LOCUS       NZ_CP137408             4261 bp    DNA     circular CON 04-NOV-2023
DEFINITION  Klebsiella pneumoniae strain KP102_WM3_17.23_ST147_OXA181 plasmid
            unnamed2, complete sequence.
ACCESSION   NZ_CP137408
VERSION     NZ_CP137408.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN37951959
            Assembly: GCF_033255445.1
KEYWORDS    RefSeq.
SOURCE      Klebsiella pneumoniae
  ORGANISM  Klebsiella pneumoniae
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Klebsiella/Raoultella group; Klebsiella.
REFERENCE   1  (bases 1 to 4261)
  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  JOURNAL   Unpublished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 4261)
  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                   :: 75x
            Sequencing Technology             :: Oxford Nanopore MinION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 11/03/2023 12:43:28
            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)                     :: 5,731
            CDSs (total)                      :: 5,612
            Genes (coding)                    :: 5,457
            CDSs (with protein)               :: 5,457
            Genes (RNA)                       :: 119
            rRNAs                             :: 9, 8, 8 (5S, 16S, 23S)
            complete rRNAs                    :: 9, 8, 8 (5S, 16S, 23S)
            tRNAs                             :: 85
            ncRNAs                            :: 9
            Pseudo Genes (total)              :: 155
            CDSs (without protein)            :: 155
            Pseudo Genes (ambiguous residues) :: 0 of 155
            Pseudo Genes (frameshifted)       :: 86 of 155
            Pseudo Genes (incomplete)         :: 68 of 155
            Pseudo Genes (internal stop)      :: 21 of 155
            Pseudo Genes (multiple problems)  :: 17 of 155
            CRISPR Arrays                     :: 1
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP137408.1.
            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..4261
                     /organism="Klebsiella pneumoniae"
                     /mol_type="genomic DNA"
                     /strain="KP102_WM3_17.23_ST147_OXA181"
                     /isolation_source="rectal swab"
                     /host="Homo sapiens"
                     /db_xref="taxon:573"
                     /plasmid="unnamed2"
                     /geo_loc_name="United Kingdom: England"
                     /collection_date="2023-04"
                     /genotype="ST147"
     gene            complement(213..635)
                     /locus_tag="R5O47_RS26915"
                     /old_locus_tag="R5O47_26910"
     CDS             complement(213..635)
                     /locus_tag="R5O47_RS26915"
                     /old_locus_tag="R5O47_26910"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:YP_005229777.1"
                     /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_039817119.1"
                     /translation="MARVSISEAARLVKVSRPTIYKMINSGKLSFTSVVKHGKAIKVID
                     TSELIRVFGSLDGVIDTVKYDVKSDAESTGVNSVGLHDLQHRIALLEAENDGLKGAVKA
                     RDEHIDSLRQAMQFLEHKHEPSSPSDSPWWKFWKKS"
                     /name="helix-turn-helix domain-containing protein"
     gene            complement(635..826)
                     /locus_tag="R5O47_RS26920"
                     /old_locus_tag="R5O47_26915"
     CDS             complement(635..826)
                     /locus_tag="R5O47_RS26920"
                     /old_locus_tag="R5O47_26915"
                     /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_039817117.1"
                     /translation="MTKQQKTALNMAKFIQHQSLLLLEKLNELDLDAEADLCEKLHDDA
                     EHLFRTLSSRLDELQDGN"
                     /name="Rop family plasmid primer RNA-binding protein"
     gene            1242..1384
                     /locus_tag="R5O47_RS26925"
                     /old_locus_tag="R5O47_26920"
                     /pseudo=""
     CDS             1242..1384
                     /locus_tag="R5O47_RS26925"
                     /old_locus_tag="R5O47_26920"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001326446.1"
                     /note="frameshifted; 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            complement(1593..1796)
                     /locus_tag="R5O47_RS26930"
                     /old_locus_tag="R5O47_26925"
     CDS             complement(1593..1796)
                     /locus_tag="R5O47_RS26930"
                     /old_locus_tag="R5O47_26925"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000427298.1"
                     /GO_function="GO:0003676 - nucleic acid binding [Evidence
                     IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="cold shock domain-containing protein"
                     /protein_id="WP_072040881.1"
                     /translation="MEKGFINFYDHVRGYGFIRRECGRDVFFKHDDFFDFESSVDVCKG
                     IFVNFEVIKADKGLRAVNIRIV"
                     /name="cold shock domain-containing protein"
     gene            complement(1801..2940)
                     /locus_tag="R5O47_RS26935"
                     /old_locus_tag="R5O47_26930"
     CDS             complement(1801..2940)
                     /locus_tag="R5O47_RS26935"
                     /old_locus_tag="R5O47_26930"
                     /EC_number="2.7.7.49"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_005761319.1"
                     /GO_function="GO:0003964 - RNA-directed DNA polymerase
                     activity [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="reverse transcriptase family protein"
                     /protein_id="WP_072040880.1"
                     /translation="MNKPRFNGTPIASLDSLAAMLGIDRKRLDWMVLSVSRSYKQFTVE
                     TGKNKKERKIFEPKRSLKGIQKKINKEIFENIDYPHYLHGAITGRDYISNASVHTKKKT
                     IICLDITNFYPSISKRDVTLIFKNLMRFSPDVSIALTELVTLNNQVPQGGCCSSYIANL
                     LFFNSEYNLYNRLQSIGYSYTRLLDDITISSDEDISLEEKTKVIQLVYRMVSQHRLSIN
                     EDKTTIEHTKDSSSKLSVTGLWVKHGVPKLTKENRRYIRYLVYICQKQAAYERHTKEYH
                     DLWNRCSGKVAQMSRLGHVQANELRCVLSDILPIYDDYKIGKLKYVAKHYLSKFTHPLS
                     EEQIRKVDRMIYDFDIVGRTNEKLAKDYRSKLRALLPER"
                     /name="reverse transcriptase family protein"
     Typing          948..1351
                     /name="ColRNAI_rep_cluster_1987"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="94.089"
                     /coverage="99.0"
                     /evalue="9.84e-174"
ORIGIN
        1 tcgtcataga gtcggatcta tataaataaa atttaaaaaa cgaaatttca ggaagttaac
       61 ccactgatat taaatacaaa tatgcaaaat gttaattttg cgtagtgtgt gggtattttt
      121 agtggtgagg agcgttcaga gatctgacga tttttgggaa ggttcaggaa ctccccggga
      181 tggccggaga ggaaaacgga agcatgacgg ggtcaggatt ttttccagaa tttccaccac
      241 ggggaatcgg atggtgaaga aggttcgtgc ttgtgctcca gaaactgcat tgcctgacga
      301 agggaatcaa tatgctcatc tcgagcctta acagcccctt taagaccatc gttttcagct
      361 tcaagcaaag caattctatg ttgtaaatca tgtaaaccaa cgctgttaac acctgtagat
      421 tctgcgtcac tttttacatc atattttaca gtatcgatga caccatcgag agaaccaaac
      481 actctaataa gctctgaagt atcaataact ttaatagcct tcccgtgctt tacaacagag
      541 gtgaaactta acttcccact gttaatcatc ttgtaaattg tggggcgact aaccttaaca
      601 agccgtgccg cttcactaat agacactctg gccatcagtt accatcctgt aattcatcca
      661 gtctcgagga cagtgtacgg aaaagatgct ccgcatcatc gtggagtttc tcacaaaggt
      721 cagcctcagc atcaagatca agctcgttaa gcttctccag caggagcaga gactgatgct
      781 ggatgaattt agccatgttc agcgcggtct tctgttgttt cgtcataaga ggcctcagag
      841 cgtcagtgct cagtgtaggg atgttctctt ttccgcttcc tcgctcactc agtcgctatg
      901 ctcctgccgt tcggctgcgg cgagcggcag gagcatgcgt ataaaagctc gagaaaaccg
      961 agcggtcgcg tgacggtgaa aaggaaaggc cgctaagcgg ccgtttttcc ataggctccg
     1021 cccccctgac aagcatcaca gaaactgacg ctcaaatcag tggtggcgaa acccgacagg
     1081 actataaaga tatcaggcgt ttccccctga tggctccctc gtgcgctctc ctgttcctgc
     1141 ctttcggttt accggtgtca ttccgctgtt atggccgcgt ttatctcatt ccacgcctga
     1201 cactcagttc cgggaaggca gttcgctcca agctggactg tatgcacgaa ccccccgttc
     1261 agtccgactg ctgcgccttt tcggtaacta tcaacttgag tccaacccga aaagacacga
     1321 cttatcacca ctggcagcag ccactggtaa cgcattcgca gaacaaagaa gtgttgaagt
     1381 gtgaggtaaa ctacagctac actgttagaa cgaattcggt ttctgtgctc tgcgaaagcc
     1441 agttaccacg gttcagaaac ttgccggtta atgaaccttc gaaaaaacca ccttgccggg
     1501 tggttttttc gtttacaggg caagagatta cgacgagcga ggtaggatct caagagatca
     1561 tttcatcaaa aaggctcaaa aacctctata ttttatacaa ttcgtatatt tacagcccta
     1621 agccctttat ctgcttttat tacttcaaaa ttaacgaaaa tccccttaca tacatcaaca
     1681 ctactttcaa aatcaaaaaa atcatcatgc ttgaaaaaaa cgtcacgccc acactccctt
     1741 cgtataaaac catatcccct aacatggtcg taaaagttaa taaacccttt ttccatataa
     1801 tcacctctca ggaagcaacg ctctaagctt acttctatag tcttttgcta gtttttcatt
     1861 agttcgacca actatatcaa agtcatagat cattctatca acttttctta tttgctcttc
     1921 actcaaaggg tgcgtaaact tacttaaata atgcttagcc acatatttta acttacctat
     1981 tttatagtca tcataaatag gcaatatatc agaaagaacg caccttaact cattagcttg
     2041 aacatgccca agccgagaca tttgtgcaac cttccctgaa catctattcc ataaatcatg
     2101 atactctttc gtatgccgct cataagcagc ttgcttttgg catatataca ccaaatatct
     2161 tatatatcgt ctattctctt ttgttaattt aggaacacca tgcttcaccc acaacccagt
     2221 gacgctaagc ttcgaagagg agtccttggt gtgctctatt gtcgttttat cttcatttat
     2281 ggatagccta tgctgagaaa ccattctata gacgagttga attacttttg ttttctcttc
     2341 taatgaaata tcctcatcag aggatattgt aatatcatct aacaaccttg tgtatgaata
     2401 cccaatagat tgcaatctat tataaagatt atactcacta ttaaagaaca aaagatttgc
     2461 aatgtaacta gagcaacacc ctccttgcgg aacttgatta ttcaatgtca caagctcagt
     2521 taaagcaata gatacatcag gagagaatcg cattaaattt ttaaatataa gagtaacatc
     2581 ccgcttacta atgcttggat aaaaattagt tatatctaga catattattg tttttttctt
     2641 tgtgtgcacg gatgcatttg atatatagtc acgcccagtt atcgccccat gcaaataatg
     2701 agggtaatct atattttcaa atatttcttt atttattttc ttttgaatac cctttaaaga
     2761 tctcttgggc tcaaatattt ttctttcttt tttatttttt cctgtttcaa cagtaaactg
     2821 cttgtatgac ctagatactg ataagaccat ccagtccaat cttttcctgt ctatacctaa
     2881 catcgcagcc aaagaatcca aggatgctat aggtgttcca ttaaacctag gtttattcat
     2941 gatgtttgag ttaaaagtcg attagttaaa gaattttgat atataatcta ataatttaac
     3001 aaaaatcaag aacatacaac cccaaaactg cggggttttc agcacttcca gagagccaac
     3061 ctctcttttt ttcttcttct gtccgtctcc ggaacaagat gaagagctct tggttacgta
     3121 aatgttgatg ttgaaaataa acatagtact gctcctagtg gttgtgaaat tttgccagac
     3181 cataggaaag caaggaaaaa ttctattggc tctttgggac ttttaactca cattgccaga
     3241 caatcgtcgc catttttgaa gcgataatga gcgctcaggg gcgttcttac cgttaatggg
     3301 cggcaaggcc ggtcatgatc tcatgtgaga tcgccttaaa caacaaggca tcggtttcct
     3361 tgacacaaca taaagcgtaa ccatttttta aagagcgaga gccaggcgtg gttcgcccgc
     3421 ttctctgatt attataaagt tttttatgat gctgtcatca aagaaaacga acaagatgaa
     3481 aatccctcgt atagagggcc tgaatcatca ttacgtataa acttcagaat aaacgagcag
     3541 caaaagccac gacaacaccc cctacactcc cgttaacatt cgcaatggtt ctcaggcgat
     3601 catccttgag aggcttgccg tcaaaggtcg caatagttct taagcgatca tcttttatag
     3661 ttacactcac aaatactcaa taataagtta actttctgaa tttcctaaga ttaaatgaaa
     3721 atggcataca accccattta acataaggcc atgattgtac gcaccgctaa aacggcctca
     3781 gggcgtttct gacgggaaac cggtaaaaca ggcaacaaac cacccgaaaa cccgccagaa
     3841 acgcgcaggc tctgttttta cggcatgcat gagtatgcac gcaagtgcat agcgcgaaaa
     3901 ttcacgccat tcagccagag taagtcctgt ttccggcgtt ctttccatcc gaaaacggtg
     3961 aacggagacg caatttattg cgtggccgtg aagcgttgcc ggcgcagccg gaaaaccggt
     4021 tttcagcacg ttcaggaatc gggttcgtcg acggccggca atcacgttat ggcaagtcgc
     4081 cggacgactc accacacgat tcaccggcga ctcttcacta gagtcgtacc cagagtcgcc
     4141 gcgtctaaaa aacaaccaaa cggggagtcg tgtctagagt cgggtcgtta ttaacttatt
     4201 gtttttatag tcctgagtcg ttaccgactc tatgacgact cgccggggac tctatgacga
     4261 g
//
