LOCUS       NZ_CP079604             4167 bp    DNA     circular CON 10-JAN-2024
DEFINITION  Klebsiella pneumoniae subsp. pneumoniae strain WRC10_CMC309MC
            plasmid pCMC309M_P5, complete sequence.
ACCESSION   NZ_CP079604
VERSION     NZ_CP079604.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN20115188
            Assembly: GCF_019317005.1
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 4167)
  AUTHORS   Balaji,V., Snehal,P., Yamuna,B.D. and Monisha,P.
  TITLE     Complete genome of Carbapenem resistant Klebsiella
            pneumoniae_WRC10_CMC309MC
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 4167)
  AUTHORS   Balaji,V., Snehal,P., Yamuna,B.D. and Monisha,P.
  TITLE     Direct Submission
  JOURNAL   Submitted (08-JUL-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; CANU v. V.2.1.1
            Assembly Name                     :: WRC10_CMC309MC
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 70.0x
            Sequencing Technology :: Illumina MiSeq; Oxford Nanopore MinION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 01/10/2024 03:04:28
            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)                     :: 5,423
            CDSs (total)                      :: 5,303
            Genes (coding)                    :: 5,152
            CDSs (with protein)               :: 5,152
            Genes (RNA)                       :: 120
            rRNAs                             :: 9, 8, 8 (5S, 16S, 23S)
            complete rRNAs                    :: 9, 8, 8 (5S, 16S, 23S)
            tRNAs                             :: 83
            ncRNAs                            :: 12
            Pseudo Genes (total)              :: 151
            CDSs (without protein)            :: 151
            Pseudo Genes (ambiguous residues) :: 0 of 151
            Pseudo Genes (frameshifted)       :: 67 of 151
            Pseudo Genes (incomplete)         :: 82 of 151
            Pseudo Genes (internal stop)      :: 30 of 151
            Pseudo Genes (multiple problems)  :: 23 of 151
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP079604.1.
            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..4167
                     /organism="Klebsiella pneumoniae subsp. pneumoniae"
                     /mol_type="genomic DNA"
                     /strain="WRC10_CMC309MC"
                     /isolation_source="Endotracheal aspirate"
                     /host="Homo sapiens"
                     /sub_species="pneumoniae"
                     /db_xref="taxon:72407"
                     /plasmid="pCMC309M_P5"
                     /geo_loc_name="India"
                     /lat_lon="12.9165 N 79.1325 E"
                     /collection_date="2018"
                     /collected_by="Christian medical college"
     gene            95..208
                     /locus_tag="KWY78_RS26930"
                     /old_locus_tag="KWY78_26915"
                     /pseudo=""
     CDS             95..208
                     /locus_tag="KWY78_RS26930"
                     /old_locus_tag="KWY78_26915"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_007772075.1"
                     /note="internal stop; Derived by automated computational
                     analysis using gene prediction method: Protein Homology."
                     /pseudo=""
                     /codon_start=1
                     /transl_table=11
                     /product="replication initiation protein"
                     /name="replication initiation protein"
     gene            553..1668
                     /locus_tag="KWY78_RS26935"
                     /old_locus_tag="KWY78_26920"
     CDS             553..1668
                     /locus_tag="KWY78_RS26935"
                     /old_locus_tag="KWY78_26920"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_019405083.1"
                     /GO_function="GO:0005524 - ATP binding [Evidence IEA];
                     GO:0016887 - ATP hydrolysis activity [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="ATP-binding protein"
                     /protein_id="WP_012579087.1"
                     /translation="MIKEISLKNFKCFNELYLKQLKTLNIIAGKNNYGKTSILDAIFCF
                     YDVKNPAVLLNIQAFRKEMAEINKNKPFWVSYFHDMDTSQKMSIVIRDERSEVTQTYET
                     ETNQRLESSLSLNVDTVLSNQNIPRQTIGSQATVNSLKINVTETPNAKNRVSNKLFSMQ
                     LKEDGVEIKSEIKNERDGINYKFKTATIITTSRKINKEATITNVSSLLTQKRKKDILEN
                     LKKIDDRIVDIAISAIGNNKEIYLDIGFSELNEISMLGEGISRALSFISSVLVQENSII
                     LIDEIENGIHYSVIKDIIKSLISSAKQNNNQIFATTHSQDVIRAINEIDSKNEDIAYIR
                     LGREKNSLKPTAVQFNMDDFSYSVENDWEVR"
                     /name="ATP-binding protein"
     gene            1668..2300
                     /locus_tag="KWY78_RS26940"
                     /old_locus_tag="KWY78_26925"
     CDS             1668..2300
                     /locus_tag="KWY78_RS26940"
                     /old_locus_tag="KWY78_26925"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000804504.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="DUF3226 domain-containing protein"
                     /protein_id="WP_012579086.1"
                     /translation="MKDINNSKKIIFVEGDDDFHFLCNLLEIQGITDVFVEKINGKSKL
                     KQALRAFKNIDSFDEKESIFIILDADTSFSDTERSIIATLRELQISSPSSHNEIAMNGN
                     TKISFFIMPGKDKQGAIEDLIIEHASTRALYEYIIEFFEKIKNNKDDISASDKEYTYPT
                     NEKKAKVQVYLSCNRESDSRIGISMKNGIINTADNCFDEIKDFISKI"
                     /name="DUF3226 domain-containing protein"
     gene            complement(3254..3655)
                     /locus_tag="KWY78_RS26945"
                     /old_locus_tag="KWY78_26930"
     CDS             complement(3254..3655)
                     /locus_tag="KWY78_RS26945"
                     /old_locus_tag="KWY78_26930"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_009310048.1"
                     /GO_function="GO:0003677 - DNA binding [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="helix-turn-helix domain-containing protein"
                     /protein_id="WP_012579088.1"
                     /translation="MARVSISEAARLTGKSRTTLHRLIKAGDLSTCSGERNAKMVDTSE
                     LLRVFGPFEQPKGEHHSGQVSGQRDTASADQSEQVIRHLKQEIEHLNTLLLSKDSHIDS
                     LKQAMLLLENHQAKLTESPAPWWKFWKKS"
                     /name="helix-turn-helix domain-containing protein"
     gene            complement(3655..3846)
                     /locus_tag="KWY78_RS26950"
                     /old_locus_tag="KWY78_26935"
     CDS             complement(3655..3846)
                     /locus_tag="KWY78_RS26950"
                     /old_locus_tag="KWY78_26935"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000166328.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="Rop family plasmid primer RNA-binding protein"
                     /protein_id="WP_004187666.1"
                     /translation="MTKQQKTALNMAKFIQNQSLLLLEKLNELDLDVEADLCEKLHDDA
                     EHLFRTLSSRLDALQDGN"
                     /name="Rop family plasmid primer RNA-binding protein"
     Typing          2..208
                     /name="ColRNAI_rep_cluster_1987"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="95.192"
                     /coverage="88.0"
                     /evalue="2.78e-87"
     Typing          3968..4167
                     /name="ColRNAI_rep_cluster_1987"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="91.045"
                     /coverage="99.0"
                     /evalue="2.45e-70"
ORIGIN
        1 tttaccggtg tcattccgct gttatggccg cgtttgtctc attccacgcc tgacactcag
       61 ttccgggtag gcagttcgct ccaagctgga ctgtatgcac gaaccccccg ttcagtccga
      121 ctgctgcgcc taatccggta actatcgtct tgagtccaac ccggaaagac acgacaaagc
      181 gccactggca gcagccactg gtaactgatt tagggagtta gtcttgaagt tatacgccag
      241 ttaaagctaa actaaacgaa cagttttggt gactgcgctc cctttaagcc agttacctcg
      301 gttcatagag cgccaactct actgaacctt tcgaaaaaac cgcccgccaa ggcggttttt
      361 ttcgttcaca gccggaagct tacggctgct gccagataat ctcaagaaga aagtaaaaaa
      421 aatcgattaa aacacaagca atcaaagtta atctttgaca taaagtctag ctaatcacaa
      481 tgaaagctgt acattttatt aaggtactaa caaatcgtat ggcatataac aaaaacacga
      541 acagaggcta tcatgataaa ggaaataagt ttaaagaact tcaaatgctt caatgagcta
      601 tatctaaagc aattaaagac tttaaatatc atagctggga aaaacaacta cgggaaaaca
      661 tctatactgg atgctatttt ttgtttttat gatgtaaaaa acccggctgt tttgttaaac
      721 attcaagcat tcagaaaaga aatggcagaa ataaacaaaa acaagccatt ttgggttagt
      781 tactttcatg atatggacac atcacaaaag atgtccatag tcattcgaga tgaacgctct
      841 gaagtaacac aaacatatga aacagaaaca aatcagagat tagaatcaag tttgtctcta
      901 aacgttgaca ccgtactatc taaccaaaac atacctcgtc aaactatcgg ttctcaggcc
      961 acagtaaact ctttaaaaat aaatgtgacc gagacaccca atgcgaaaaa cagggtttcc
     1021 aataagcttt tctctatgca attgaaagaa gatggcgtag aaataaaatc cgaaataaaa
     1081 aacgaaaggg atgggattaa ttataaattt aagacagcaa caataataac aacatccaga
     1141 aagataaaca aagaggcaac aattacaaat gtatctagcc tactaacaca aaaaaggaaa
     1201 aaagacatac tagaaaactt aaaaaaaata gatgacagaa ttgtagatat agcaatatct
     1261 gcgataggta acaataagga aatatattta gacattggat ttagtgagct aaatgaaata
     1321 tcaatgcttg gcgagggtat cagtcgagca ttatctttta tcagctcagt gctggtacag
     1381 gaaaactcaa ttattcttat tgatgaaatc gagaacggaa tacattactc agtaattaaa
     1441 gacataataa aatcattaat ttcatctgca aaacaaaaca acaatcaaat atttgcaaca
     1501 actcatagtc aagatgtgat acgagcaata aacgaaatag atagcaaaaa tgaagatatc
     1561 gcttatatta gactaggaag agaaaagaac tccctaaaac caacagccgt acaattcaat
     1621 atggatgatt tctcctactc agttgagaac gactgggagg taagataatg aaagacataa
     1681 ataatagcaa aaagatcatt ttcgttgagg gtgatgatga ttttcatttt ctatgcaacc
     1741 tacttgaaat acaaggcatt accgatgttt ttgtcgaaaa aataaatgga aaatcaaaat
     1801 taaaacaagc acttagagca ttcaaaaaca ttgattcttt cgatgaaaaa gaaagtattt
     1861 ttattatatt agatgctgac acatcatttt ctgacacaga aagatcaata attgccacat
     1921 tgcgagaact acaaatctcc tcccccagct cgcataacga gatagctatg aatggcaata
     1981 caaaaatttc tttctttata atgccaggaa aagacaagca aggtgccatt gaagatctga
     2041 taattgaaca cgcaagcact cgagcgttat atgaatacat aatagaattt ttcgaaaaaa
     2101 ttaaaaataa taaagatgac atctcagcga gtgacaaaga gtacacttat ccaacaaacg
     2161 aaaaaaaagc taaggtacaa gtctatctta gctgcaatag agaatccgac tcaagaatag
     2221 gaatatccat gaaaaatgga ataataaaca cagcagacaa ttgctttgat gaaataaaag
     2281 attttatttc aaaaatataa atccaaatca agccagccct tcacgggctg gcttatcacc
     2341 agggtgttat taaacgccgg ataacgtata gaaagcatca tacactttag ttatcagcaa
     2401 tctcaaacgt cctaaagaca tcaccagatg ccaaaacaat gattgtgcag atctaatgta
     2461 aaagacccag cacaagatgc tcccttaagt tatattctct ctattcactt aaaacaattt
     2521 aacataaaat cataattgta cgcaccgcta aaacggcctc agggcgtttc tgacggaaaa
     2581 ccggtaaaac aggcaacaaa ccacccgaaa acccgccaga aacgcgcagg ctctgttttt
     2641 acggcatgca tgagtatgca cgcaagtgca tagcgcgaaa attcacgcca ttcagccaga
     2701 gtaagtcctg tttccggcgt tctttccatc cgaaaacggt gaacggggac gcaatttatt
     2761 gcgtggccgt gaagcgttgc cggcgcagcc ggaaaaccgg ttttcagcac cttcaggaat
     2821 cgggttcgtc gacggccggc aatcacgtta tggcaagtcg ccggacgact caccacacga
     2881 ttcaccggcg attcgaatcg tgaattgaat caagagtcac catgagcaaa aaacacccaa
     2941 agtgatgaat tgaatcaaga gtcgattcat cataacaata tgataataaa gcgtgattca
     3001 catatgaatc gtgggcaatt cgtcagcgat tcgccataga gtcgtccacg acttggatct
     3061 gcactttgta acacatcacc gcacatttat ttttcattaa cccattgttg taaataagga
     3121 atctgcaaaa ttttaatttt gcgtggggtg tgggtatttt tagtggtgag gagcgttcag
     3181 agatctgacg atttttggga aggttcagga actccccggg atggccggag aggaaaactg
     3241 aagcatgacg gggtcaggat tttttccaga atttccacca tggcgccggg gattcagtta
     3301 attttgcctg gtgattttca agaaggagca tggcctgttt caggctgtca atgtgcgaat
     3361 ccttggacaa aagtaaggtg ttcaggtgtt caatctcctg tttcagatga cggatcacct
     3421 gttcactctg gtcagcagag gctgtatcac gctgtccaga gacctgtcca gaatggtgtt
     3481 cacccttcgg ttgctcaaag gggccaaaga cacgtaaaag ctctgaagta tctaccattt
     3541 ttgcattgcg ctcaccgcta caggtggaca ggtcacctgc tttaattaac ctgtgcagtg
     3601 ttgttctact cttacccgtc agtcgggcag cctcactaat agacactctg gccatcagtt
     3661 accatcctgt aatgcatcca gtctcgagga cagtgtacgg aaaagatgct ccgcatcatc
     3721 gtggagtttc tcacaaaggt cggcctcgac atcgagatca agctcgttaa gcttctccag
     3781 caggagcaga gactgattct ggatgaattt agccatgttc agcgctgttt tctgttgttt
     3841 cgtcataaga ggcctcagag cgtcagtggt cagtgtaggg atctcctctt ttccgcttcc
     3901 tcgctcactc agtcgctacg ctcctgccgt tcggctgcgg cgagcggcag gagcatgcgt
     3961 agaaacgctc gagaaaaccg agtaatcgca tggaggaaag aaggaaaggc cgcacagcgg
     4021 ccgtttttcc ataggctccg cccccctgac gagcatcacg gaatctgacg ctcaaatcag
     4081 tggtggcgaa acccgacagg actataaaga taccaggcgt ttccccctga tggctccctc
     4141 gtgcgctctc ctgttcctgc ctttcgg
//
