LOCUS       NZ_CP137397             4915 bp    DNA     circular CON 04-NOV-2023
DEFINITION  Klebsiella pneumoniae strain KP119_WM3_21.23_ST147_NDM1 plasmid
            unnamed2, complete sequence.
ACCESSION   NZ_CP137397
VERSION     NZ_CP137397.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN37951961
            Assembly: GCF_033253665.1
KEYWORDS    RefSeq.
SOURCE      Klebsiella pneumoniae
  ORGANISM  Klebsiella pneumoniae
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Klebsiella/Raoultella group; Klebsiella.
REFERENCE   1  (bases 1 to 4915)
  AUTHORS   Turton,J.F. and Turton,J.A.
  TITLE     Klebsiella pneumoniae ST147 - the rise of a multiresistant and
            hypervirulent type
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 4915)
  AUTHORS   Turton,J.F. and Turton,J.A.
  TITLE     Direct Submission
  JOURNAL   Submitted (24-OCT-2023) HCAI, Fungal, AMR, AMU & Sepsis Division,
            United Kingdom Health Security Agency, 61 Colindale Avenue, London,
            London NW9 5EQ, United Kingdom
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: flye v. 2.9.1-b1780
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 354x
            Sequencing Technology             :: Oxford Nanopore MinION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 11/03/2023 12:59:32
            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)                     :: 5,867
            CDSs (total)                      :: 5,742
            Genes (coding)                    :: 5,589
            CDSs (with protein)               :: 5,589
            Genes (RNA)                       :: 125
            rRNAs                             :: 9, 8, 8 (5S, 16S, 23S)
            complete rRNAs                    :: 9, 8, 8 (5S, 16S, 23S)
            tRNAs                             :: 89
            ncRNAs                            :: 11
            Pseudo Genes (total)              :: 153
            CDSs (without protein)            :: 153
            Pseudo Genes (ambiguous residues) :: 0 of 153
            Pseudo Genes (frameshifted)       :: 71 of 153
            Pseudo Genes (incomplete)         :: 88 of 153
            Pseudo Genes (internal stop)      :: 29 of 153
            Pseudo Genes (multiple problems)  :: 28 of 153
            CRISPR Arrays                     :: 1
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP137397.1.
            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..4915
                     /organism="Klebsiella pneumoniae"
                     /mol_type="genomic DNA"
                     /strain="KP119_WM3_21.23_ST147_NDM1"
                     /isolation_source="pooled swabs"
                     /host="Homo sapiens"
                     /db_xref="taxon:573"
                     /plasmid="unnamed2"
                     /geo_loc_name="United Kingdom: England"
                     /collection_date="2023-05"
                     /genotype="ST147"
     gene            complement(548..1180)
                     /locus_tag="R5O49_RS26530"
                     /old_locus_tag="R5O49_26525"
     CDS             complement(548..1180)
                     /locus_tag="R5O49_RS26530"
                     /old_locus_tag="R5O49_26525"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000804504.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="DUF3226 domain-containing protein"
                     /protein_id="WP_012579086.1"
                     /translation="MKDINNSKKIIFVEGDDDFHFLCNLLEIQGITDVFVEKINGKSKL
                     KQALRAFKNIDSFDEKESIFIILDADTSFSDTERSIIATLRELQISSPSSHNEIAMNGN
                     TKISFFIMPGKDKQGAIEDLIIEHASTRALYEYIIEFFEKIKNNKDDISASDKEYTYPT
                     NEKKAKVQVYLSCNRESDSRIGISMKNGIINTADNCFDEIKDFISKI"
                     /name="DUF3226 domain-containing protein"
     gene            complement(1180..2037)
                     /locus_tag="R5O49_RS26535"
                     /old_locus_tag="R5O49_26530"
     CDS             complement(1180..2037)
                     /locus_tag="R5O49_RS26535"
                     /old_locus_tag="R5O49_26530"
                     /inference="COORDINATES: protein motif:HMM:NF024573.3"
                     /GO_function="GO:0005524 - ATP binding [Evidence IEA];
                     GO:0016887 - ATP hydrolysis activity [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="AAA family ATPase"
                     /protein_id="WP_164484382.1"
                     /translation="MSIVIRDERSEVTQTYETETNQRLESSLSLNVDTVLSNQNIPRQT
                     IGSQATVNSLKINVTETPNAKNRVSNKLFSMQLKEDGVEIKSEIKNERDGINYKFKTAT
                     IITTSRKINKEATITNVSSLLTQKRKKDILENLKKIDDRIVDIAISAIGNNKEIYLDIG
                     FSELNEISMLGEGISRALSFISSVLVQENSIILIDEIENGIHYSVIKDIIKSLISSAKQ
                     NNNQIFATTHSQDVIRAINEIDSKNEDIAYIRLGREKNSLKPTAVQFNMDDFSYSVEND
                     WEVR"
                     /name="AAA family ATPase"
     gene            2095..2792
                     /locus_tag="R5O49_RS26540"
                     /old_locus_tag="R5O49_26535"
     CDS             join(2095..2344,2344..2792)
                     /locus_tag="R5O49_RS26540"
                     /old_locus_tag="R5O49_26535"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_086558267.1"
                     /ribosomal_slippage=""
                     /GO_function="GO:0004803 - transposase activity [Evidence
                     IEA]"
                     /note="programmed frameshift; Derived by automated
                     computational analysis using gene prediction method:
                     Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="IS1 family transposase"
                     /protein_id="WP_223174630.1"
                     /translation="MASVSVCCPSCSATEGVMRNGKSTAGHQRYLCSHCRKTWQLTFTY
                     AASQPGTHQKIIDMAMNGVGCRATARLMGVGLNTILRHFKKLRPQSVTSRIQPGSDVIV
                     CAEMDEQWGYVGAKSRQRWLFYAYDRIRRAVVAHVFGERTMATLERLLSLLSVFDVVVW
                     MTDGWPMYESRLKGKLHVISKRYTQRIERHNLNLRQHLARLGRKSLSFSKSVELHDKVI
                     GHYLNIKHYQ"
                     /name="IS1 family transposase"
     gene            complement(2803..3072)
                     /locus_tag="R5O49_RS26545"
                     /old_locus_tag="R5O49_26540"
     CDS             complement(2803..3072)
                     /locus_tag="R5O49_RS26545"
                     /old_locus_tag="R5O49_26540"
                     /inference="COORDINATES: protein motif:HMM:NF024573.3"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="AAA family ATPase"
                     /protein_id="WP_136446263.1"
                     /translation="MIKEISLKNFKCFNELYLKQLKTLNIIAGKNNYGKTSILDAIFCF
                     YDVKNPAVLLNIQAFRKEMAEINKNKPFWVSYFHDMDTSQKMSR"
                     /name="AAA family ATPase"
     gene            complement(3417..3530)
                     /locus_tag="R5O49_RS26550"
                     /old_locus_tag="R5O49_26545"
                     /pseudo=""
     CDS             complement(3417..3530)
                     /locus_tag="R5O49_RS26550"
                     /old_locus_tag="R5O49_26545"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_007772075.1"
                     /note="internal stop; Derived by automated computational
                     analysis using gene prediction method: Protein Homology."
                     /pseudo=""
                     /codon_start=1
                     /transl_table=11
                     /product="replication initiation protein"
                     /name="replication initiation protein"
     gene            3946..4137
                     /locus_tag="R5O49_RS26555"
                     /old_locus_tag="R5O49_26550"
     CDS             3946..4137
                     /locus_tag="R5O49_RS26555"
                     /old_locus_tag="R5O49_26550"
                     /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_004187666.1"
                     /translation="MTKQQKTALNMAKFIQNQSLLLLEKLNELDLDVEADLCEKLHDDA
                     EHLFRTLSSRLDALQDGN"
                     /name="Rop family plasmid primer RNA-binding protein"
     gene            4137..4538
                     /locus_tag="R5O49_RS26560"
                     /old_locus_tag="R5O49_26555"
     CDS             4137..4538
                     /locus_tag="R5O49_RS26560"
                     /old_locus_tag="R5O49_26555"
                     /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_012579088.1"
                     /translation="MARVSISEAARLTGKSRTTLHRLIKAGDLSTCSGERNAKMVDTSE
                     LLRVFGPFEQPKGEHHSGQVSGQRDTASADQSEQVIRHLKQEIEHLNTLLLSKDSHIDS
                     LKQAMLLLENHQAKLTESPAPWWKFWKKS"
                     /name="helix-turn-helix domain-containing protein"
     Typing          complement(3418..3825)
                     /name="ColRNAI_rep_cluster_1987"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="93.399"
                     /coverage="99.0"
                     /evalue="5.92e-171"
ORIGIN
        1 gtggtgagtc ggccgtcgac gaacccgatt cctgaaggtg ctgaaaaccg gttttccggc
       61 tgcgccggca acgcttcacg gccacgcaat aaattgcgtc cccgttcacc gttttcggag
      121 gagaagaacg ccggaaacag gacttcccct ggctgaatgg tgtgaatttc cgcgctatgc
      181 acttgcgcgc atactcatgc atgccgtaaa aacagagcct gcgcgtttct ggcgggtttt
      241 cggggggttt gttgcctgtt ttaccggttt cccgtcagaa acgccttgag gccgtttttg
      301 cggtgcgtac aattatgatt ttatgttaaa ttgttttaag tgaatagaga gaatataact
      361 taagggagca tcttgtgctg ggtcttttac attagatctg cacaatcatt gttttggcat
      421 ctggtgatgt ctttaggacg tttgagattg ctgataacta aagtgtatga tgctttctat
      481 acgttatccg gcgtttaata acaccctggt gataagccag cccgtgaagg gctggcttga
      541 tttggattta tatttttgaa ataaaatctt ttatttcatc aaagcaattg tctgctgtgt
      601 ttattattcc atttttcatg gatattccta ttcttgagtc ggattctcta ttgcagctaa
      661 gatagacttg taccttagct tttttttcgt ttgttggata agtgtactct ttgtcactcg
      721 ctgagatgtc atctttatta tttttaattt tttcgaaaaa ttctattatg tattcatata
      781 acgctcgagt gcttgcgtgt tcaattatca gatcttcaat ggcaccttgc ttgtcttttc
      841 ctggcattat aaagaaagaa atttttgtat tgccattcat agctatctcg ttatgcgagc
      901 tgggggagga gatttgtagt tctcgcaatg tggcaattat tgatctttct gtgtcagaaa
      961 atgatgtgtc agcatctaat ataataaaaa tactttcttt ttcatcgaaa gaatcaatgt
     1021 ttttgaatgc tctaagtgct tgttttaatt ttgattttcc atttattttt tcgacaaaaa
     1081 catcggtaat gccttgtatt tcaagtaggt tgcatagaaa atgaaaatca tcatcaccct
     1141 caacgaaaat gatctttttg ctattattta tgtctttcat tatcttacct cccagtcgtt
     1201 ctcaactgag taggagaaat catccatatt gaattgtacg gctgttggtt ttagggagtt
     1261 cttttctctt cctagtctaa tataagcgat atcttcattt ttgctatcta tttcgtttat
     1321 tgctcgtatc acatcttgac tatgagttgt tgcaaatatt tgattgttgt tttgttttgc
     1381 agatgaaatt aatgatttta ttatgtcttt aattactgag taatgtattc cgttctcgat
     1441 ttcatcaata agaataattg agttttcctg taccagcact gagctgataa aagataatgc
     1501 tcgactgata ccctcgccaa gcattgatat ttcatttagc tcactaaatc caatgtctaa
     1561 atatatttcc ttattgttac ctatcgcaga tattgctata tctacaattc tgtcatctat
     1621 tttttttaag ttttctagta tgtctttttt ccttttttgt gttagtaggc tagatacatt
     1681 tgtaattgtt gcctctttgt ttatctttct ggatgttgtt attattgttg ctgtcttaaa
     1741 tttataatta atcccatccc tttcgttttt tatttcggat tttatttcta cgccatcttc
     1801 tttcaattgc atagagaaaa gcttattgga aaccctgttt ttcgcattgg gtgtctcggt
     1861 cacatttatt tttaaagagt ttactgtggc ctgagaaccg atagtttgac gaggtatgtt
     1921 ttggttagat agtacggtgt caacgtttag agacaaactt gattctaatc tctgatttgt
     1981 ttctgtttca tatgtttgtg ttacttcaga gcgttcatct cgaatgacta tggacatctg
     2041 gtgatgctac caacttgctg atttagtgta taatggtgtt tttgaggtgc tcccgtggct
     2101 tcagtctccg tctgctgtcc ctcctgttcc gctactgaag gcgtgatgcg taatggcaaa
     2161 agtactgccg ggcatcaacg ttatctctgc tctcactgcc gtaaaacatg gcagctcacc
     2221 ttcacttatg ccgcttctca gcccggtaca caccagaaaa tcattgatat ggctatgaac
     2281 ggcgtcggtt gccgtgccac cgcacgacta atgggcgtgg gcctcaacac cattttgcgc
     2341 catttaaaaa actcaggccg cagtcagtaa cctcccggat acagccgggc agtgatgtca
     2401 ttgtctgtgc ggagatggac gagcaatggg gctacgtcgg tgcaaaatca cgtcagcgct
     2461 ggctgtttta cgcgtatgac aggatacgca gggcggtggt agcccacgtt ttcggtgaac
     2521 gcactatggc cacactggag cgtcttctga gcctgctgtc agtttttgac gtggtggtat
     2581 ggatgacgga cggctggccg atgtatgagt cacgtctgaa gggaaaactg cacgtcatca
     2641 gtaagcgtta cacgcagcga attgagcgac acaacctgaa tctgagacag catctggcaa
     2701 ggctgggcag gaagtccctg tcgttctcaa aatcggtgga gctgcatgac aaagtcatcg
     2761 ggcactatct gaacataaaa cactatcagt aaattggagt cattacctgg acatcttttg
     2821 tgatgtgtcc atatcatgaa agtaactaac ccaaaatggc ttgtttttgt ttatttctgc
     2881 catttctttt ctgaatgctt gaatgtttaa caaaacagcc gggtttttta catcataaaa
     2941 acaaaaaata gcatccagta tagatgtttt cccgtagttg tttttcccag ctatgatatt
     3001 taaagtcttt aattgcttta gatatagctc attgaagcat ttgaagttct ttaaacttat
     3061 ttcctttatc atgatagcct ctgttcgtgt ttttgttata tgccatacga tttgttagta
     3121 ccttaataaa atgtacagct ttcattgtga ttagctagac tttatgtcaa agattaactt
     3181 tgattgcttg tgttttaatc gatttttttt actttcttct tgagattatc tggcagcagc
     3241 cgtaagcttc cggctgtgaa cgaaaaaaac cgccttggcg ggcggttttt tcgaaaggtt
     3301 cagtagagtt ggcgctctat gaaccgaggt aactggctta aagggagcgc agtcaccaaa
     3361 actgttcgtt tagtttagct ttaactggcg tataacttca agactaactc cctaaatcag
     3421 ttaccagtgg ctgctgccag tggcgctttg tcgtgtcttt ccgggttgga ctcaagacga
     3481 tagttaccgg attaggcgca gcagtcggac tgaacggggg gttcgtgcat acagtccagc
     3541 ttggagcgaa ctgcctaccc ggaactgagt gtcaggcgtg gaatgagaca aacgcggcca
     3601 taacagcgga atgacaccgg taaaccgaaa ggcaggaaca ggagagcgca cgagggagcc
     3661 atcaggggga aacgcctggt atctttatag tcctgtcggg tttcgccacc actgatttga
     3721 gcgtcagatt ccgtgatgct cgtcaggggg gcggagccta tggaaaaacg gccgctgtgc
     3781 ggcctttcct tctttcctcc atgcgattac tcggttttct cgagcgtttc tacgcatgct
     3841 cctgccgctc gccgcagccg aacggcagga gcgtagcgac tgagtgagcg aggaagcgga
     3901 aaagaggaga tccctacact gaccactgac gctctgaggc ctcttatgac gaaacaacag
     3961 aaaacagcgc tgaacatggc taaattcatc cagaatcagt ctctgctcct gctggagaag
     4021 cttaacgagc ttgatctcga tgtcgaggcc gacctttgtg agaaactcca cgatgatgcg
     4081 gagcatcttt tccgtacact gtcctcgaga ctggatgcat tacaggatgg taactgatgg
     4141 ccagagtgtc tattagtgag gctgcccgac tgacgggtaa gagtagaaca acactgcaca
     4201 ggttaattaa agcaggtgac ctgtccacct gtagcggtga gcgcaatgca aaaatggtag
     4261 atacttcaga gcttttacgt gtctttggcc cctttgagca accgaagggt gaacaccatt
     4321 ctggacaggt ctctggacag cgtgatacag cctctgctga ccagagtgaa caggtgatcc
     4381 gtcatctgaa acaggagatt gaacacctga acaccttact tttgtccaag gattcgcaca
     4441 ttgacagcct gaaacaggcc atgctccttc ttgaaaatca ccaggcaaaa ttaactgaat
     4501 ccccggcgcc atggtggaaa ttctggaaaa aatcctgacc ccgtcatgct tcagttttcc
     4561 tctccggcca tcccagggag ttcctgaacc ttcccaaaaa tcgtcagatc tctgaacgct
     4621 cctcaccact aaaaataccc acaccccacg caaaattaaa attttgcaga ttccttattt
     4681 acaacaatgg gttaatgaaa aataaatgtg cggtgatgtg ttacaaagtg cagatccaag
     4741 tcgtggacga ctctatggcg aatcgctgac gaattgccca cgattcatat gtgaatcacg
     4801 ctttattatc atattgttat gatgaatcga ctcttgattc aattcatcac tttgggtgtt
     4861 ttttgctcat ggtgactctt gattcaattc acgattcgaa tcgccggtga atcgt
//
