LOCUS       NZ_CP122476             2476 bp    DNA     circular CON 30-MAY-2024
DEFINITION  Klebsiella pneumoniae subsp. pneumoniae strain IITJ_BC16 plasmid
            pBC16UNK2, complete sequence.
ACCESSION   NZ_CP122476
VERSION     NZ_CP122476.1
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 2476)
  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  JOURNAL   Unpublished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 2476)
  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
            CP122476.1.
            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..2476
                     /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="pBC16UNK2"
                     /geo_loc_name="India: Jodhpur"
                     /collection_date="2021-02-02"
                     /collected_by="AIIMS Jodhpur"
                     /identified_by="Dr. Vibhor Tak"
     gene            complement(join(2367..2476,1..532))
                     /locus_tag="P9M40_RS29150"
                     /old_locus_tag="P9M40_29145"
     CDS             complement(join(2367..2476,1..532))
                     /locus_tag="P9M40_RS29150"
                     /old_locus_tag="P9M40_29145"
                     /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_094307618.1"
                     /translation="MRLKNWLIPLVAWIVIFMGLKLILGGGCNDGWGSSSIGRMGACSH
                     HGGVNHTPGFIAFFISTAIAAYLFFKIDEMDTRKIKNAHSIQASYFEMESTSAPFNPCY
                     SLRLSSKEINFTHSSSWDGDKTVINIPSSPEELKYILSLSEKIKKDIENFREENTTFGC
                     DGEFVSIKTFNGSQEMSFVTPMLFISFESISPATLEMMTYLRNRLGFYLH"
                     /name="hypothetical protein"
     gene            complement(529..1413)
                     /locus_tag="P9M40_RS29155"
                     /old_locus_tag="P9M40_29150"
     CDS             complement(529..1413)
                     /locus_tag="P9M40_RS29155"
                     /old_locus_tag="P9M40_29150"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001517860.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="replication initiation protein"
                     /protein_id="WP_094307619.1"
                     /translation="MRNAALELFNDRLPHKPYFSDDLHFGVRIAGKERAILAKYIQFNQ
                     PHAMFWLGFDVDRAGAAIDWSDRNAPAPTLTITNPENGHAHLLYALKTSIRTAPDGKMK
                     PLRYAAAVENALRKKLEADTGYSGLICKNPNHSHWKIAVWQPELYTLDWLADYLDLTTA
                     NDKEIVADYGLGRNCTLFDKTRRWAYRAIRQGWPEYDQWLQACYERASAYNLQFALPLD
                     ENEVMGIAKSIAKWTECNFSKDLFLEYVKNTHSSEIQSKRGKMSKGGGRKSLGEPWVEL
                     GVSRATYFRNRKK"
                     /name="replication initiation protein"
     gene            complement(1796..2032)
                     /locus_tag="P9M40_RS29160"
                     /old_locus_tag="P9M40_29155"
     CDS             complement(1796..2032)
                     /locus_tag="P9M40_RS29160"
                     /old_locus_tag="P9M40_29155"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001676031.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_096768690.1"
                     /translation="MNRLTNLTPAEKKFLDDAVAAAERASGKKLNQPNRHIVLNRARAQ
                     IESQRYADRQRALREGERQQSEFAWSRPRAPRS"
                     /name="hypothetical protein"
ORIGIN
        1 cttgggagcc attaaaagtt ttaatggaca caaactcccc gtcacatcca aaagtagtgt
       61 tttcttctct aaaattttca atgtcttttt ttattttctc tgataaagat agaatgtatt
      121 ttaactcctc gggggaggat gggatattaa taacagtctt gtcaccatcc caactagaac
      181 tgtgagtgaa attgatttcc tttgaactta accttaacga atagcaagga ttgaaaggag
      241 cgctagtaga ctccatttca aaataacttg cttgaatgct atgggcgttt tttattttcc
      301 ttgtatccat ttcatctatt ttaaaaaaaa gataggcggc aatggccgtg gaaatgaaaa
      361 aagcaatgaa gcctggggta tggttaacac cgccatgatg agagcaggcc cccatccttc
      421 ctattgagga cgaaccccat ccatcattgc acccgccacc taaaattaac ttcaacccca
      481 taaaaataac aatccatgca acaagtggga taagccagtt tttcaatctc attttttccg
      541 attcctaaag taagtagctc tacttacacc taattcaacc cacggttcgc caagagactt
      601 tctacctcca cctttactca ttttgcctct ttttgattgt atttctgaag aatgcgtatt
      661 ttttacgtat tccaaaaaca aatctttgct gaaattacac tcagtccatt tagcaatgct
      721 ttttgctatt cccataacct cattttcatc cagaggtaat gcaaactgca ggttgtaagc
      781 gctggcacgt tcatagcagg cttgcagcca ctggtcatat tcaggccagc cctgacgaat
      841 agctcggtat gcccatctgc gggttttatc gaacaaagtg cagttacggc ctaagccgta
      901 atcagcaacg atttctttat cgttcgcggt ggtcaagtcg agatagtcag ctagccagtc
      961 cagtgtgtac agttctggct gccacacggc aattttccaa tggctatggt tcgggttttt
     1021 gcagattagt cctgaataac ccgtatcggc ctctaatttt ttacgtagcg cgttctctac
     1081 agcggcggcg tagcgcagcg gcttcatttt tccgtctggc gcagtacgga tcgaagtttt
     1141 cagcgcatag agcaggtgcg cgtgtccgtt ttcgggattg gtgatggtca gcgtgggcgc
     1201 gggcgcgttg cggtcgctcc agtctatggc ggcaccggcg cgatcgacat cgaatcccag
     1261 ccagaacatg gcgtgaggct gattgaactg gatgtatttc gccaggatag ctcgctcttt
     1321 ccctgcgatg cgtacaccga agtgcagatc gtccgagaag tacggcttgt gcggtaagcg
     1381 gtcgttaaaa agttcgagtg cggcgttacg caatgtgccc tgcgcttatg gcgggctgtt
     1441 gtctggcacg gttcatgtgc taatatcctt tcaaggtttc gacctggccc tggttatcat
     1501 gcggatccgc caagattaga catgatgccg gggctttgtt ttttctggtc ctaacgttac
     1561 accgtctttc cccgtctgtc gatctcacca cgatttacca taacatccgt tgggcgcacc
     1621 ctctgaaagg ccctcagcgc cactctgtaa cgagttagcc atttccagca cctttccctg
     1681 gccataaccc tgaaaaacgc acctgatgat ttctgcgcga ctgcatggct atgcacgcgg
     1741 gtgaatggca gacgatttcg gagtgtcagc accactaaac cgccaaaagg cgcaatcagc
     1801 tgcgcggcgc gcgcggacgt gaccaggcaa actcggactg ctgccgctca ccctcacgta
     1861 atgcacgctg gcggtcggcg taacgctgcg actcaatctg cgcacgcgct ctgttcagga
     1921 cgatatgccg gttcggctga tttagctttt tgcctgacgc tctctcagct gcggcaacag
     1981 catcatcaag aaattttttc tctgcaggtg tcaggtttgt cagtctgttc atagcattct
     2041 cccgccagaa taactccgca cagtctgcca gacacagcag aaccgatgaa gcgctggcgg
     2101 tgctgaaaga cagccagaaa cggtgaacgg gagcggattt taatccggtg acgtgagacg
     2161 ttgggcaagc cgcaggcgcg acagtgcttt tcagcgggtt tcggggcgca gccctgaacc
     2221 agtcacgcag cgctagcgga gtgtatactg gctgaagata ggtgcagtat gtcagattct
     2281 atgctggctg caaaaaaaca gccctctgct agagagggct gttatctgat ataggttgtt
     2341 tagtctcact aaagctaaga tgaccttcaa tgaaggtaaa aacctaacct attccttagg
     2401 taagtcatca tttcaagcgt tgcgggagat atactttcaa agctaatgaa tagcattggg
     2461 gtaacaaagc tcatct
//
