LOCUS       NZ_CP122468             1780 bp    DNA     circular CON 30-MAY-2024
DEFINITION  Klebsiella pneumoniae subsp. pneumoniae strain IITJ_U23 plasmid
            pU23_ColpVC, complete sequence.
ACCESSION   NZ_CP122468
VERSION     NZ_CP122468.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN34035886
            Assembly: GCF_029834625.1
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  JOURNAL   Unpublished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_KpnU23v1
            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_029834625.1-RS_2024_05_30
            Annotation Date                   :: 05/30/2024 05:01:51
            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)                     :: 5,816
            CDSs (total)                      :: 5,681
            Genes (coding)                    :: 5,520
            CDSs (with protein)               :: 5,520
            Genes (RNA)                       :: 135
            rRNAs                             :: 9, 8, 8 (5S, 16S, 23S)
            complete rRNAs                    :: 9, 8, 8 (5S, 16S, 23S)
            tRNAs                             :: 95
            ncRNAs                            :: 15
            Pseudo Genes (total)              :: 161
            CDSs (without protein)            :: 161
            Pseudo Genes (ambiguous residues) :: 0 of 161
            Pseudo Genes (frameshifted)       :: 70 of 161
            Pseudo Genes (incomplete)         :: 90 of 161
            Pseudo Genes (internal stop)      :: 17 of 161
            Pseudo Genes (multiple problems)  :: 15 of 161
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP122468.1.
            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_U23"
                     /isolation_source="Urine of ICU admitted patient"
                     /host="Homo sapiens"
                     /sub_species="pneumoniae"
                     /db_xref="taxon:72407"
                     /plasmid="pU23_ColpVC"
                     /geo_loc_name="India: Jodhpur"
                     /collection_date="2020-08-02"
                     /collected_by="AIIMS Jodhpur"
                     /identified_by="Prof. Vijaya Lakshmi Nag"
     gene            315..1304
                     /locus_tag="P9M41_RS29040"
                     /old_locus_tag="P9M41_29040"
     CDS             315..1304
                     /locus_tag="P9M41_RS29040"
                     /old_locus_tag="P9M41_29040"
                     /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          complement(1031..1222)
                     /name="ColpVC"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="97.409"
                     /coverage="100.0"
                     /evalue="6.18e-88"
ORIGIN
        1 ttctggcggg gcggatgtac ggggaaatta ggtggaaaat tcgcgcgcgt tccttgtatt
       61 tatacttaag ggataactct gggattggaa ttcggcctca gcccttgtgc ggcaaggcct
      121 gagaggtgat ttgcttggaa atgggtttgg aagtactctg tttggagtgg tcgcgttaaa
      181 agcgaccccc gcaacgaggg caatcgttcg ggggcgtgac cacctgtagg aattctattt
      241 tgcgacagac aacacaggtg atacggcaat gataacacgt caaatgagcc atcgcccagt
      301 atggggcggt gtgcatgcaa aatcctaaac tccagaacct cacggattat tcccccgcag
      361 atgcgccctg ggacgctcac agaagcgttt ctgacgacgt tggagggatt tacctgcttg
      421 cggctgaata tgagcgctac ggggcgcgta tggcctcctg tggcggtttg ctgcggttcg
      481 ggtggtctac cctcaaagaa accggagaaa cgcgcctgag gctgcgtgag gcgcatttct
      541 gccgtgtccg gcactgtcct gtctgccagt ggaggcgctc cctgatgtgg caagcccgtt
      601 tctaccagtc cctgccgcgt atcgtggcgg attatcccga tgcccgctgg atgttcctga
      661 ccctgactgt gcgtaactgt gcgatcgggg agctgggcga gacgctgaac cggatgaacg
      721 caggtttcca gcgactgaag gatcgcaagg agttcagtcc agtgcagggc tggatacgta
      781 ccacggaagt cacccgcggg agcgacggca gcgcacaccc gcactttcac accctgatga
      841 tggtgccgcc atcgatgttg tctgggcgtg attacatcaa gcatgagcgc tgggttgatc
      901 tgtggcgtgg gtgtcttcgg gtggattacg atccgaatgt cgatgtccgg gcagtaaaac
      961 cccggaagcc gaaggacggc gaatcgctgg cctgcgcgac cgccgaactg gtgcgcggcg
     1021 cagtggccga aaccctgaaa tattccacaa agccggctga catggtggcc gatcctgaat
     1081 ggttcctcga actgacccgc cagacgcaca agcgccgatt tgtggcgacc ggcggcgcac
     1141 tcaaagacgt actgaagctc gatcaggaaa ccgacgcaga catggtgatc ggggatgata
     1201 tttccgaggg cgacgatgac ggttcccgca tcgcgtttga gtggaaaact gaggtcagaa
     1261 agtaccgtcg ctcaccgacg aaagataaaa ccgaatcaga gtaacggggt gtcggggctg
     1321 cgccctgacc atgaggactt tgggcatccg tcaccttggt ggcggtgtac caaagtcaca
     1381 tcttgtccga ttgattttac tccgatgcag gatagggcta ccgccgcaaa gtgacgccaa
     1441 tcgcttactg agttcggaat ccgaacttag ggttttgcga tccgtaatac ggattttttt
     1501 aacgggacaa gatgtgtttt tggagtaccg ccatcacgat gccggtacca aaaacgatcc
     1561 gtcagggctg cgccccgaca ccctgccaac acctcacgcc gccagattga aatctgtcag
     1621 cgttcgccgt tactggaatc gtcaaacgct aaatcgtggg gtcccgctgg cttgccagtg
     1681 ggttccgatt tagtgattga cgactgcacc cataaaacac tgccggcagg tggttgtgat
     1741 cacgcagtga gcgcaaccac ctgataagcg tttttgggtt
//
