LOCUS       NZ_CP122475             4018 bp    DNA     circular CON 30-MAY-2024
DEFINITION  Klebsiella pneumoniae subsp. pneumoniae strain IITJ_BC16 plasmid
            pBC16UNK1, complete sequence.
ACCESSION   NZ_CP122475
VERSION     NZ_CP122475.1
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 4018)
  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  JOURNAL   Unpublished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 4018)
  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
            CP122475.1.
            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..4018
                     /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="pBC16UNK1"
                     /geo_loc_name="India: Jodhpur"
                     /collection_date="2021-02-02"
                     /collected_by="AIIMS Jodhpur"
                     /identified_by="Dr. Vibhor Tak"
     gene            complement(join(3178..4018,1..656))
                     /locus_tag="P9M40_RS29130"
                     /old_locus_tag="P9M40_29125"
     CDS             complement(join(3178..4018,1..656))
                     /locus_tag="P9M40_RS29130"
                     /old_locus_tag="P9M40_29125"
                     /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="relaxase/mobilization nuclease domain-containing
                     protein"
                     /protein_id="WP_279751858.1"
                     /translation="MIVKFHPRGRGGGGGPVDYLLGKDRQRDGASVLQGKPEEVRELTD
                     ASPYAKKYTSGVLSFAEQDLPPGQREKLMASFERVLMPGLDKDQYSVLWVEHRDKGRLE
                     LNFLIPNTELLTGRRLQPYYDRADRPRIDAWQTIVNGRLGLHDPNAPENRRALVTPSAL
                     PEAKQEAAQAITRGLLSLASSGELKTRQDVTEALESAGFEVVRTTKSSISIADPDGGRN
                     IRLKGAIYEQSFNAGEGLRAEIESAAADYRRDAESRIQRAREVCQSGTERKREENQRRH
                     PRPRPEAVLSHEPTHERDAAYDQPDVADHSPGLRATDRLERGHSVVAGATDTRQLHDHP
                     GTEEHAGHAFREEQRRPAHDLRGGETPLREGEPGSGKIRRGFELDDTGGEIAHDGTGKT
                     VAERIRAATAGLLEKAGRVGERLRGMADDVWAYATGERGAERARHGLEQAGAEFERSAA
                     PIVARLNGIEAHREQERAAQHQKALELERSQRQKGFELGM"
                     /name="relaxase/mobilization nuclease domain-containing
                     protein"
     gene            complement(646..969)
                     /locus_tag="P9M40_RS29135"
                     /old_locus_tag="P9M40_29130"
     CDS             complement(646..969)
                     /locus_tag="P9M40_RS29135"
                     /old_locus_tag="P9M40_29130"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000957083.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MobC family plasmid mobilization relaxosome
                     protein"
                     /protein_id="WP_024191642.1"
                     /translation="MLTMWVTEDEHRRLLERCEGKQLAAWMRQICLDEKPSRAGKLPSI
                     SPALLRQLAGMGNNLNQIARQVNAGGGTGHDRVQVVAVLMAIDAGLERLRHAVLEKGAD
                     DDR"
                     /name="MobC family plasmid mobilization relaxosome protein"
     gene            1617..1730
                     /locus_tag="P9M40_RS29250"
     CDS             1617..1730
                     /locus_tag="P9M40_RS29250"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_007772075.1"
                     /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_072035093.1"
                     /translation="MHEPPVQSDRCALSGNYRLESNPERHDKTPLAAATGN"
                     /name="replication initiation protein"
     gene            complement(2159..2371)
                     /locus_tag="P9M40_RS29140"
                     /old_locus_tag="P9M40_29135"
     CDS             complement(2159..2371)
                     /locus_tag="P9M40_RS29140"
                     /old_locus_tag="P9M40_29135"
                     /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_034169353.1"
                     /translation="MGDFERTFGAGADFDRIIDENNSEYFREDRRKTKNSKKKFSSFQD
                     ALVWAKANPGKTIIRSPDGVGFIEK"
                     /name="hypothetical protein"
     gene            complement(2626..3153)
                     /locus_tag="P9M40_RS29145"
                     /old_locus_tag="P9M40_29140"
     CDS             complement(2626..3153)
                     /locus_tag="P9M40_RS29145"
                     /old_locus_tag="P9M40_29140"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_004883515.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_016246513.1"
                     /translation="MKCFWACSVSVVLAMSFTVAAAENNDNVTYTKPSAGRDLYLTCKG
                     YQVKGASVINVEKPSYLEGTGEQVEFAIITPVGASDGLKVFFDSWGFSSFGLIESHVMH
                     EHWSLVHVGGRASVKGEKIDYSFVDNQPQEGGSYKPKTGVFLYGCMNSDKRPSWVEKIY
                     TRTGVFRGGIED"
                     /name="hypothetical protein"
     Typing          complement(1083..1260)
                     /name="MOB_unknown"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="87.222"
                     /coverage="83.0"
                     /evalue="4.5e-50"
     Typing          1207..1730
                     /name="ColRNAI_rep_cluster_1987"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="89.434"
                     /coverage="99.0"
                     /evalue="0.0"
     Typing          complement(4..677)
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="95.111"
                     /coverage="99.0"
                     /evalue="4.8200000000000006e-144"
     Typing          complement(3191..4017)
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="88.406"
                     /coverage="99.0"
                     /evalue="6.870000000000001e-156"
ORIGIN
        1 ccgtcagggt cggcaatgct gatgctgctt ttcgtggtgc gcaccacctc aaaacccgca
       61 ctttccagcg cctcagtgac gtcctgacgg gttttcagct ccccggatga ggcaagggaa
      121 agtaggccgc gcgtaatcgc ctgggcggct tcctgcttcg cttccggcag cgcggacggt
      181 gtaaccagcg cccgccggtt ttccggcgcg ttcgggtcgt gcagccccag tctgccgttc
      241 actatggtct gccaggcatc aatgcgcgga cggtcggcgc ggtcgtaata cggctggaga
      301 cgtctgccgg tcagcagctc cgtgttcggg atcaggaagt tcagctccag ccgccctttg
      361 tcccggtgct caacccacag tacgctgtac tggtctttat cgagtccggg catcagaacc
      421 cgctcaaagc tcgccatcag cttttcacgc tggccgggcg gcaaatcctg ttcggcaaaa
      481 gacagcacgc cggaggtgta tttcttggcg taaggcgagg cgtcagtaag ctcccgcact
      541 tcctccggct taccctgcag aacgctggcg ccgtcgcgct gccggtcttt ccccagcaga
      601 taatccaccg gaccgccgcc accgccgcgg cctctgggat gaaacttaac gatcatcgtc
      661 tgcccccttt tccagcacgg cgtgccgcag ccgctcgagt ccggcatcaa tggccatcag
      721 cacggcgaca acctgcacgc gatcgtgccc agtaccgcca ccggcgttaa cctgccgggc
      781 aatctggttg aggttgttac ccatgccggc aagctgacga agcagcgccg gcgagatgga
      841 tggaagtttg ccagcacgcg agggcttttc gtccaggcat atctggcgca tccaggccgc
      901 gagttgttta ccctcacagc gctccagaag tcggcggtgc tcgtcttctg tcacccacat
      961 agtgagcatt ttgttgcgct tttctgccaa accatcctcc ggataacacc ggttcgggcg
     1021 ggaaattttt tcctgtccgg agcggtgttg ggcaagcccg cagggcgcgg cagtactttt
     1081 cagcgggttt cggggcgcag ccctgaacca gtcacgtagc gctagcggag tgtatactgg
     1141 cttaacatgg taaatcggag tggggattca ggaaagtgct tcatgtggca gggagaaaat
     1201 gctgctgtgg ggcgtaagtg cgaaatgcag atcccggtga aatgacgcct cctcgctcac
     1261 tcggtcgctg cgctcctgcc gtgagactgc ggcgggcgtt gccagcttac gaatggctgg
     1321 ataaagagac taagcggaaa tcaatcagaa agggcggaaa aaggatgcgg cgttgccgtt
     1381 tttccatagg ctccgccccc ctgacaagca tcacgaaatc tgacgctcaa atcagtggtg
     1441 gcgaaacccg acaggactat aaagatccca ggcgtttccc cctggtagct ccctcgtgcg
     1501 ctctcctgtt cctgcctttc ggtttaccgg tgtcattccg ctgttatggc cgcgtttatc
     1561 taattccacg cctgacactc agttccgggt aggcagttcg ctccaagctg gactgtatgc
     1621 acgaaccccc cgttcagtcc gaccgctgcg ccttatccgg taactatcga cttgagtcca
     1681 acccggaaag acacgacaaa acgccactgg cagcagccac tggtaactga tttagaggag
     1741 ttagtcttga agttatgcgc cggttaaggc taaactgaaa ggacaagttt tggtgactgt
     1801 gctcctccaa gccagttacc tcggttcaaa gagttgctgc tctgagaacc ttcgaaaaaa
     1861 ccgccttgct gggcggtttt ttcgtttaca gtgctaagag attacgattc tccatgaatg
     1921 atctcaagaa gatccgttta aaaaagcggg ttttatgggg ggataaagtt cgtctagccc
     1981 agtcactttg gattacagct aggtttcgta agccatgcaa gaatgcctgt aactaacaaa
     2041 ataggccctg caacgtacgt aacatagact ccaacatacg acactgtgaa acatatgagt
     2101 acgtatatag acagtgttgt ccaaaaaatg actgttgttt tacagtgaat ccactctttc
     2161 atttttcaat aaaccccaca ccgtctggag atcttattat cgttttgcca ggattagctt
     2221 tcgcccaaac caaagcatct tgaaaagaag agaatttttt ttttgaattt ttagtttttc
     2281 ggcgatcttc tcgaaaatat tcgctgttat tctcatcaat tatccgatca aaatcagcac
     2341 cagctccaaa ggtacgctca aaatccccca ttttctgccc ccattaaatt taataaaaaa
     2401 acagatttaa aatatccaaa agacactctt atttaccata acatcccttg ttcgcaccgc
     2461 cgcagacagc ctcagcaccg ttctgcgcca tgaaccgcaa aagagcacct cttaccacgt
     2521 aaaaacgccg ataaatgccc cccgtaagtt cttacggtat gcatagttat gcacggaaat
     2581 gaactgacac tctgttcaat ggattttcat gctgtaagca gtattttagt cttctatgcc
     2641 ccctcgaaac acacctgttc ttgtgtagat cttttcgacc caagatggtc ttttatccga
     2701 gttcatgcag ccgtacagga acacacctgt tttgggttta tagctccccc cctcctgtgg
     2761 ctggttatct acaaatgaat aatcaatctt ttcacctttg actgaagcac gccccccaac
     2821 atgaactaaa gaccagtgct catgcatcac atggctttca atcaatccaa atgaagaaaa
     2881 accccatgaa tcaaaaaaga ccttgagtcc gtcagacgca ccaacaggag taatgattgc
     2941 aaattcaacc tgctcaccag taccttcaag gtaagaaggt ttctcgacgt taattacaga
     3001 tgcccccttc acctgataac ctttacaggt aagatataag tccctcccgg ctgacggttt
     3061 tgtatatgta acgttgtcgt tattctccgc agcagcgact gtaaatgaca tagccaaaac
     3121 caccgagact gagcaagccc agaaacattt cataacgcat cccttttcat tgattaacta
     3181 cattccaagc tcaaaacctt tctgccgctg cgatcgttcc agctccagcg ctttctggtg
     3241 ctgcgccgcg cgctcctgct cccggtgcgc ctcgatgcca ttcagccttg cgacaatcgg
     3301 cgcagctgat cgctcaaact ctgcacctgc ctgctcaagc ccgtgacgcg ctcgctcagc
     3361 gccgcgttct cccgttgcat aagcccagac atcgtccgcc attccgcgaa ggcgttctcc
     3421 cactcgtcca gccttttcga gtagtcctgc tgtagctgct ctaatgcgct cagcaactgt
     3481 ttttccagtt ccgtcatgtg ctatttcccc gccagtatca tccagctcga atcctctccg
     3541 aatcttcccg cttccgggtt caccctcacg cagcggcgtc tctcctcccc gcaggtcgtg
     3601 agctggacgc cgttgttctt ctctgaaagc atggcctgcg tgctcttctg ttcctggatg
     3661 gtcgtgtagt tgtcgagtat ctgttgcccc tgccaccaca gaatgcccgc gctcgaggcg
     3721 atcagtagcg cggagaccag gactatggtc agccacgtct ggctgatcat acgcagcatc
     3781 cctttcgtgc gttggctcat ggctgaggac agcttccggt cgtggtcgag gatggcggcg
     3841 ctgattctct tctcgctttc gctcagttcc gctctgacag acttctcgtg ctcgctgaat
     3901 gcggctttca gcatctcgcc ggtagtctgc tgctgcgctt tcgatttctg ctctaagtcc
     3961 ttcgccagcg ttaaaagact gttcatagat ggctcccttc agtcggatgt ttcgcccc
//
