LOCUS       NZ_CP024567             4660 bp    DNA     circular CON 18-JUN-2023
DEFINITION  Klebsiella pneumoniae strain INF278 isolate INF278 plasmid unnamed4,
            complete sequence.
ACCESSION   NZ_CP024567
VERSION     NZ_CP024567.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMEA3357272
            Assembly: GCF_002752975.1
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  JOURNAL   Unpublished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                     :: 10-JAN-2017
            Assembly Method                   :: Unicycler v. 0.4.0
            Assembly Name                     :: INF278
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 115x
            Sequencing Technology             :: Illumina HiSeq and ONT
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 06/18/2023 11:26:52
            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)                     :: 5,691
            CDSs (total)                      :: 5,569
            Genes (coding)                    :: 5,415
            CDSs (with protein)               :: 5,415
            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)              :: 154
            CDSs (without protein)            :: 154
            Pseudo Genes (ambiguous residues) :: 0 of 154
            Pseudo Genes (frameshifted)       :: 50 of 154
            Pseudo Genes (incomplete)         :: 103 of 154
            Pseudo Genes (internal stop)      :: 16 of 154
            Pseudo Genes (multiple problems)  :: 15 of 154
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP024567.1.
            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="INF278"
                     /isolate="INF278"
                     /isolation_source="urine"
                     /host="Homo sapiens"
                     /db_xref="taxon:573"
                     /plasmid="unnamed4"
                     /geo_loc_name="Australia"
                     /collection_date="2014-01"
     gene            complement(657..866)
                     /locus_tag="CTI68_RS29475"
                     /old_locus_tag="CTI68_29270"
     CDS             complement(657..866)
                     /locus_tag="CTI68_RS29475"
                     /old_locus_tag="CTI68_29270"
                     /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            1254..1436
                     /locus_tag="CTI68_RS29480"
                     /old_locus_tag="CTI68_29275"
     CDS             1254..1436
                     /locus_tag="CTI68_RS29480"
                     /old_locus_tag="CTI68_29275"
                     /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            1449..3149
                     /locus_tag="CTI68_RS29485"
                     /old_locus_tag="CTI68_29280"
     CDS             1449..3149
                     /locus_tag="CTI68_RS29485"
                     /old_locus_tag="CTI68_29280"
                     /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            3882..4073
                     /locus_tag="CTI68_RS29505"
                     /old_locus_tag="CTI68_29300"
     CDS             3882..4073
                     /locus_tag="CTI68_RS29505"
                     /old_locus_tag="CTI68_29300"
                     /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            4073..4474
                     /locus_tag="CTI68_RS29510"
                     /old_locus_tag="CTI68_29305"
     CDS             4073..4474
                     /locus_tag="CTI68_RS29510"
                     /old_locus_tag="CTI68_29305"
                     /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"
     Typing          complement(3354..3761)
                     /name="ColRNAI_rep_cluster_1987"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="95.355"
                     /coverage="99.0"
                     /evalue="0.0"
ORIGIN
        1 tttatataga tccgactcta tgacgactcg tcatagagtc cccggcgagt cgtcatagag
       61 tcggtaacga ctcaggacta taaaaacaat aagttaataa cgacccgact ctagacacga
      121 ctccccgttt ggttgttttt tagacgcggc gactctgggt acgactctag tgaagagtcg
      181 ccggtgaatc gtgtggtgag tcgtccggcg acttgccata acgtgattgc cggccgtcga
      241 cgaacccgat tcctgaacgt gctgaaaacc ggttttccgg ctgcgccggc aacgcttcac
      301 ggccacgcaa taaattgcgt ccccgttcac cgttttcgga tggaaagaac gccggaaaca
      361 ggacttactc tggctgaatg gcgtgaattt tcgcgctatg cacttgcgtg catactcatg
      421 catgccgtaa aaacagagcc tgcgcgtttc tggcgggttt tcgggtggtt tgttgcctgt
      481 tttaccggtt ttccgtcaga aacgccctga ggccgtttta gcggtgcgta caatcatgcc
      541 tttatgttaa ataacagatg caaaaaagcc ccagaagggg cctgaaggtt ttcctgctaa
      601 gggacgaaac gggccgcctc ccggcggcct gttcggcagc tccctttgcg accatcttat
      661 ttggtcagtt cagccgtcat gtggacacgg ttattgaact gagcgctggt gattttgtat
      721 gacgcacctt gttcagcggc ctgtgcggca atttttgctt cagcacgatc cagggtggag
      781 gcggtagcgc tgacgctctg agcaaaagca ccgaaagaca tcatggatag agcggcaact
      841 gcaacgaaag ttttgatgga tttcatggtc gtattcctta agtgattttg ttctgtatgg
      901 ggcgttgttg ccctgatgtg ataaatgata ggacgaccat tagttgatta aaatcgaaac
      961 aatttgcgga tatcattcaa aaaaaaagaa caagaattga gcgcatcaag accagaggtt
     1021 tatctctgga ttttaggtac caaatgaggt ggtggataga aatgttaaca ttgatgattt
     1081 tattttaaca aattgaaaaa taatggttag tttggcgtaa tctctcttgc ttttctcttg
     1141 ccgaatttcc taatgtttag gataagaaaa aaaaatctct atcgattacg tttcttggct
     1201 attgcctgtt ataaagataa cagtaaaatc catgcgtctt gcaggagggt gtgatgggta
     1261 aagagctatc tctaaataaa atttatgata agaattctag atatattaat gattctagag
     1321 ggcatgagct gggaaaggaa aagaaagttt tcgattttga agttgaaatg attaaaaaaa
     1381 gaagagagga cgctataagg aagataattg aggattcaaa atcattaaaa tggtaagtga
     1441 ggtcttttat gagcctggct agaaagttaa gagaaaaaag aagtaatccg attcatagtg
     1501 ctaacgagga ctcctctgga ggggatagca taaaccaaat aacctccaga cagtctatgg
     1561 atcttgttat aggattttgc ggtgctgttg gctcaggaat aaagtcaatt gttgatgtga
     1621 ctgaagaaga actagatgat ctaggatatg atgtttatcg cataagagtt agcgagctta
     1681 tgcaaaaact tttttcagaa tggcgtgatg atattgttac tccgtttgat agatatcata
     1741 agctgcaaga ttttggtgat gcgttaagaa ataaatatta cccacatata ctatctgaag
     1801 ctgtaatcca tgaaataaaa atagaaaaag gcattgacac ctcaagtaaa aaaaacaaaa
     1861 aggctttttt ggtcgatcag ttgaagcatc aggatgaaat tgaactttta aggatggtct
     1921 accaacataa tttttattta ctaggtgtaa ttagaagtga agtagaaaga aagcgtaatc
     1981 ttagagatga agggctgagt aagtcagaag tcgatatagt tattcatcac gatagaaaat
     2041 cagagagcga ttatggtcag cagactgcga aagctatact tgactctgat tattttgtta
     2101 agaataatca aggacaaagg gcgcacctta aggctaaggt taagcgtttt attggcttga
     2161 tacatgggct aaatggttta actccaacca cgtatgaaaa aggtatgtat gcagctcatt
     2221 cagcatctct gcaatctgca tgcctttctc gtcaagttgg tgctgctata ttggatgtta
     2281 atgggaatct gatttccgtt gggcgtaatg atgtacctaa attcaatggt gggctttata
     2341 gtgcggatga tggtgtcaat gatcatcgtt gtgtatacaa aggtggtaaa tgttataatg
     2401 aagttagaaa actaaagatt aaaagcaaaa tttcacaaat acttatgtcg gaaagcgctt
     2461 gtgaacttgg tgttaaatta acagaagatc aagcagagca actggctgat gtaatatata
     2521 aaaaaacacc agtatcttct attatagagt actctcgctc aattcatgca gagatggatg
     2581 ctattacatc attagctaga ctaggtaatg gaggtttttc tgataaagtt ttatatacaa
     2641 ccacatttcc ttgtcataac tgcgcgagac atattgtcgc tgttggaata acaaaagttg
     2701 tttatataga gccatatgaa aaaagcctcg ctttagaatt gcatgatgat gctataaccg
     2761 aggtgaatga gcatgggaag gttatatttg aatcctttga aggtgtatca cctcgtaggt
     2821 atcaaaaatt cttcttttct acagatgaaa ggaaagatag tttcggtaac gcagaaaagt
     2881 actccactaa atataaaaat cacattgata tacagtttat tgatagctat ttagatttcg
     2941 aaaatcgagt cgttgatatt tttagaacta acacaaatat tgattctggc aatcatgtcg
     3001 ggagaactga ttcgactatt aatttatctt cccagcccgt accgcccgta ccgcccgtac
     3061 cgcccgtacc gcccgtaccg ccagtaccgc cagtaccgcc agtaccgcca gtaccaccag
     3121 taccaccagt accaccagac tcgaaatgaa gatctgttga ctctgatgtt atacagagct
     3181 taaccttgag acgagaaaga aaaaaaccgc ctttgcgggg cggttttttt aaggttctag
     3241 agtttgcggc tctatgaacc aaggtaactg gcttagagga gcgcagtcac caaaacttgt
     3301 tctttcagtt tagccttaac tggcgcataa cttcaagact aactcctcta aatcagttac
     3361 cggtggctgc tgccagtggt gcttttgcat gtcttaccgg gttggactca agatgatagt
     3421 taccggataa gacgcagcag tcggactgaa cggggggttc gtgcatacag tccagcttgg
     3481 agcgaactgc ctacccggaa ctgagtgtca ggcgtggaat gagacaaacg cggccataac
     3541 agcggaatga caccggtaaa ccgaatggca ggaacaggag agcgcacgag ggagccatca
     3601 gggggaaacg cctggtatct ttatagtcct gtcgggtttc gccgccactg atttgagcgt
     3661 cagattccgt gatgctcgtc aggggggcgg agcctatgga aaaacggccg ctgtgcggcc
     3721 tttccttttc cccatcacga gaccgctcgg ttttctcgag cttttacacg catgctcctg
     3781 ccgctcgccg cagccgaacg gcaggagcgt agcgactgag tgagcgagga agcggaaaag
     3841 agactgttct tacactgagc actgacgctc tgaggcttct tatgacgaaa caacagaaaa
     3901 cagcgctgaa catggctaaa ttcatccaga atcagtctct gctcctgctg gagaagctta
     3961 acgagcttga tctcgatgtt gaggccgacc tttgtgagaa actccacgat gatgcggagc
     4021 atcttttccg tacactgtcc tcgagactgg atgaattaca ggatggtaac tgatggccag
     4081 agtgtctatt agtgaggctg cccgactgac gggtaagagt agaacaacac tgcacaggtt
     4141 gattaaagca ggtgacctgt ccacctgtag cggtgaacgc aatgcaaaaa tggtagatac
     4201 ttcagagctt ttacgtgtct ttggtccctt tgagcaaccg aagggtgaac accattctgg
     4261 acaggtctct gaacagcgtg atacagcctc tgctgaccag agtgaacagg tgattcgtca
     4321 tctgaaacag gagattgaac acctgaatac cttacttttg tccaaggatt cgcacattga
     4381 cagcctgaaa caggccatgc tccttctcga aaatcaccag gcaaaattaa ctgaatcccc
     4441 ggcgccatgg tggaaattct ggaaaaaatc ctgaccccgt catgcttccg ttttcctctc
     4501 cggccatccc ggggagttcc tgaaccttcc caaaaatcgt cagatctctg aacgctcctc
     4561 accactaaaa atacccacac cccacgcaaa attaatattt tgcagatttg tatttaatat
     4621 cagtgggtta ctttcctgaa atttcgtttt ttaaatttta
//
