaaatcgaa acaatttgcg gatatcattc aaaaaaaaag aacaagaatt
     1621 gagcgcatca agaccagagg tttatctctg gattttaggt accaaatgag gtggtggata
     1681 gaaatgttaa cattgatgat tttattttaa caaattgaaa aataatggtt agtttggcgt
     1741 aatctctctt gcttttctct tgccgaattt cctaatgttt aggataagaa aaaaaaatct
     1801 ctatcgatta cgtttcttgg ctattgcctg ttataaagat aacagtaaaa tccatgcgtc
     1861 ttgcaggagg gtgtgatggg taaagagcta tctctaaata aaatttatga taagaattct
     1921 agatatatta atgattctag agggcatgag ctgggaaagg aaaagaaagt tttcgatttt
     1981 gaagttgaaa tgattaaaaa aagaagagag gacgctataa ggaagataat tgaggattca
     2041 aaatcattaa aatggtaagt gaggtctttt atgagcctgg ctagaaagtt aagagaaaaa
     2101 agaagtaatc cgattcatag tgctaacgag gactcctctg gaggggatag cataaaccaa
     2161 ataacctcca gacagtctat ggatcttgtt ataggatttt gcggtgctgt tggctcagga
     2221 ataaagtcaa ttgttgatgt gactgaagaa gaactagatg atctaggata tgatgtttat
     2281 cgcataagag ttagcgagct tatgcaaaaa cttttttcag aatggcgtga tgatattgtt
     2341 actccgtttg atagatatca taagctgcaa gattttggtg atgcgttaag aaataaatat
     2401 tacccacata tactatctga agctgtaatc catgaaataa aaatagaaaa aggcattgac
     2461 acctcaagta aaaaaaacaa aaaggctttt ttggtcgatc agttgaagca tcaggatgaa
     2521 attgaacttt taaggatggt ctaccaacat aatttttatt tactaggtgt aattagaagt
     2581 gaagtagaaa gaaagcgtaa tcttagagat gaagggctga gtaagtcaga agtcgatata
     2641 gttattcatc acgatagaaa atcagagagc gattatggtc agcagactgc gaaagctata
     2701 cttgactctg attattttgt taagaataat caaggacaaa gggcgcacct taaggctaag
     2761 gttaagcgtt ttattggctt gatacatggg ctaaatggtt taactccaac cacgtatgaa
     2821 aaaggtatgt atgcagctca ttcagcatct ctgcaatctg catgcctttc tcgtcaagtt
     2881 ggtgctgcta tattggatgt taatgggaat ctgatttccg ttgggcgtaa tgatgtacct
     2941 aaattcaatg gtgggcttta tagtgcggat gatggtgtca atgatcatcg ttgtgtatac
     3001 aaaggtggta aatgttataa tgaagttaga aaactaaaga ttaaaagcaa aatttcacaa
     3061 atacttatgt cggaaagcgc ttgtgaactt ggtgttaaat taacagaaga tcaagcagag
     3121 caactggctg atgtaatata taaaaaaaca ccagtatctt ctattataga gtactctcgc
     3181 tcaattcatg cagagatgga tgctattaca tcattagcta gactaggtaa tggaggtttt
     3241 tctgataaag ttttatatac aaccacattt ccttgtcata actgcgcgag acatattgtc
     3301 gctgttggaa taacaaaagt tgtttatata gagccatatg aaaaaagcct cgctttagaa
     3361 ttgcatgatg atgctataac cgaggtgaat gagcatggga aggttatatt tgaatccttt
     3421 gaaggtgtat cacctcgtag gtatcaaaaa ttcttctttt ctacagatga aaggaaagat
     3481 agtttcggta acgcagaaaa gtactccact aaatataaaa atcacattga tatacagttt
     3541 attgatagct atttagattt cgaaaatcga gtcgttgata tttttagaac taacacaaat
     3601 attgattctg gcaatcatgt cgggagaact gattcgacta ttaatttatc ttcccagccc
     3661 gtaccgcccg taccgcccgt accgcccgta ccgcccgtac cgccagtacc gccagtaccg
     3721 ccagtaccgc cagtaccacc agtaccacca gtaccaccag actcgaaatg aagatctgtt
     3781 gactctgatg ttatacagag cttaaccttg agacgagaaa gaaaaaaacc gcctttgcgg
     3841 ggcggttttt ttaaggttct agagtttgcg gctctatgaa ccaaggtaac tggcttagag
     3901 gagcgcagtc accaaaactt gttctttcag tttagcctta actggcgcat aacttcaaga
     3961 ctaactcctc taaatcagtt accggtggct gctgccagtg gtgcttttgc atgtcttacc
     4021 gggttggact caagatgata gttaccggat aagacgcagc agtcggactg aacggggggt
     4081 tcgtgcatac agtccagctt ggagcgaact gcctacccgg aactgagtgt caggcgtgga
     4141 atgagacaaa cgcggccata acagcggaat gacaccggta aaccgaatgg caggaacagg
     4201 agagcgcacg agggagccat cagggggaaa cgcctggtat ctttatagtc ctgtcgggtt
     4261 tcgccgccac tgatttgagc gtcagattcc gtgatgctcg tcaggggggc ggagcctatg
     4321 gaaaaacggc cgctgtgcgg cctttccttt tccccatcac gagaccgctc ggttttctcg
     4381 agcttttaca cgcatgctcc tgccgctcgc cgcagccgaa cggcaggagc gtagcgactg
     4441 agtgagcgag gaagcggaaa agagactgtt cttacactga gcactgacgc tctgaggctt
     4501 cttatgacga aacaacagaa aacagcgctg aacatggcta aattcatcca gaatcagtct
     4561 ctgctcctgc tggagaagct taacgagctt gatctcgatg ttgaggccga cctttgtgag
     4621 aaactccacg atgatgcgga gcatcttttc cgtacactgt
//
