LOCUS       NZ_CP122477             1780 bp    DNA     circular CON 30-MAY-2024
DEFINITION  Klebsiella pneumoniae subsp. pneumoniae strain IITJ_BC16 plasmid
            pBC16_ColpVC, complete sequence.
ACCESSION   NZ_CP122477
VERSION     NZ_CP122477.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN34035887
            Assembly: GCF_029834605.1
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 1780)
  AUTHORS   Chakrabortty,A., Kapoor,A., Khochare,S., Dey,T., Arora,L., Tak,V.,
            Nag,V.L., Sivashanmugam,K. and Shankar,M.
  TITLE     Genome sequence of two ST16 strains causing ICU-acquired infections
            in Jodhpur India
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 1780)
  AUTHORS   Chakrabortty,A., Kapoor,A., Khochare,S., Dey,T., Arora,L., Tak,V.,
            Nag,V.L., Sivashanmugam,K. and Shankar,M.
  TITLE     Direct Submission
  JOURNAL   Submitted (04-APR-2023) Department of Bioscience & Bioengineering,
            Indian Institute of Technology Jodhpur, NH65, Nagaur Road, Karwar,
            Jodhpur, Rajasthan 342030, India
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: Unicycler v. 0.5.0
            Assembly Name                     :: IITJ_GMPL_KpnBC16v1
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 166x
            Sequencing Technology :: Illumina NovaSeq and Oxford Nanopore MinION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_029834605.1-RS_2024_05_30
            Annotation Date                   :: 05/30/2024 05:12:59
            Annotation Pipeline :: NCBI Prokaryotic Genome Annotation Pipeline
            (PGAP)
            Annotation Method :: Best-placed reference protein set; GeneMarkS-2+
            Annotation Software revision      :: 6.7
            Features Annotated                :: Gene; CDS; rRNA; tRNA; ncRNA
            Genes (total)                     :: 5,842
            CDSs (total)                      :: 5,710
            Genes (coding)                    :: 5,540
            CDSs (with protein)               :: 5,540
            Genes (RNA)                       :: 132
            rRNAs                             :: 9, 8, 8 (5S, 16S, 23S)
            complete rRNAs                    :: 9, 8, 8 (5S, 16S, 23S)
            tRNAs                             :: 95
            ncRNAs                            :: 12
            Pseudo Genes (total)              :: 170
            CDSs (without protein)            :: 170
            Pseudo Genes (ambiguous residues) :: 0 of 170
            Pseudo Genes (frameshifted)       :: 77 of 170
            Pseudo Genes (incomplete)         :: 97 of 170
            Pseudo Genes (internal stop)      :: 19 of 170
            Pseudo Genes (multiple problems)  :: 21 of 170
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP122477.1.
            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..1780
                     /organism="Klebsiella pneumoniae subsp. pneumoniae"
                     /mol_type="genomic DNA"
                     /strain="IITJ_BC16"
                     /isolation_source="Blood of ICU admitted patient"
                     /host="Homo sapiens"
                     /sub_species="pneumoniae"
                     /db_xref="taxon:72407"
                     /plasmid="pBC16_ColpVC"
                     /geo_loc_name="India: Jodhpur"
                     /collection_date="2021-02-02"
                     /collected_by="AIIMS Jodhpur"
                     /identified_by="Dr. Vibhor Tak"
     gene            complement(471..1460)
                     /locus_tag="P9M40_RS29165"
                     /old_locus_tag="P9M40_29160"
     CDS             complement(471..1460)
                     /locus_tag="P9M40_RS29165"
                     /old_locus_tag="P9M40_29160"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001529700.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="protein rep"
                     /protein_id="WP_032219167.1"
                     /translation="MQNPKLQNLTDYSPADAPWDAHRSVSDDVGGIYLLAAEYERYGAR
                     MASCGGLLRFGWSTLKETGETRLRLREAHFCRVRHCPVCQWRRSLMWQARFYQSLPRIV
                     ADYPDARWMFLTLTVRNCAIGELGETLNRMNAGFQRLKDRKEFSPVQGWIRTTEVTRGS
                     DGSAHPHFHTLMMVPPSMLSGRDYIKHERWVDLWRGCLRVDYDPNVDVRAVKPRKPKDG
                     ESLACATAELVRGAVAETLKYSTKPADMVADPEWFLELTRQTHKRRFVATGGALKDVLK
                     LDQETDADMVIGDDISEGDDDGSRIAFEWKTEVRKYRRSPTKDKTESE"
                     /name="protein rep"
     Typing          554..745
                     /name="ColpVC"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="97.409"
                     /coverage="100.0"
                     /evalue="6.18e-88"
ORIGIN
        1 aaaacgctta tcaggtggtt gcgctcactg cgtgatcaca accacctgcc ggcagtgttt
       61 tatgggtgca gtcgtcaatc actaaatcgg aacccactgg caagccagcg ggaccccacg
      121 atttagcgtt tgacgattcc agtaacggcg aacgctgaca gatttcaatc tggcggcgtg
      181 aggtgttggc agggtgtcgg ggcgcagccc tgacggatcg tttttggtac cggcatcgtg
      241 atggcggtac tccaaaaaca catcttgtcc cgttaaaaaa atccgtatta cggatcgcaa
      301 aaccctaagt tcggattccg aactcagtaa gcgattggcg tcactttgcg gcggtagccc
      361 tatcctgcat cggagtaaaa tcaatcggac aagatgtgac tttggtacac cgccaccaag
      421 gtgacggatg cccaaagtcc tcatggtcag ggcgcagccc cgacaccccg ttactctgat
      481 tcggttttat ctttcgtcgg tgagcgacgg tactttctga cctcagtttt ccactcaaac
      541 gcgatgcggg aaccgtcatc gtcgccctcg gaaatatcat ccccgatcac catgtctgcg
      601 tcggtttcct gatcgagctt cagtacgtct ttgagtgcgc cgccggtcgc cacaaatcgg
      661 cgcttgtgcg tctggcgggt cagttcgagg aaccattcag gatcggccac catgtcagcc
      721 ggctttgtgg aatatttcag ggtttcggcc actgcgccgc gcaccagttc ggcggtcgcg
      781 caggccagcg attcgccgtc cttcggcttc cggggtttta ctgcccggac atcgacattc
      841 ggatcgtaat ccacccgaag acacccacgc cacagatcaa cccagcgctc atgcttgatg
      901 taatcacgcc cagacaacat cgatggcggc accatcatca gggtgtgaaa gtgcgggtgt
      961 gcgctgccgt cgctcccgcg ggtgacttcc gtggtacgta tccagccctg cactggactg
     1021 aactccttgc gatccttcag tcgctggaaa cctgcgttca tccggttcag cgtctcgccc
     1081 agctccccga tcgcacagtt acgcacagtc agggtcagga acatccagcg ggcatcggga
     1141 taatccgcca cgatacgcgg cagggactgg tagaaacggg cttgccacat cagggagcgc
     1201 ctccactggc agacaggaca gtgccggaca cggcagaaat gcgcctcacg cagcctcagg
     1261 cgcgtttctc cggtttcttt gagggtagac cacccgaacc gcagcaaacc gccacaggag
     1321 gccatacgcg ccccgtagcg ctcatattca gccgcaagca ggtaaatccc tccaacgtcg
     1381 tcagaaacgc ttctgtgagc gtcccagggc gcatctgcgg gggaataatc cgtgaggttc
     1441 tggagtttag gattttgcat gcacaccgcc ccatactggg cgatggctca tttgacgtgt
     1501 tatcattgcc gtatcacctg tgttgtctgt cgcaaaatag aattcctaca ggtggtcacg
     1561 cccccgaacg attgccctcg ttgcgggggt cgcttttaac gcgaccactc caaacagagt
     1621 acttccaaac ccatttccaa gcaaatcacc tctcaggcct tgccgcacaa gggctgaggc
     1681 cgaattccaa tcccagagtt atcccttaag tataaataca aggaacgcgc gcgaattttc
     1741 cacctaattt ccccgtacat ccgccccgcc agaaaaccca
//
