LOCUS       NZ_CP084050             3161 bp    DNA     circular CON 10-JAN-2024
DEFINITION  Klebsiella pneumoniae subsp. pneumoniae strain WRC12_S471M plasmid
            pWRC12_P6, complete sequence.
ACCESSION   NZ_CP084050
VERSION     NZ_CP084050.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN20114092
            Assembly: GCF_020215625.1
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 3161)
  AUTHORS   Balaji,V., Snehal,P., Yamuna,B.D. and Monisha,P.
  TITLE     Carbapenem resistant Klebsiella pneumoniae_WRC12_S471M
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 3161)
  AUTHORS   Balaji,V., Snehal,P., Yamuna,B.D. and Monisha,P.
  TITLE     Direct Submission
  JOURNAL   Submitted (23-SEP-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
            Assembly Name                     :: WRC12_S471M
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 126.43x
            Sequencing Technology             :: Illumina MiSeq
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 01/10/2024 04:06:51
            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)                     :: 5,426
            CDSs (total)                      :: 5,304
            Genes (coding)                    :: 5,149
            CDSs (with protein)               :: 5,149
            Genes (RNA)                       :: 122
            rRNAs                             :: 9, 8, 8 (5S, 16S, 23S)
            complete rRNAs                    :: 9, 8, 8 (5S, 16S, 23S)
            tRNAs                             :: 84
            ncRNAs                            :: 13
            Pseudo Genes (total)              :: 155
            CDSs (without protein)            :: 155
            Pseudo Genes (ambiguous residues) :: 0 of 155
            Pseudo Genes (frameshifted)       :: 66 of 155
            Pseudo Genes (incomplete)         :: 90 of 155
            Pseudo Genes (internal stop)      :: 20 of 155
            Pseudo Genes (multiple problems)  :: 19 of 155
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP084050.1.
            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..3161
                     /organism="Klebsiella pneumoniae subsp. pneumoniae"
                     /mol_type="genomic DNA"
                     /strain="WRC12_S471M"
                     /isolation_source="urine"
                     /host="Homo sapiens"
                     /sub_species="pneumoniae"
                     /db_xref="taxon:72407"
                     /plasmid="pWRC12_P6"
                     /geo_loc_name="India"
                     /lat_lon="12.9165 N 79.1325 E"
                     /collection_date="2014"
                     /collected_by="Christian medical college"
     gene            6..503
                     /gene="dfrA12"
                     /locus_tag="KWJ12_RS27035"
                     /old_locus_tag="KWJ12_27035"
     ARG             7..500
                     /name="dfrA12"
                     /gene="dfrA12"
                     /gene_name="trimethoprim-resistant dihydrofolate reductase
                     DfrA12"
                     /tool="amrfinderplus"
                     /drug_class="TRIMETHOPRIM"
                     /identity="100.0"
                     /coverage="100.0"
     gene            615..905
                     /locus_tag="KWJ12_RS27040"
                     /old_locus_tag="KWJ12_27040"
     CDS             615..905
                     /locus_tag="KWJ12_RS27040"
                     /old_locus_tag="KWJ12_27040"
                     /inference="COORDINATES: protein motif:HMM:NF017990.4"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="DUF1010 domain-containing protein"
                     /protein_id="WP_001336345.1"
                     /translation="MFIQTAFSFSGVIQCLFCLFSGLRLHGLRRFSVFLASSPCVASAS
                     SYRFCSAVPPRWRSVFSRLAPVAKFKLSVLASGSNISVKPTRILRSAYLAR"
                     /name="DUF1010 domain-containing protein"
     gene            911..1749
                     /locus_tag="KWJ12_RS27045"
                     /old_locus_tag="KWJ12_27045"
                     /pseudo=""
     CDS             911..1749
                     /locus_tag="KWJ12_RS27045"
                     /old_locus_tag="KWJ12_27045"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001749984.1"
                     /note="frameshifted; Derived by automated computational
                     analysis using gene prediction method: Protein Homology."
                     /pseudo=""
                     /codon_start=1
                     /transl_table=11
                     /product="AadA family aminoglycoside
                     3''-O-nucleotidyltransferase"
                     /name="AadA family aminoglycoside
                     3''-O-nucleotidyltransferase"
     gene            1866..2213
                     /locus_tag="KWJ12_RS27050"
                     /old_locus_tag="KWJ12_27050"
     CDS             1866..2213
                     /locus_tag="KWJ12_RS27050"
                     /old_locus_tag="KWJ12_27050"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000679427.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="quaternary ammonium compound efflux SMR
                     transporter QacE delta 1"
                     /protein_id="WP_000679427.1"
                     /translation="MKGWLFLVIAIVGEVIATSALKSSEGFTKLAPSAVVIIGYGIAFY
                     FLSLVLKSIPVGVAYAVWSGLGVVIITAIAWLLHGQKLDAWGFVGMGLIIAAFLLARSP
                     SWKSLRRPTPW"
                     /name="quaternary ammonium compound efflux SMR transporter
                     QacE delta 1"
     gene            2207..3046
                     /gene="sul1"
                     /locus_tag="KWJ12_RS27055"
                     /old_locus_tag="KWJ12_27055"
     ARG             2208..3043
                     /name="sul1"
                     /gene="sul1"
                     /gene_name="sulfonamide-resistant dihydropteroate synthase
                     Sul1"
                     /tool="amrfinderplus"
                     /drug_class="SULFONAMIDE"
                     /identity="100.0"
                     /coverage="100.0"
     ARG             1867..2210
                     /name="qacEdelta1"
                     /gene="qacEdelta1"
                     /gene_name="quaternary ammonium compound efflux SMR
                     transporter QacE delta 1"
                     /tool="amrfinderplus"
                     /drug_class="QUATERNARY AMMONIUM"
                     /identity="100.0"
                     /coverage="100.0"
     ARG             912..1699
                     /name="aadA2"
                     /gene="aadA2"
                     /gene_name="ANT(3'')-Ia family aminoglycoside
                     nucleotidyltransferase AadA2"
                     /tool="amrfinderplus"
                     /drug_class="AMINOGLYCOSIDE"
                     /identity="100.0"
                     /coverage="100.0"
     ARG             924..1702
                     /name="aadA2"
                     /gene="aadA2"
                     /gene_name="ANT(3'')"
                     /tool="rgi"
                     /drug_class="aminoglycoside antibiotic"
                     /identity="100.0"
                     /coverage="100.0"
ORIGIN
        1 gccatatgaa ctcggaatca gtacgcattt atctcgttgc tgcgatggga gccaatcggg
       61 ttattggcaa tggtcctaat atcccctgga aaattccggg tgagcagaag atttttcgca
      121 gactcactga gggaaaagtc gttgtcatgg ggcgaaagac ctttgagtct atcggcaagc
      181 ctctaccgaa ccgtcacaca ttggtaatct cacgccaagc taactaccgc gccactggct
      241 gcgtagttgt ttcaacgctg tcgcacgcta tcgctttggc atccgaactc ggcaatgaac
      301 tctacgtcgc gggcggagct gagatataca ctctggcact acctcacgcc cacggcgtgt
      361 ttctatctga ggtacatcaa accttcgagg gtgacgcctt cttcccaatg ctcaacgaaa
      421 cagaattcga gcttgtctca accgaaacca ttcaagctgt aattccgtac acccactccg
      481 tttatgcgcg tcgaaacggc taaccattcc gtcaacggga cgccaaaatg ctgcgcattt
      541 tggttccctc cgctgcgctc cggctctcgt tacgtccaac gttagcacca ctgaaaccca
      601 gctttattta gctcatgttt attcaaacgg catttagctt ttcaggcgtt attcagtgcc
      661 tgttttgcct tttttccggg cttcgcctgc atgggctgcg caggttttca gtctttttgg
      721 cctctagccc ttgcgtagca agcgcaagca gctatcgttt ttgcagtgct gtgccgcctc
      781 ggtggcgcag cgttttttca cggttagcgc ccgtcgccaa attcaagtta tccgttttgg
      841 cttctggttc taacatttcg gtcaagccga cccgcattct gcggtcggct tacctcgccc
      901 gttagacatc atgagggaag cggtgaccat cgaaatttcg aaccaactat cagaggtgct
      961 aagcgtcatt gagcgccatc tggaatcaac gttgctggcc gtgcatttgt acggctccgc
     1021 agtggatggc ggcctgaagc catacagcga tattgatttg ttggttactg tggccgtaaa
     1081 gcttgatgaa acgacgcggc gagcattgct caatgatctt atggaggctt cggctttccc
     1141 tggcgagagc gagacgctcc gcgctataga agtcaccctt gtcgtgcatg acgacatcat
     1201 cccgtggcgt tatccggcta agcgcgagct gcaatttgga gaatggcagc gcaatgacat
     1261 tcttgcgggt atcttcgagc cagccatgat cgacattgat ctagctatcc tgcttacaaa
     1321 agcaagagaa catagcgttg ccttggtagg tccggcagcg gaggaattct ttgacccggt
     1381 tcctgaacag gatctattcg aggcgctgag ggaaaccttg aagctatgga actcgcagcc
     1441 cgactgggcc ggcgatgagc gaaatgtagt gcttacgttg tcccgcattt ggtacagcgc
     1501 aataaccggc aaaatcgcgc cgaaggatgt cgctgccgac tgggcaataa aacgcctacc
     1561 tgcccagtat cagcccgtct tacttgaagc taagcaagct tatctgggac aaaaagaaga
     1621 tcacttggcc tcacgcgcag atcacttgga agaatttatt cgctttgtga aaggcgagat
     1681 catcaagtca gttggtaaat gatgtctaac aattcgttca agccgaccgc gctacgcgcg
     1741 gcggcttaac tccggcgtta gatgcactaa gcacataatt gctcacagcc aaactatcag
     1801 gtcaagtctg cttttattat ttttaagcgt gcataataag ccctacacaa attgggagat
     1861 atatcatgaa aggctggctt tttcttgtta tcgcaatagt tggcgaagta atcgcaacat
     1921 ccgcattaaa atctagcgag ggctttacta agcttgcccc ttccgccgtt gtcataatcg
     1981 gttatggcat cgcattttat tttctttctc tggttctgaa atccatccct gtcggtgttg
     2041 cttatgcagt ctggtcggga ctcggcgtcg tcataattac agccattgcc tggttgcttc
     2101 atgggcaaaa gcttgatgcg tggggctttg taggtatggg gctcataatt gctgcctttt
     2161 tgctcgcccg atccccatcg tggaagtcgc tgcggaggcc gacgccatgg tgacggtgtt
     2221 cggcattctg aatctcaccg aggactcctt cttcgatgag agccggcggc tagaccccgc
     2281 cggcgctgtc accgcggcga tcgaaatgct gcgagtcgga tcagacgtcg tggatgtcgg
     2341 accggccgcc agccatccgg acgcgaggcc tgtatcgccg gccgatgaga tcagacgtat
     2401 tgcgccgctc ttagacgccc tgtccgatca gatgcaccgt gtttcaatcg acagcttcca
     2461 accggaaacc cagcgctatg cgctcaagcg cggcgtgggc tacctgaacg atatccaagg
     2521 atttcctgac cctgcgctct atcccgatat tgctgaggcg gactgcaggc tggtggttat
     2581 gcactcagcg cagcgggatg gcatcgccac ccgcaccggt caccttcgac ccgaagacgc
     2641 gctcgacgag attgtgcggt tcttcgaggc gcgggtttcc gccttgcgac ggagcggggt
     2701 cgctgccgac cggctcatcc tcgatccggg gatgggattt ttcttgagcc ccgcaccgga
     2761 aacatcgctg cacgtgctgt cgaaccttca aaagctgaag tcggcgttgg ggcttccgct
     2821 attggtctcg gtgtcgcgga aatccttctt gggcgccacc gttggccttc ctgtaaagga
     2881 tctgggtcca gcgagccttg cggcggaact tcacgcgatc ggcaatggcg ctgactacgt
     2941 ccgcacccac gcgcctggag atctgcgaag cgcaatcacc ttctcggaaa ccctcgcgaa
     3001 atttcgcagt cgcgacgcca gagaccgagg gttagatcat gcctagcatt caccttccgg
     3061 ccgcccgcta gcggaccctg gtcaggttcc gcgaaggtgg gcgcagacat gctgggctcg
     3121 tcaggatcaa actgcactat gaggcggcgg ttcataccgc g
//
