LOCUS       NZ_CP024539             4660 bp    DNA     circular CON 25-NOV-2023
DEFINITION  Klebsiella pneumoniae strain KSB1_9D plasmid unnamed4, complete
            sequence.
ACCESSION   NZ_CP024539
VERSION     NZ_CP024539.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN07211282
            Assembly: GCF_002753165.1
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  JOURNAL   Unpublished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                     :: KSB1_9D
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 88x
            Sequencing Technology             :: Illumina HiSeq and ONT
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 11/25/2023 02:58:47
            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)                     :: 5,668
            CDSs (total)                      :: 5,545
            Genes (coding)                    :: 5,387
            CDSs (with protein)               :: 5,387
            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)              :: 158
            CDSs (without protein)            :: 158
            Pseudo Genes (ambiguous residues) :: 0 of 158
            Pseudo Genes (frameshifted)       :: 53 of 158
            Pseudo Genes (incomplete)         :: 105 of 158
            Pseudo Genes (internal stop)      :: 15 of 158
            Pseudo Genes (multiple problems)  :: 15 of 158
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP024539.1.
            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="KSB1_9D"
                     /db_xref="taxon:573"
                     /plasmid="unnamed4"
     gene            33..224
                     /locus_tag="CTI62_RS29320"
                     /old_locus_tag="CTI62_29115"
     CDS             33..224
                     /locus_tag="CTI62_RS29320"
                     /old_locus_tag="CTI62_29115"
                     /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            224..625
                     /locus_tag="CTI62_RS29325"
                     /old_locus_tag="CTI62_29120"
     CDS             224..625
                     /locus_tag="CTI62_RS29325"
                     /old_locus_tag="CTI62_29120"
                     /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(1468..1677)
                     /locus_tag="CTI62_RS29335"
                     /old_locus_tag="CTI62_29125"
     CDS             complement(1468..1677)
                     /locus_tag="CTI62_RS29335"
                     /old_locus_tag="CTI62_29125"
                     /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            2065..2247
                     /locus_tag="CTI62_RS29340"
                     /old_locus_tag="CTI62_29130"
     CDS             2065..2247
                     /locus_tag="CTI62_RS29340"
                     /old_locus_tag="CTI62_29130"
                     /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            2260..3960
                     /locus_tag="CTI62_RS29345"
                     /old_locus_tag="CTI62_29135"
     CDS             2260..3960
                     /locus_tag="CTI62_RS29345"
                     /old_locus_tag="CTI62_29135"
                     /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(4164..4277)
                     /locus_tag="CTI62_RS30690"
                     /old_locus_tag="CTI62_29145"
     CDS             complement(4164..4277)
                     /locus_tag="CTI62_RS30690"
                     /old_locus_tag="CTI62_29145"
                     /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"
     Typing          complement(4165..4572)
                     /name="ColRNAI_rep_cluster_1987"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="95.355"
                     /coverage="99.0"
                     /evalue="0.0"
ORIGIN
        1 ttacactgag cactgacgct ctgaggcttc ttatgacgaa acaacagaaa acagcgctga
       61 acatggctaa attcatccag aatcagtctc tgctcctgct ggagaagctt aacgagcttg
      121 atctcgatgt tgaggccgac ctttgtgaga aactccacga tgatgcggag catcttttcc
      181 gtacactgtc ctcgagactg gatgaattac aggatggtaa ctgatggcca gagtgtctat
      241 tagtgaggct gcccgactga cgggtaagag tagaacaaca ctgcacaggt tgattaaagc
      301 aggtgacctg tccacctgta gcggtgaacg caatgcaaaa atggtagata cttcagagct
      361 tttacgtgtc tttggtccct ttgagcaacc gaagggtgaa caccattctg gacaggtctc
      421 tgaacagcgt gatacagcct ctgctgacca gagtgaacag gtgattcgtc atctgaaaca
      481 ggagattgaa cacctgaata ccttactttt gtccaaggat tcgcacattg acagcctgaa
      541 acaggccatg ctccttctcg aaaatcacca ggcaaaatta actgaatccc cggcgccatg
      601 gtggaaattc tggaaaaaat cctgaccccg tcatgcttcc gttttcctct ccggccatcc
      661 cggggagttc ctgaaccttc ccaaaaatcg tcagatctct gaacgctcct caccactaaa
      721 aatacccaca ccccacgcaa aattaatatt ttgcagattt gtatttaata tcagtgggtt
      781 actttcctga aatttcgttt tttaaatttt atttatatag atccgactct atgacgactc
      841 gtcatagagt ccccggcgag tcgtcataga gtcggtaacg actcaggact ataaaaacaa
      901 taagttaata acgacccgac tctagacacg actccccgtt tggttgtttt ttagacgcgg
      961 cgactctggg tacgactcta gtgaagagtc gccggtgaat cgtgtggtga gtcgtccggc
     1021 gacttgccat aacgtgattg ccggccgtcg acgaacccga ttcctgaacg tgctgaaaac
     1081 cggttttccg gctgcgccgg caacgcttca cggccacgca ataaattgcg tccccgttca
     1141 ccgttttcgg atggaaagaa cgccggaaac aggacttact ctggctgaat ggcgtgaatt
     1201 ttcgcgctat gcacttgcgt gcatactcat gcatgccgta aaaacagagc ctgcgcgttt
     1261 ctggcgggtt ttcgggtggt ttgttgcctg ttttaccggt tttccgtcag aaacgccctg
     1321 aggccgtttt agcggtgcgt acaatcatgc ctttatgtta aataacagat gcaaaaaagc
     1381 cccagaaggg gcctgaaggt tttcctgcta agggacgaaa cgggccgcct cccggcggcc
     1441 tgttcggcag ctccctttgc gaccatctta tttggtcagt tcagccgtca tgtggacacg
     1501 gttattgaac tgagcgctgg tgattttgta tgacgcacct tgttcagcgg cctgtgcggc
     1561 aatttttgct tcagcacgat ccagggtgga ggcggtagcg ctgacgctct gagcaaaagc
     1621 accgaaagac atcatggata gagcggcaac tgcaacgaaa gttttgatgg atttcatggt
     1681 cgtattcctt aagtgatttt gttctgtatg gggcgttgtt gccctgatgt gataaatgat
     1741 aggacgacca ttagttgatt aaaatcgaaa caatttgcgg atatcattca aaaaaaaaga
     1801 acaagaattg agcgcatcaa gaccagaggt ttatctctgg attttaggta ccaaatgagg
     1861 tggtggatag aaatgttaac attgatgatt ttattttaac aaattgaaaa ataatggtta
     1921 gtttggcgta atctctcttg cttttctctt gccgaatttc ctaatgttta ggataagaaa
     1981 aaaaaatctc tatcgattac gtttcttggc tattgcctgt tataaagata acagtaaaat
     2041 ccatgcgtct tgcaggaggg tgtgatgggt aaagagctat ctctaaataa aatttatgat
     2101 aagaattcta gatatattaa tgattctaga gggcatgagc tgggaaagga aaagaaagtt
     2161 ttcgattttg aagttgaaat gattaaaaaa agaagagagg acgctataag gaagataatt
     2221 gaggattcaa aatcattaaa atggtaagtg aggtctttta tgagcctggc tagaaagtta
     2281 agagaaaaaa gaagtaatcc gattcatagt gctaacgagg actcctctgg aggggatagc
     2341 ataaaccaaa taacctccag acagtctatg gatcttgtta taggattttg cggtgctgtt
     2401 ggctcaggaa taaagtcaat tgttgatgtg actgaagaag aactagatga tctaggatat
     2461 gatgtttatc gcataagagt tagcgagctt atgcaaaaac ttttttcaga atggcgtgat
     2521 gatattgtta ctccgtttga tagatatcat aagctgcaag attttggtga tgcgttaaga
     2581 aataaatatt acccacatat actatctgaa gctgtaatcc atgaaataaa aatagaaaaa
     2641 ggcattgaca cctcaagtaa aaaaaacaaa aaggcttttt tggtcgatca gttgaagcat
     2701 caggatgaaa ttgaactttt aaggatggtc taccaacata atttttattt actaggtgta
     2761 attagaagtg aagtagaaag aaagcgtaat cttagagatg aagggctgag taagtcagaa
     2821 gtcgatatag ttattcatca cgatagaaaa tcagagagcg attatggtca gcagactgcg
     2881 aaagctatac ttgactctga ttattttgtt aagaataatc aaggacaaag ggcgcacctt
     2941 aaggctaagg ttaagcgttt tattggcttg atacatgggc taaatggttt aactccaacc
     3001 acgtatgaaa aaggtatgta tgcagctcat tcagcatctc tgcaatctgc atgcctttct
     3061 cgtcaagttg gtgctgctat attggatgtt aatgggaatc tgatttccgt tgggcgtaat
     3121 gatgtaccta aattcaatgg tgggctttat agtgcggatg atggtgtcaa tgatcatcgt
     3181 tgtgtataca aaggtggtaa atgttataat gaagttagaa aactaaagat taaaagcaaa
     3241 atttcacaaa tacttatgtc ggaaagcgct tgtgaacttg gtgttaaatt aacagaagat
     3301 caagcagagc aactggctga tgtaatatat aaaaaaacac cagtatcttc tattatagag
     3361 tactctcgct caattcatgc agagatggat gctattacat cattagctag actaggtaat
     3421 ggaggttttt ctgataaagt tttatataca accacatttc cttgtcataa ctgcgcgaga
     3481 catattgtcg ctgttggaat aacaaaagtt gtttatatag agccatatga aaaaagcctc
     3541 gctttagaat tgcatgatga tgctataacc gaggtgaatg agcatgggaa ggttatattt
     3601 gaatcctttg aaggtgtatc acctcgtagg tatcaaaaat tcttcttttc tacagatgaa
     3661 aggaaagata gtttcggtaa cgcagaaaag tactccacta aatataaaaa tcacattgat
     3721 atacagttta ttgatagcta tttagatttc gaaaatcgag tcgttgatat ttttagaact
     3781 aacacaaata ttgattctgg caatcatgtc gggagaactg attcgactat taatttatct
     3841 tcccagcccg taccgcccgt accgcccgta ccgcccgtac cgcccgtacc gccagtaccg
     3901 ccagtaccgc cagtaccgcc agtaccacca gtaccaccag taccaccaga ctcgaaatga
     3961 agatctgttg actctgatgt tatacagagc ttaaccttga gacgagaaag aaaaaaaccg
     4021 cctttgcggg gcggtttttt taaggttcta gagtttgcgg ctctatgaac caaggtaact
     4081 ggcttagagg agcgcagtca ccaaaacttg ttctttcagt ttagccttaa ctggcgcata
     4141 acttcaagac taactcctct aaatcagtta ccggtggctg ctgccagtgg tgcttttgca
     4201 tgtcttaccg ggttggactc aagatgatag ttaccggata agacgcagca gtcggactga
     4261 acggggggtt cgtgcataca gtccagcttg gagcgaactg cctacccgga actgagtgtc
     4321 aggcgtggaa tgagacaaac gcggccataa cagcggaatg acaccggtaa accgaatggc
     4381 aggaacagga gagcgcacga gggagccatc agggggaaac gcctggtatc tttatagtcc
     4441 tgtcgggttt cgccgccact gatttgagcg tcagattccg tgatgctcgt caggggggcg
     4501 gagcctatgg aaaaacggcc gctgtgcggc ctttcctttt ccccatcacg agaccgctcg
     4561 gttttctcga gcttttacac gcatgctcct gccgctcgcc gcagccgaac ggcaggagcg
     4621 tagcgactga gtgagcgagg aagcggaaaa gagactgttc
//
