LOCUS       NZ_CP079649             5561 bp    DNA     circular CON 10-JAN-2024
DEFINITION  Klebsiella pneumoniae subsp. pneumoniae strain WRC24_S468MC plasmid
            pS468M_P4, complete sequence.
ACCESSION   NZ_CP079649
VERSION     NZ_CP079649.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN20130528
            Assembly: GCF_019317165.1
KEYWORDS    RefSeq.
SOURCE      Klebsiella pneumoniae subsp. pneumoniae
  ORGANISM  Klebsiella pneumoniae subsp. pneumoniae
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Klebsiella/Raoultella group; Klebsiella.
REFERENCE   1  (bases 1 to 5561)
  AUTHORS   Balaji,V., Snehal,P., Yamuna,B.D. and Monisha,P.
  TITLE     Complete genome of Carbapenem resistant Klebsiella
            pneumoniae_WRC24_S468MC
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 5561)
  AUTHORS   Balaji,V., Snehal,P., Yamuna,B.D. and Monisha,P.
  TITLE     Direct Submission
  JOURNAL   Submitted (09-JUL-2021) Clinical Microbiology, Christian Medical
            College, Ida Scudder Road, Vellore, Tamil Nadu 632004, India
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Date                     :: 2021
            Assembly Method :: UNICYCLER v. V.0.4.8; CANU v. V.2.1.1
            Assembly Name                     :: WRC24_S468MC
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 65.0x
            Sequencing Technology :: Illumina MiSeq; Oxford Nanopore MinION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 01/10/2024 03:15:43
            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)                     :: 5,644
            CDSs (total)                      :: 5,518
            Genes (coding)                    :: 5,380
            CDSs (with protein)               :: 5,380
            Genes (RNA)                       :: 126
            rRNAs                             :: 9, 8, 8 (5S, 16S, 23S)
            complete rRNAs                    :: 9, 8, 8 (5S, 16S, 23S)
            tRNAs                             :: 87
            ncRNAs                            :: 14
            Pseudo Genes (total)              :: 138
            CDSs (without protein)            :: 138
            Pseudo Genes (ambiguous residues) :: 0 of 138
            Pseudo Genes (frameshifted)       :: 60 of 138
            Pseudo Genes (incomplete)         :: 73 of 138
            Pseudo Genes (internal stop)      :: 24 of 138
            Pseudo Genes (multiple problems)  :: 17 of 138
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP079649.1.
            Bacteria and source DNA available from Christian medical college.
            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..5561
                     /organism="Klebsiella pneumoniae subsp. pneumoniae"
                     /mol_type="genomic DNA"
                     /strain="WRC24_S468MC"
                     /isolation_source="urine"
                     /host="Homo sapiens"
                     /sub_species="pneumoniae"
                     /db_xref="taxon:72407"
                     /plasmid="pS468M_P4"
                     /geo_loc_name="India"
                     /lat_lon="12.9165 N 79.1325 E"
                     /collection_date="2014"
                     /collected_by="Christian medical college"
     gene            complement(34..3039)
                     /locus_tag="KW559_RS27970"
                     /old_locus_tag="KW559_27945"
     CDS             complement(34..3039)
                     /locus_tag="KW559_RS27970"
                     /old_locus_tag="KW559_27945"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_032495017.1"
                     /GO_function="GO:0004803 - transposase activity [Evidence
                     IEA]"
                     /GO_process="GO:0006313 - DNA transposition [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="Tn3-like element Tn3 family transposase"
                     /protein_id="WP_001143760.1"
                     /translation="MPVDFLTTEQTESYGRFTGEPDELQLARYFHLDEADKEFIGKSRG
                     DHNRLGIALQIGCVRFLGTFLTDMNHIPSGVRHFTARQLGIRDITVLAEYGQRENTRRE
                     HAALIRQHYQYREFAWPWTFRLTRLLYTRSWISNERPGLLFDLATGWLMQHRIILPGAT
                     TLTRLISEVREKATLRLWNKLALIPSAEQRSQLEMLLGPTDCSRLSLLESLKKGPVTIS
                     GPAFNEAIERWKTLNDFGLHAENLSTLPAVRLKNLARYAGMTSVFNIARMSPQKRMAVL
                     VAFVLAWETLALDDALDVLDAMLAVIIRDARKIGQKKRLRSLKDLDKSALALASACSYL
                     LKEETPDESIRAEVFSYIPRQKLAEIITLVREIARPSDDNFHEEMVEQYGRVRRFLPHL
                     LNTVKFSSAPAGVTTLNACDYLSREFSSRRQFFDDAPTEIISRSWKRLVINKEKHITRR
                     GYTLCFLSKLQDSLRRRDVYVTGSNRWGDPRARLLQGADWQANRIKVYRSLGHPTDPQE
                     AIKSLGHQLDSRYRQVAARLCENEAVELDVSGPKPRLTISPLASLDEPDSLKRLSKMIS
                     DLLPPVDLTELLLEINAHTGFADEFFHASEASARVDDLPVSISAVLMAEACNIGLEPLI
                     RSNVPALTRHRLNWTKANYLRAETITSANARLVDFQATLPLAQIWGGGEVASADGMRFV
                     TPVRTINAGPNRKYFGNNRGITWYNFVSDQYSGFHGIVIPGTLRDSIFVLEGLLEQETG
                     LNPTEIMTDTAGASELVFGLFWLLGYQFSPRLADAGASVFWRMDHDADYGVLNDIARGQ
                     SDPRKIVLQWDEMIRTAGSLKLGKVQVSVLVRSLLKSERPSGLTQAIIEVGRINKTLYL
                     LNYIDDEDYRRRILTQLNRGESRHAVARAICHGQKGEIRKRYTDGQEDQLGTLGLVTNA
                     VVLWNTIYMQAALDHLRAQGETLNDEDIARLSPLCHGHINMLGHYSFTLAELVTKGHLR
                     PLKEASEAENVA"
                     /name="Tn3-like element Tn3 family transposase"
     gene            3203..3760
                     /locus_tag="KW559_RS27975"
                     /old_locus_tag="KW559_27950"
     CDS             3203..3760
                     /locus_tag="KW559_RS27975"
                     /old_locus_tag="KW559_27950"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:YP_005221001.1"
                     /GO_function="GO:0003677 - DNA binding [Evidence IEA];
                     GO:0000150 - DNA strand exchange activity [Evidence IEA]"
                     /GO_process="GO:0006310 - DNA recombination [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="recombinase family protein"
                     /protein_id="WP_001235713.1"
                     /translation="MRLFGYARVSTSQQSLDLQVRALKDAGVKANRIFTDKASGSSTDR
                     EGLDLLRMKVEEGDVILVKKLDRLGRDTADMIQLIKEFDAQGVAVRFIDDGISTDGDMG
                     QMVVTILSAVAQAERRRILERTNEGRQEAKLKGIKFGRRRTVDRNVVLTLHQKGTGATE
                     IAHQLSIARSTVYKILEDERAS"
                     /name="recombinase family protein"
     gene            3943..4803
                     /locus_tag="KW559_RS27980"
                     /old_locus_tag="KW559_27955"
     CDS             3943..4803
                     /locus_tag="KW559_RS27980"
                     /old_locus_tag="KW559_27955"
                     /EC_number="3.5.2.6"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_032489893.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="broad-spectrum class A beta-lactamase TEM-1"
                     /protein_id="WP_000027057.1"
                     /translation="MSIQHFRVALIPFFAAFCLPVFAHPETLVKVKDAEDQLGARVGYI
                     ELDLNSGKILESFRPEERFPMMSTFKVLLCGAVLSRVDAGQEQLGRRIHYSQNDLVEYS
                     PVTEKHLTDGMTVRELCSAAITMSDNTAANLLLTTIGGPKELTAFLHNMGDHVTRLDRW
                     EPELNEAIPNDERDTTMPAAMATTLRKLLTGELLTLASRQQLIDWMEADKVAGPLLRSA
                     LPAGWFIADKSGAGERGSRGIIAALGPDGKPSRIVVIYTTGSQATMDERNRQIAEIGAS
                     LIKHW"
                     /name="broad-spectrum class A beta-lactamase TEM-1"
     gene            complement(4996..5418)
                     /locus_tag="KW559_RS27985"
                     /old_locus_tag="KW559_27960"
     CDS             complement(4996..5418)
                     /locus_tag="KW559_RS27985"
                     /old_locus_tag="KW559_27960"
                     /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_044816494.1"
                     /translation="MARVSISEAARLVKVSRPTIYKMINSGKLSYTSVVKHGKNTKVVD
                     TSELIRVFGSLYGGGDTVKHDVKGDAGATGVNISGLHDLQHKIALLEAENDGLKGAVKA
                     RDEHIDSLRQAMQLLEHKLEPSPQVHSPWWKFWKKS"
                     /name="helix-turn-helix domain-containing protein"
     gene            complement(5418..5552)
                     /locus_tag="KW559_RS27990"
                     /old_locus_tag="KW559_27965"
     CDS             complement(5418..5552)
                     /locus_tag="KW559_RS27990"
                     /old_locus_tag="KW559_27965"
                     /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_074442198.1"
                     /translation="MLLLEKLNELDLDVEADLCEKLHDDAEHLFRTLSSGLDELQDGN"
                     /name="Rop family plasmid primer RNA-binding protein"
     ARG             3944..4800
                     /name="blaTEM-1"
                     /gene="blaTEM-1"
                     /gene_name="broad-spectrum class A beta-lactamase TEM-1"
                     /tool="amrfinderplus"
                     /drug_class="BETA-LACTAM"
                     /identity="100.0"
                     /coverage="100.0"
ORIGIN
        1 ggggtctgac gctcagtgga acgaaaactc acgttaagca acgttttctg cctctgacgc
       61 ctcttttaat ggtctcagat gtcctttggt caccagttct gccagcgtga aggaataatg
      121 gccgagcata ttgatatgtc cgtggcaaag cggggagagg cgtgcgatat cttcatcatt
      181 cagtgtttca ccctgcgccc ggagatgatc cagggctgcc tgcatataaa tagtgttcca
      241 taacacgacg gcgttagtga ccagccccag tgtgcccagt tgatcttcct gaccgtcggt
      301 atatcgtttt cttatctcac ctttttgacc gtgacagatg gctctggcaa cggcatggcg
      361 actttctccc cgattaagct gggtcagaat gcgccggcgg taatcttcat catcaatata
      421 attaagcaga tacagcgttt tgttgatgcg ccccacttca atgattgcct gagtcagtcc
      481 ggaaggacgt tcacttttca gcaatgaacg gaccagcact gaaacctgta ctttgcccag
      541 cttcagggag ccagcggtcc ggatcatttc gtcccactga aggactattt ttcggggatc
      601 tgattgccct ctggcaatat cattcagcac gccatagtcg gcatcatggt ccattcgcca
      661 gaaaaccgaa gcaccggcat cagccaggcg tggagaaaac tggtatccca gcagccagaa
      721 aaggccaaag acaagttcgc tggcacctgc tgtatcggtc ataatttcgg ttggattcag
      781 cccggtctcc tgttccagaa gaccttccag cacaaagata gagtccctca gcgtccccgg
      841 tataacgatg ccatgaaagc cggaatactg atcggacaca aagttgtacc aggtgatccc
      901 tctgttatta ccaaagtatt tgcggttcgg tccggcattg attgttctga ctggcgtaac
      961 aaagcgcatt ccatctgcag atgccacttc tcctccaccc catatctgtg ccagtggcag
     1021 cgttgcctga aaatcaacca gtctggcatt agcgctggtg atagtttcag cccgcagata
     1081 gttcgctttt gtccagttca gccggtgtcg ggtcagtgca ggaacatttg atctgatcag
     1141 tggttccaga ccgatattgc aggcttcagc catcagcacg gcgctgatgc tgacgggcag
     1201 atcatcaact ctggcactgg cttcactagc atggaaaaac tcatcagcaa atccggtatg
     1261 ggcgttaatt tcgagcagca actccgttaa atccaccgga gggagtagat cactgatcat
     1321 tttgctcagt cgtttcagac tgtccggctc atcaagactg gcgaggggag aaattgtcaa
     1381 ccggggcttc gggccagaaa catcgagttc gacagcctca ttttcgcaaa gacgtgcagc
     1441 aacctgtctg taacgactat caagctgatg acccagagat tttattgctt cctgcgggtc
     1501 tgtcgggtgc cccaaagaac gataaacctt aatccggttt gcctgccagt cagcaccctg
     1561 tagtaatctt gcacgaggat ctccccaccg gttactgccg gtaacgtaga catccctccg
     1621 cctcagacta tcctgcagtt tactgagaaa gcagagcgtg tatcccctgc gggtgatatg
     1681 tttttccttg ttaatcacca gccgtttcca tgaccgactg ataatttccg ttggtgcgtc
     1741 gtcaaaaaac tgccgccgtg agctgaactc ccggctgagg tagtcacagg cattcagagt
     1801 ggtaaccccg gcaggtgcgg atgaaaattt aacggtattc agcagatggg gcaggaaacg
     1861 acgaacgcgc ccgtactgct ccaccatttc ttcatgaaaa ttatcgtctg agggccgggc
     1921 aatttcacgg acaagcgtga tgatttcagc cagcttttgc cttgggatgt agctgaacac
     1981 ctcagcacga atcgattcgt ccggtgtttc ttctttcagc aggtacgaac atgcgctggc
     2041 gagcgccaat gcagatttat ccagatcctt cagcgagcgg agccgttttt tctgcccaat
     2101 ctttctggcg tcacggatga taacggccag catggcgtcc agaacgtcca atgcatcatc
     2161 cagcgccagc gtttcccatg caaggacaaa ggcaaccaga accgccatcc ttttctgcgg
     2221 tgacatcctg gcaatattga acaccgaagt cataccagca taacgtgcga gatttttcag
     2281 gcgcacagcc gggagtgtac tcaggttttc agcatgcagg ccaaaatcgt tcagagtttt
     2341 ccagcgttca attgcttcat taaacgccgg accactgatg gtcacagggc cctttttcag
     2401 tgattccagt aaagacaggc ggctgcaatc agttggcccc agcagcatct ccagctgtga
     2461 acgctgttcg gctgacggta tcagtgccag tttgttccac aggcgcaacg tcgccttttc
     2521 ccttacctct gaaatcaacc gggtcagcgt agtggctccg gggagaataa tacgatgttg
     2581 cataagccac cctgtcgcca gatcgaaaag caggccagga cgttcgttgc ttatccagct
     2641 ccgggtatat aaaagacggg taaggcgaaa tgtccagggc caggcaaatt cacgatactg
     2701 atagtgctga cgtatcagcg ctgcatgctc acggcgggta ttttccctct gaccgtattc
     2761 tgcaagaacg gtgatatcac gaatcccgag ctgtctggcg gtaaaatgcc ggacgccgga
     2821 aggaatatga ttcatatcgg tgaggaaggt gcccagaaaa cggacacatc caatttgcag
     2881 ggcaatgccc agacggttgt gatcacctct gctttttccg ataaattcct tgtctgcttc
     2941 atcaaggtga aaatatcgtg ccagctgaag ctcatccggt tcaccggtga atctgccata
     3001 gctttcagtc tgctcagtgg tcagaaagtc aacgggcata tcggcctccc tgcctgacgg
     3061 gcatttagta acatttttcc aaccgtacga aatgttataa attatcggac atcgtaaaac
     3121 tgttacatta atatgtctat taaatcgtaa atttgtaata atagacatga gttgtccgat
     3181 attcgattta aggtacattt ttatgcgact ttttggttac gctcgggtct caaccagtca
     3241 gcagtctctt gatcttcagg tcagagcact caaagacgca ggtgtgaaag caaaccgtat
     3301 atttaccgat aaggcatccg gcagttcaac agaccgggaa gggctggatt tgctgaggat
     3361 gaaggtggag gaaggtgatg tcattctggt taagaagctc gaccgtcttg gccgcgacac
     3421 tgccgatatg atccaactga taaaggaatt tgacgctcag ggcgtggcag tccggttcat
     3481 tgatgacggg atcagtaccg acggtgatat ggggcaaatg gtggtcacca tcctgtcggc
     3541 tgtggcacag gctgaacgcc ggaggatcct agaacgcacg aatgagggcc gacaggaagc
     3601 aaagctgaaa ggaatcaaat ttggccgcag gcgtaccgtg gacaggaacg tcgtgctgac
     3661 gcttcatcag aagggcactg gtgcaacgga aattgctcat cagctcagta ttgcccgctc
     3721 cacggtttat aaaattcttg aagacgaaag ggcctcgtga tacgcctatt tttataggtt
     3781 aatgtcatga taataatggt ttcttagacg tcaggtggca cttttcgggg aaatgtgcgc
     3841 ggaaccccta tttgtttatt tttctaaata cattcaaata tgtatccgct catgagacaa
     3901 taaccctggt aaatgcttca ataatattga aaaaggaaga gtatgagtat tcaacatttt
     3961 cgtgtcgccc ttattccctt ttttgcggca ttttgccttc ctgtttttgc tcacccagaa
     4021 acgctggtga aagtaaaaga tgctgaagat cagttgggtg cacgagtggg ttacatcgaa
     4081 ctggatctca acagcggtaa gatccttgag agttttcgcc ccgaagaacg ttttccaatg
     4141 atgagcactt ttaaagttct gctatgtggt gcggtattat cccgtgttga cgccgggcaa
     4201 gagcaactcg gtcgccgcat acactattct cagaatgact tggttgagta ctcaccagtc
     4261 acagaaaagc atcttacgga tggcatgaca gtaagagaat tatgcagtgc tgccataacc
     4321 atgagtgata acactgctgc caacttactt ctgacaacga tcggaggacc gaaggagcta
     4381 accgcttttt tgcacaacat gggggatcat gtaactcgcc ttgatcgttg ggaaccggag
     4441 ctgaatgaag ccataccaaa cgacgagcgt gacaccacga tgcctgcagc aatggcaaca
     4501 acgttgcgca aactattaac tggcgaacta cttactctag cttcccggca acaattaata
     4561 gactggatgg aggcggataa agttgcagga ccacttctgc gctcggccct tccggctggc
     4621 tggtttattg ctgataaatc tggagccggt gagcgtgggt ctcgcggtat cattgcagca
     4681 ctggggccag atggtaagcc ctcccgtatc gtagttatct acacgacggg gagtcaggca
     4741 actatggatg aacgaaatag acagatcgct gagataggtg cctcactgat taagcattgg
     4801 taactgtcag accaagttta ctcatatata ctttagattg atttaaaact tcatttttaa
     4861 tttaaaagga tctaggtgaa gatccttttt gataatctca tgaccaaaat cccttaacgt
     4921 gagttttcgt tccactgagc gtcagacccc gaactccccg gaatggccgg agaggaaaac
     4981 tgaagcatga cggggtcagg atttcttcca gaatttccac cacggagaat gaacctgtgg
     5041 agagggttcg agcttgtgtt ccagaagctg catagcctgg cgaagagaat cgatatgttc
     5101 atcacgagct ttaacagccc ctttaagacc atcgttttca gcttcaagca aagcaatttt
     5161 atgctgtaaa tcatgtaaac cagagatgtt aacccctgta gcgcctgcgt caccttttac
     5221 atcatgtttt acagtgtcgc ccccaccata aagcgagcca aaaaccctaa taagctctga
     5281 tgtatcaaca actttagtat ttttcccatg ctttacaaca gaggtgtaac ttagtttccc
     5341 actgttaatc atcttgtaaa ttgtggggcg actaacctta acaagccgag ccgcttcact
     5401 aatagacact ctggccatca gtttccatcc tgtaattcat ccagtcccga agacagtgta
     5461 cggaaaagat gctccgcatc atcgtggagt ttctcacaaa ggtcggcctc tacatcaaga
     5521 tcaagctcgt taagcttctc cagcaggagc agagactgat t
//
