LOCUS       NZ_CP079169             4167 bp    DNA     circular CON 10-JAN-2024
DEFINITION  Klebsiella pneumoniae subsp. pneumoniae strain WRC09_CMC309PC
            plasmid pCMC309P_P5, complete sequence.
ACCESSION   NZ_CP079169
VERSION     NZ_CP079169.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN20115187
            Assembly: GCF_019286955.1
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_WRC09_CMC309PC
  JOURNAL   Unpublished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                     :: WRC09_CMC309PC
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 91.0x
            Sequencing Technology :: Illumina MiSeq; Oxford Nanopore MinION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 01/10/2024 03:01:28
            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)                     :: 5,418
            CDSs (total)                      :: 5,302
            Genes (coding)                    :: 5,153
            CDSs (with protein)               :: 5,153
            Genes (RNA)                       :: 116
            rRNAs                             :: 9, 8, 8 (5S, 16S, 23S)
            complete rRNAs                    :: 9, 8, 8 (5S, 16S, 23S)
            tRNAs                             :: 83
            ncRNAs                            :: 8
            Pseudo Genes (total)              :: 149
            CDSs (without protein)            :: 149
            Pseudo Genes (ambiguous residues) :: 0 of 149
            Pseudo Genes (frameshifted)       :: 67 of 149
            Pseudo Genes (incomplete)         :: 81 of 149
            Pseudo Genes (internal stop)      :: 29 of 149
            Pseudo Genes (multiple problems)  :: 23 of 149
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP079169.1.
            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="WRC09_CMC309PC"
                     /isolation_source="Endotracheal aspirate"
                     /host="Homo sapiens"
                     /sub_species="pneumoniae"
                     /db_xref="taxon:72407"
                     /plasmid="pCMC309P_P5"
                     /geo_loc_name="India"
                     /lat_lon="12.9165 N 79.1325 E"
                     /collection_date="2018"
                     /collected_by="Christian medical college"
     gene            join(4042..4167,1..507)
                     /locus_tag="KWY74_RS26880"
                     /old_locus_tag="KWY74_26880"
     CDS             join(4042..4167,1..507)
                     /locus_tag="KWY74_RS26880"
                     /old_locus_tag="KWY74_26880"
                     /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(1461..1862)
                     /locus_tag="KWY74_RS26885"
                     /old_locus_tag="KWY74_26885"
     CDS             complement(1461..1862)
                     /locus_tag="KWY74_RS26885"
                     /old_locus_tag="KWY74_26885"
                     /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(1862..2053)
                     /locus_tag="KWY74_RS26890"
                     /old_locus_tag="KWY74_26890"
     CDS             complement(1862..2053)
                     /locus_tag="KWY74_RS26890"
                     /old_locus_tag="KWY74_26890"
                     /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"
     gene            2469..2582
                     /locus_tag="KWY74_RS26895"
                     /old_locus_tag="KWY74_26895"
                     /pseudo=""
     CDS             2469..2582
                     /locus_tag="KWY74_RS26895"
                     /old_locus_tag="KWY74_26895"
                     /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            2927..4042
                     /locus_tag="KWY74_RS26900"
                     /old_locus_tag="KWY74_26900"
     CDS             2927..4042
                     /locus_tag="KWY74_RS26900"
                     /old_locus_tag="KWY74_26900"
                     /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"
     Typing          2175..2582
                     /name="ColRNAI_rep_cluster_1987"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="93.399"
                     /coverage="99.0"
                     /evalue="5.92e-171"
ORIGIN
        1 tcaaaattaa aacaagcact tagagcattc aaaaacattg attctttcga tgaaaaagaa
       61 agtattttta ttatattaga tgctgacaca tcattttctg acacagaaag atcaataatt
      121 gccacattgc gagaactaca aatctcctcc cccagctcgc ataacgagat agctatgaat
      181 ggcaatacaa aaatttcttt ctttataatg ccaggaaaag acaagcaagg tgccattgaa
      241 gatctgataa ttgaacacgc aagcactcga gcgttatatg aatacataat agaatttttc
      301 gaaaaaatta aaaataataa agatgacatc tcagcgagtg acaaagagta cacttatcca
      361 acaaacgaaa aaaaagctaa ggtacaagtc tatcttagct gcaatagaga atccgactca
      421 agaataggaa tatccatgaa aaatggaata ataaacacag cagacaattg ctttgatgaa
      481 ataaaagatt ttatttcaaa aatataaatc caaatcaagc cagcccttca cgggctggct
      541 tatcaccagg gtgttattaa acgccggata acgtatagaa agcatcatac actttagtta
      601 tcagcaatct caaacgtcct aaagacatca ccagatgcca aaacaatgat tgtgcagatc
      661 taatgtaaaa gacccagcac aagatgctcc cttaagttat attctctcta ttcacttaaa
      721 acaatttaac ataaaatcat aattgtacgc accgctaaaa cggcctcagg gcgtttctga
      781 cggaaaaccg gtaaaacagg caacaaacca cccgaaaacc cgccagaaac gcgcaggctc
      841 tgtttttacg gcatgcatga gtatgcacgc aagtgcatag cgcgaaaatt cacgccattc
      901 agccagagta agtcctgttt ccggcgttct ttccatccga aaacggtgaa cggggacgca
      961 atttattgcg tggccgtgaa gcgttgccgg cgcagccgga aaaccggttt tcagcacctt
     1021 caggaatcgg gttcgtcgac ggccggcaat cacgttatgg caagtcgccg gacgactcac
     1081 cacacgattc accggcgatt cgaatcgtga attgaatcaa gagtcaccat gagcaaaaaa
     1141 cacccaaagt gatgaattga atcaagagtc gattcatcat aacaatatga taataaagcg
     1201 tgattcacat atgaatcgtg ggcaattcgt cagcgattcg ccatagagtc gtccacgact
     1261 tggatctgca ctttgtaaca catcaccgca catttatttt tcattaaccc attgttgtaa
     1321 ataaggaatc tgcaaaattt taattttgcg tggggtgtgg gtatttttag tggtgaggag
     1381 cgttcagaga tctgacgatt tttgggaagg ttcaggaact ccccgggatg gccggagagg
     1441 aaaactgaag catgacgggg tcaggatttt ttccagaatt tccaccatgg cgccggggat
     1501 tcagttaatt ttgcctggtg attttcaaga aggagcatgg cctgtttcag gctgtcaatg
     1561 tgcgaatcct tggacaaaag taaggtgttc aggtgttcaa tctcctgttt cagatgacgg
     1621 atcacctgtt cactctggtc agcagaggct gtatcacgct gtccagagac ctgtccagaa
     1681 tggtgttcac ccttcggttg ctcaaagggg ccaaagacac gtaaaagctc tgaagtatct
     1741 accatttttg cattgcgctc accgctacag gtggacaggt cacctgcttt aattaacctg
     1801 tgcagtgttg ttctactctt acccgtcagt cgggcagcct cactaataga cactctggcc
     1861 atcagttacc atcctgtaat gcatccagtc tcgaggacag tgtacggaaa agatgctccg
     1921 catcatcgtg gagtttctca caaaggtcgg cctcgacatc gagatcaagc tcgttaagct
     1981 tctccagcag gagcagagac tgattctgga tgaatttagc catgttcagc gctgttttct
     2041 gttgtttcgt cataagaggc ctcagagcgt cagtggtcag tgtagggatc tcctcttttc
     2101 cgcttcctcg ctcactcagt cgctacgctc ctgccgttcg gctgcggcga gcggcaggag
     2161 catgcgtaga aacgctcgag aaaaccgagt aatcgcatgg aggaaagaag gaaaggccgc
     2221 acagcggccg tttttccata ggctccgccc ccctgacgag catcacggaa tctgacgctc
     2281 aaatcagtgg tggcgaaacc cgacaggact ataaagatac caggcgtttc cccctgatgg
     2341 ctccctcgtg cgctctcctg ttcctgcctt tcggtttacc ggtgtcattc cgctgttatg
     2401 gccgcgtttg tctcattcca cgcctgacac tcagttccgg gtaggcagtt cgctccaagc
     2461 tggactgtat gcacgaaccc cccgttcagt ccgactgctg cgcctaatcc ggtaactatc
     2521 gtcttgagtc caacccggaa agacacgaca aagcgccact ggcagcagcc actggtaact
     2581 gatttaggga gttagtcttg aagttatacg ccagttaaag ctaaactaaa cgaacagttt
     2641 tggtgactgc gctcccttta agccagttac ctcggttcat agagcgccaa ctctactgaa
     2701 cctttcgaaa aaaccgcccg ccaaggcggt ttttttcgtt cacagccgga agcttacggc
     2761 tgctgccaga taatctcaag aagaaagtaa aaaaaatcga ttaaaacaca agcaatcaaa
     2821 gttaatcttt gacataaagt ctagctaatc acaatgaaag ctgtacattt tattaaggta
     2881 ctaacaaatc gtatggcata taacaaaaac acgaacagag gctatcatga taaaggaaat
     2941 aagtttaaag aacttcaaat gcttcaatga gctatatcta aagcaattaa agactttaaa
     3001 tatcatagct gggaaaaaca actacgggaa aacatctata ctggatgcta ttttttgttt
     3061 ttatgatgta aaaaacccgg ctgttttgtt aaacattcaa gcattcagaa aagaaatggc
     3121 agaaataaac aaaaacaagc cattttgggt tagttacttt catgatatgg acacatcaca
     3181 aaagatgtcc atagtcattc gagatgaacg ctctgaagta acacaaacat atgaaacaga
     3241 aacaaatcag agattagaat caagtttgtc tctaaacgtt gacaccgtac tatctaacca
     3301 aaacatacct cgtcaaacta tcggttctca ggccacagta aactctttaa aaataaatgt
     3361 gaccgagaca cccaatgcga aaaacagggt ttccaataag cttttctcta tgcaattgaa
     3421 agaagatggc gtagaaataa aatccgaaat aaaaaacgaa agggatggga ttaattataa
     3481 atttaagaca gcaacaataa taacaacatc cagaaagata aacaaagagg caacaattac
     3541 aaatgtatct agcctactaa cacaaaaaag gaaaaaagac atactagaaa acttaaaaaa
     3601 aatagatgac agaattgtag atatagcaat atctgcgata ggtaacaata aggaaatata
     3661 tttagacatt ggatttagtg agctaaatga aatatcaatg cttggcgagg gtatcagtcg
     3721 agcattatct tttatcagct cagtgctggt acaggaaaac tcaattattc ttattgatga
     3781 aatcgagaac ggaatacatt actcagtaat taaagacata ataaaatcat taatttcatc
     3841 tgcaaaacaa aacaacaatc aaatatttgc aacaactcat agtcaagatg tgatacgagc
     3901 aataaacgaa atagatagca aaaatgaaga tatcgcttat attagactag gaagagaaaa
     3961 gaactcccta aaaccaacag ccgtacaatt caatatggat gatttctcct actcagttga
     4021 gaacgactgg gaggtaagat aatgaaagac ataaataata gcaaaaagat cattttcgtt
     4081 gagggtgatg atgattttca ttttctatgc aacctacttg aaatacaagg cattaccgat
     4141 gtttttgtcg aaaaaataaa tggaaaa
//
