LOCUS       NZ_CP137354             4167 bp    DNA     circular CON 26-JAN-2024
DEFINITION  Klebsiella pneumoniae strain KP99_L14_14.23_ST147_NDM5_OXA48 plasmid
            unnamed3, complete sequence.
ACCESSION   NZ_CP137354
VERSION     NZ_CP137354.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN37951971
            Assembly: GCF_033238325.1
KEYWORDS    RefSeq.
SOURCE      Klebsiella pneumoniae
  ORGANISM  Klebsiella pneumoniae
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Klebsiella/Raoultella group; Klebsiella.
REFERENCE   1  (bases 1 to 4167)
  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  JOURNAL   Unpublished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 4167)
  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                   :: 155x
            Sequencing Technology             :: Oxford Nanopore MinION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 01/24/2024 11:03:49
            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)                     :: 6,099
            CDSs (total)                      :: 5,975
            Genes (coding)                    :: 5,773
            CDSs (with protein)               :: 5,773
            Genes (RNA)                       :: 124
            rRNAs                             :: 9, 8, 8 (5S, 16S, 23S)
            complete rRNAs                    :: 9, 8, 8 (5S, 16S, 23S)
            tRNAs                             :: 88
            ncRNAs                            :: 11
            Pseudo Genes (total)              :: 202
            CDSs (without protein)            :: 202
            Pseudo Genes (ambiguous residues) :: 0 of 202
            Pseudo Genes (frameshifted)       :: 95 of 202
            Pseudo Genes (incomplete)         :: 113 of 202
            Pseudo Genes (internal stop)      :: 30 of 202
            Pseudo Genes (multiple problems)  :: 30 of 202
            CRISPR Arrays                     :: 1
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP137354.1.
            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..4167
                     /organism="Klebsiella pneumoniae"
                     /mol_type="genomic DNA"
                     /strain="KP99_L14_14.23_ST147_NDM5_OXA48"
                     /isolation_source="rectal swab"
                     /host="Homo sapiens"
                     /db_xref="taxon:573"
                     /plasmid="unnamed3"
                     /geo_loc_name="United Kingdom: England"
                     /collection_date="2023-04"
                     /genotype="ST147"
     gene            join(3902..4167,1..850)
                     /locus_tag="R5O59_RS29120"
                     /old_locus_tag="R5O59_29105"
     CDS             join(3902..4167,1..850)
                     /locus_tag="R5O59_RS29120"
                     /old_locus_tag="R5O59_29105"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_019405083.1"
                     /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="ATP-binding protein"
                     /protein_id="WP_012579087.1"
                     /translation="MIKEISLKNFKCFNELYLKQLKTLNIIAGKNNYGKTSILDAIFCF
                     YDVKNPAVLLNIQAFRKEMAEINKNKPFWVSYFHDMDTSQKMSIVIRDERSEVTQTYET
                     ETNQRLESSLSLNVDTVLSNQNIPRQTIGSQATVNSLKINVTETPNAKNRVSNKLFSMQ
                     LKEDGVEIKSEIKNERDGINYKFKTATIITTSRKINKEATITNVSSLLTQKRKKDILEN
                     LKKIDDRIVDIAISAIGNNKEIYLDIGFSELNEISMLGEGISRALSFISSVLVQENSII
                     LIDEIENGIHYSVIKDIIKSLISSAKQNNNQIFATTHSQDVIRAINEIDSKNEDIAYIR
                     LGREKNSLKPTAVQFNMDDFSYSVENDWEVR"
                     /name="ATP-binding protein"
     gene            850..1482
                     /locus_tag="R5O59_RS29125"
                     /old_locus_tag="R5O59_29110"
     CDS             850..1482
                     /locus_tag="R5O59_RS29125"
                     /old_locus_tag="R5O59_29110"
                     /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            1848..2090
                     /locus_tag="R5O59_RS29130"
                     /old_locus_tag="R5O59_29115"
     CDS             1848..2090
                     /locus_tag="R5O59_RS29130"
                     /old_locus_tag="R5O59_29115"
                     /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_098963735.1"
                     /translation="MHSAEIHTIQPGEVLFPAFFSSENGERGRNLLRGREALPAQPENR
                     FSAPSGIGFVDGRQSRYGKSPDDSPHDSPAIRIVN"
                     /name="hypothetical protein"
     gene            complement(2436..2837)
                     /locus_tag="R5O59_RS29135"
                     /old_locus_tag="R5O59_29120"
     CDS             complement(2436..2837)
                     /locus_tag="R5O59_RS29135"
                     /old_locus_tag="R5O59_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_012579088.1"
                     /translation="MARVSISEAARLTGKSRTTLHRLIKAGDLSTCSGERNAKMVDTSE
                     LLRVFGPFEQPKGEHHSGQVSGQRDTASADQSEQVIRHLKQEIEHLNTLLLSKDSHIDS
                     LKQAMLLLENHQAKLTESPAPWWKFWKKS"
                     /name="helix-turn-helix domain-containing protein"
     gene            complement(2837..3028)
                     /locus_tag="R5O59_RS29140"
                     /old_locus_tag="R5O59_29125"
     CDS             complement(2837..3028)
                     /locus_tag="R5O59_RS29140"
                     /old_locus_tag="R5O59_29125"
                     /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            3444..3557
                     /locus_tag="R5O59_RS29145"
                     /old_locus_tag="R5O59_29130"
                     /pseudo=""
     CDS             3444..3557
                     /locus_tag="R5O59_RS29145"
                     /old_locus_tag="R5O59_29130"
                     /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"
     Typing          3150..3557
                     /name="ColRNAI_rep_cluster_1987"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="93.399"
                     /coverage="99.0"
                     /evalue="5.92e-171"
ORIGIN
        1 agtcattcga gatgaacgct ctgaagtaac acaaacatat gaaacagaaa caaatcagag
       61 attagaatca agtttgtctc taaacgttga caccgtacta tctaaccaaa acatacctcg
      121 tcaaactatc ggttctcagg ccacagtaaa ctctttaaaa ataaatgtga ccgagacacc
      181 caatgcgaaa aacagggttt ccaataagct tttctctatg caattgaaag aagatggcgt
      241 agaaataaaa tccgaaataa aaaacgaaag ggatgggatt aattataaat ttaagacagc
      301 aacaataata acaacatcca gaaagataaa caaagaggca acaattacaa atgtatctag
      361 cctactaaca caaaaaagga aaaaagacat actagaaaac ttaaaaaaaa tagatgacag
      421 aattgtagat atagcaatat ctgcgatagg taacaataag gaaatatatt tagacattgg
      481 atttagtgag ctaaatgaaa tatcaatgct tggcgagggt atcagtcgag cattatcttt
      541 tatcagctca gtgctggtac aggaaaactc aattattctt attgatgaaa tcgagaacgg
      601 aatacattac tcagtaatta aagacataat aaaatcatta atttcatctg caaaacaaaa
      661 caacaatcaa atatttgcaa caactcatag tcaagatgtg atacgagcaa taaacgaaat
      721 agatagcaaa aatgaagata tcgcttatat tagactagga agagaaaaga actccctaaa
      781 accaacagcc gtacaattca atatggatga tttctcctac tcagttgaga acgactggga
      841 ggtaagataa tgaaagacat aaataatagc aaaaagatca ttttcgttga gggtgatgat
      901 gattttcatt ttctatgcaa cctacttgaa atacaaggca ttaccgatgt ttttgtcgaa
      961 aaaataaatg gaaaatcaaa attaaaacaa gcacttagag cattcaaaaa cattgattct
     1021 ttcgatgaaa aagaaagtat ttttattata ttagatgctg acacatcatt ttctgacaca
     1081 gaaagatcaa taattgccac attgcgagaa ctacaaatct cctcccccag ctcgcataac
     1141 gagatagcta tgaatggcaa tacaaaaatt tctttcttta taatgccagg aaaagacaag
     1201 caaggtgcca ttgaagatct gataattgaa cacgcaagca ctcgagcgtt atatgaatac
     1261 ataatagaat ttttcgaaaa aattaaaaat aataaagatg acatctcagc gagtgacaaa
     1321 gagtacactt atccaacaaa cgaaaaaaaa gctaaggtac aagtctatct tagctgcaat
     1381 agagaatccg actcaagaat aggaatatcc atgaaaaatg gaataataaa cacagcagac
     1441 aattgctttg atgaaataaa agattttatt tcaaaaatat aaatccaaat caagccagcc
     1501 cttcacgggc tggcttatca ccagggtgtt attaaacgcc ggataacgta tagaaagcat
     1561 catacacttt agttatcagc aatctcaaac gtcctaaaga catcaccaga tgccaaaaca
     1621 atgattgtgc agatctaatg taaaagaccc agcacaagat gctcccttaa gttatattct
     1681 ctctattcac ttaaaacaat ttaacataaa atcataattg tacgcaccgc taaaacggac
     1741 tcaggacgtt tctgacggga aaccggtaaa acaggcaaca aaccacccga aaacccgcca
     1801 gaaacgcgca ggctctgttt ttacggcatg catgagtatg cgcgcaagtg catagcgcgg
     1861 aaattcacac cattcagcca ggggaagtcc tgtttccggc gttcttctcc tccgaaaacg
     1921 gtgaacgggg acgcaattta ttgcgtggcc gtgaagcgtt gccggcgcag ccggaaaacc
     1981 ggttttcagc accttcagga atcgggttcg tcgacggccg gcaatcacgt tatggcaagt
     2041 cgccggacga ctcaccacac gattcaccgg cgattcgaat cgtgaattga atcaagagtc
     2101 accatgagca aaaaacaccc aaagtgatga attgaatcaa gagtcgattc atcataacaa
     2161 tatgataata aagcgtgatt cacatatgaa tcgtgggcaa ttcgtcagcg attcgccata
     2221 gagtcgtcca cgacttggat ctgcactttg taacacatca ccgcacattt atttttcatt
     2281 aacccattgt tgtaaataag gaatctgcaa aattttaatt ttgcgtgggg tgtgggtatt
     2341 tttagtggtg aggagcgttc agagatctga cgatttttgg gaaggttcag gaactccctg
     2401 ggatggccgg agaggaaaac tgaagcatga cggggtcagg attttttcca gaatttccac
     2461 catggcgccg gggattcagt taattttgcc tggtgatttt caagaaggag catggcctgt
     2521 ttcaggctgt caatgtgcga atccttggac aaaagtaagg tgttcaggtg ttcaatctcc
     2581 tgtttcagat gacggatcac ctgttcactc tggtcagcag aggctgtatc acgctgtcca
     2641 gagacctgtc cagaatggtg ttcacccttc ggttgctcaa aggggccaaa gacacgtaaa
     2701 agctctgaag tatctaccat ttttgcattg cgctcaccgc tacaggtgga caggtcacct
     2761 gctttaatta acctgtgcag tgttgttcta ctcttacccg tcagtcgggc agcctcacta
     2821 atagacactc tggccatcag ttaccatcct gtaatgcatc cagtctcgag gacagtgtac
     2881 ggaaaagatg ctccgcatca tcgtggagtt tctcacaaag gtcggcctcg acatcgagat
     2941 caagctcgtt aagcttctcc agcaggagca gagactgatt ctggatgaat ttagccatgt
     3001 tcagcgctgt tttctgttgt ttcgtcataa gaggcctcag agcgtcagtg gtcagtgtag
     3061 ggatctcctc ttttccgctt cctcgctcac tcagtcgcta cgctcctgcc gttcggctgc
     3121 ggcgagcggc aggagcatgc gtagaaacgc tcgagaaaac cgagtaatcg catggaggaa
     3181 agaaggaaag gccgcacagc ggccgttttt ccataggctc cgcccccctg acgagcatca
     3241 cggaatctga cgctcaaatc agtggtggcg aaacccgaca ggactataaa gataccaggc
     3301 gtttccccct gatggctccc tcgtgcgctc tcctgttcct gcctttcggt ttaccggtgt
     3361 cattccgctg ttatggccgc gtttgtctca ttccacgcct gacactcagt tccgggtagg
     3421 cagttcgctc caagctggac tgtatgcacg aaccccccgt tcagtccgac tgctgcgcct
     3481 aatccggtaa ctatcgtctt gagtccaacc cggaaagaca cgacaaagcg ccactggcag
     3541 cagccactgg taactgattt agggagttag tcttgaagtt atacgccagt taaagctaaa
     3601 ctaaacgaac agttttggtg actgcgctcc ctttaagcca gttacctcgg ttcatagagc
     3661 gccaactcta ctgaaccttt cgaaaaaacc gcccgccaag gcggtttttt tcgttcacag
     3721 ccggaagctt acggctgctg ccagataatc tcaagaagaa agtaaaaaaa atcgattaaa
     3781 acacaagcaa tcaaagttaa tctttgacat aaagtctagc taatcacaat gaaagctgta
     3841 cattttatta aggtactaac aaatcgtatg gcatataaca aaaacacgaa cagaggctat
     3901 catgataaag gaaataagtt taaagaactt caaatgcttc aatgagctat atctaaagca
     3961 attaaagact ttaaatatca tagctgggaa aaacaactac gggaaaacat ctatactgga
     4021 tgctattttt tgtttttatg atgtaaaaaa cccggctgtt ttgttaaaca ttcaagcatt
     4081 cagaaaagaa atggcagaaa taaacaaaaa caagccattt tgggttagtt actttcatga
     4141 tatggacaca tcacaaaaga tgtccat
//
