LOCUS       NZ_CP079679             4167 bp    DNA     circular CON 10-JAN-2024
DEFINITION  Klebsiella pneumoniae subsp. pneumoniae strain WRC29_CMC309MPCH
            plasmid pCMC309MPCH_P6, complete sequence.
ACCESSION   NZ_CP079679
VERSION     NZ_CP079679.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN20130677
            Assembly: GCF_019317225.1
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_WRC29_CMC309MPCH
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 4167)
  AUTHORS   Balaji,V., Snehal,P., Yamuna,B.D. and Monisha,P.
  TITLE     Direct Submission
  JOURNAL   Submitted (09-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                     :: WRC29_CMC309MPCH
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 64.0x
            Sequencing Technology :: Illumina MiSeq; Oxford Nanopore MinION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 01/10/2024 03:10:26
            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)                     :: 5,422
            CDSs (total)                      :: 5,303
            Genes (coding)                    :: 5,153
            CDSs (with protein)               :: 5,153
            Genes (RNA)                       :: 119
            rRNAs                             :: 9, 8, 8 (5S, 16S, 23S)
            complete rRNAs                    :: 9, 8, 8 (5S, 16S, 23S)
            tRNAs                             :: 85
            ncRNAs                            :: 9
            Pseudo Genes (total)              :: 150
            CDSs (without protein)            :: 150
            Pseudo Genes (ambiguous residues) :: 0 of 150
            Pseudo Genes (frameshifted)       :: 67 of 150
            Pseudo Genes (incomplete)         :: 82 of 150
            Pseudo Genes (internal stop)      :: 29 of 150
            Pseudo Genes (multiple problems)  :: 23 of 150
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP079679.1.
            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="WRC29_CMC309MPCH"
                     /isolation_source="Endotracheal aspirate"
                     /host="Homo sapiens"
                     /sub_species="pneumoniae"
                     /db_xref="taxon:72407"
                     /plasmid="pCMC309MPCH_P6"
                     /geo_loc_name="India"
                     /lat_lon="12.9165 N 79.1325 E"
                     /collection_date="2018"
                     /collected_by="Christian medical college"
     gene            179..292
                     /locus_tag="KW562_RS26905"
                     /old_locus_tag="KW562_26890"
                     /pseudo=""
     CDS             179..292
                     /locus_tag="KW562_RS26905"
                     /old_locus_tag="KW562_26890"
                     /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            637..1752
                     /locus_tag="KW562_RS26910"
                     /old_locus_tag="KW562_26895"
     CDS             637..1752
                     /locus_tag="KW562_RS26910"
                     /old_locus_tag="KW562_26895"
                     /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            1752..2384
                     /locus_tag="KW562_RS26915"
                     /old_locus_tag="KW562_26900"
     CDS             1752..2384
                     /locus_tag="KW562_RS26915"
                     /old_locus_tag="KW562_26900"
                     /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(3338..3739)
                     /locus_tag="KW562_RS26920"
                     /old_locus_tag="KW562_26905"
     CDS             complement(3338..3739)
                     /locus_tag="KW562_RS26920"
                     /old_locus_tag="KW562_26905"
                     /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(3739..3930)
                     /locus_tag="KW562_RS26925"
                     /old_locus_tag="KW562_26910"
     CDS             complement(3739..3930)
                     /locus_tag="KW562_RS26925"
                     /old_locus_tag="KW562_26910"
                     /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..292
                     /name="ColRNAI_rep_cluster_1987"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="96.233"
                     /coverage="99.0"
                     /evalue="1.35e-132"
ORIGIN
        1 tggcgaaacc cgacaggact ataaagatac caggcgtttc cccctgatgg ctccctcgtg
       61 cgctctcctg ttcctgcctt tcggtttacc ggtgtcattc cgctgttatg gccgcgtttg
      121 tctcattcca cgcctgacac tcagttccgg gtaggcagtt cgctccaagc tggactgtat
      181 gcacgaaccc cccgttcagt ccgactgctg cgcctaatcc ggtaactatc gtcttgagtc
      241 caacccggaa agacacgaca aagcgccact ggcagcagcc actggtaact gatttaggga
      301 gttagtcttg aagttatacg ccagttaaag ctaaactaaa cgaacagttt tggtgactgc
      361 gctcccttta agccagttac ctcggttcat agagcgccaa ctctactgaa cctttcgaaa
      421 aaaccgcccg ccaaggcggt ttttttcgtt cacagccgga agcttacggc tgctgccaga
      481 taatctcaag aagaaagtaa aaaaaatcga ttaaaacaca agcaatcaaa gttaatcttt
      541 gacataaagt ctagctaatc acaatgaaag ctgtacattt tattaaggta ctaacaaatc
      601 gtatggcata taacaaaaac acgaacagag gctatcatga taaaggaaat aagtttaaag
      661 aacttcaaat gcttcaatga gctatatcta aagcaattaa agactttaaa tatcatagct
      721 gggaaaaaca actacgggaa aacatctata ctggatgcta ttttttgttt ttatgatgta
      781 aaaaacccgg ctgttttgtt aaacattcaa gcattcagaa aagaaatggc agaaataaac
      841 aaaaacaagc cattttgggt tagttacttt catgatatgg acacatcaca aaagatgtcc
      901 atagtcattc gagatgaacg ctctgaagta acacaaacat atgaaacaga aacaaatcag
      961 agattagaat caagtttgtc tctaaacgtt gacaccgtac tatctaacca aaacatacct
     1021 cgtcaaacta tcggttctca ggccacagta aactctttaa aaataaatgt gaccgagaca
     1081 cccaatgcga aaaacagggt ttccaataag cttttctcta tgcaattgaa agaagatggc
     1141 gtagaaataa aatccgaaat aaaaaacgaa agggatggga ttaattataa atttaagaca
     1201 gcaacaataa taacaacatc cagaaagata aacaaagagg caacaattac aaatgtatct
     1261 agcctactaa cacaaaaaag gaaaaaagac atactagaaa acttaaaaaa aatagatgac
     1321 agaattgtag atatagcaat atctgcgata ggtaacaata aggaaatata tttagacatt
     1381 ggatttagtg agctaaatga aatatcaatg cttggcgagg gtatcagtcg agcattatct
     1441 tttatcagct cagtgctggt acaggaaaac tcaattattc ttattgatga aatcgagaac
     1501 ggaatacatt actcagtaat taaagacata ataaaatcat taatttcatc tgcaaaacaa
     1561 aacaacaatc aaatatttgc aacaactcat agtcaagatg tgatacgagc aataaacgaa
     1621 atagatagca aaaatgaaga tatcgcttat attagactag gaagagaaaa gaactcccta
     1681 aaaccaacag ccgtacaatt caatatggat gatttctcct actcagttga gaacgactgg
     1741 gaggtaagat aatgaaagac ataaataata gcaaaaagat cattttcgtt gagggtgatg
     1801 atgattttca ttttctatgc aacctacttg aaatacaagg cattaccgat gtttttgtcg
     1861 aaaaaataaa tggaaaatca aaattaaaac aagcacttag agcattcaaa aacattgatt
     1921 ctttcgatga aaaagaaagt atttttatta tattagatgc tgacacatca ttttctgaca
     1981 cagaaagatc aataattgcc acattgcgag aactacaaat ctcctccccc agctcgcata
     2041 acgagatagc tatgaatggc aatacaaaaa tttctttctt tataatgcca ggaaaagaca
     2101 agcaaggtgc cattgaagat ctgataattg aacacgcaag cactcgagcg ttatatgaat
     2161 acataataga atttttcgaa aaaattaaaa ataataaaga tgacatctca gcgagtgaca
     2221 aagagtacac ttatccaaca aacgaaaaaa aagctaaggt acaagtctat cttagctgca
     2281 atagagaatc cgactcaaga ataggaatat ccatgaaaaa tggaataata aacacagcag
     2341 acaattgctt tgatgaaata aaagatttta tttcaaaaat ataaatccaa atcaagccag
     2401 cccttcacgg gctggcttat caccagggtg ttattaaacg ccggataacg tatagaaagc
     2461 atcatacact ttagttatca gcaatctcaa acgtcctaaa gacatcacca gatgccaaaa
     2521 caatgattgt gcagatctaa tgtaaaagac ccagcacaag atgctccctt aagttatatt
     2581 ctctctattc acttaaaaca atttaacata aaatcataat tgtacgcacc gctaaaacgg
     2641 cctcagggcg tttctgacgg aaaaccggta aaacaggcaa caaaccaccc gaaaacccgc
     2701 cagaaacgcg caggctctgt ttttacggca tgcatgagta tgcacgcaag tgcatagcgc
     2761 gaaaattcac gccattcagc cagagtaagt cctgtttccg gcgttctttc catccgaaaa
     2821 cggtgaacgg ggacgcaatt tattgcgtgg ccgtgaagcg ttgccggcgc agccggaaaa
     2881 ccggttttca gcaccttcag gaatcgggtt cgtcgacggc cggcaatcac gttatggcaa
     2941 gtcgccggac gactcaccac acgattcacc ggcgattcga atcgtgaatt gaatcaagag
     3001 tcaccatgag caaaaaacac ccaaagtgat gaattgaatc aagagtcgat tcatcataac
     3061 aatatgataa taaagcgtga ttcacatatg aatcgtgggc aattcgtcag cgattcgcca
     3121 tagagtcgtc cacgacttgg atctgcactt tgtaacacat caccgcacat ttatttttca
     3181 ttaacccatt gttgtaaata aggaatctgc aaaattttaa ttttgcgtgg ggtgtgggta
     3241 tttttagtgg tgaggagcgt tcagagatct gacgattttt gggaaggttc aggaactccc
     3301 cgggatggcc ggagaggaaa actgaagcat gacggggtca ggattttttc cagaatttcc
     3361 accatggcgc cggggattca gttaattttg cctggtgatt ttcaagaagg agcatggcct
     3421 gtttcaggct gtcaatgtgc gaatccttgg acaaaagtaa ggtgttcagg tgttcaatct
     3481 cctgtttcag atgacggatc acctgttcac tctggtcagc agaggctgta tcacgctgtc
     3541 cagagacctg tccagaatgg tgttcaccct tcggttgctc aaaggggcca aagacacgta
     3601 aaagctctga agtatctacc atttttgcat tgcgctcacc gctacaggtg gacaggtcac
     3661 ctgctttaat taacctgtgc agtgttgttc tactcttacc cgtcagtcgg gcagcctcac
     3721 taatagacac tctggccatc agttaccatc ctgtaatgca tccagtctcg aggacagtgt
     3781 acggaaaaga tgctccgcat catcgtggag tttctcacaa aggtcggcct cgacatcgag
     3841 atcaagctcg ttaagcttct ccagcaggag cagagactga ttctggatga atttagccat
     3901 gttcagcgct gttttctgtt gtttcgtcat aagaggcctc agagcgtcag tggtcagtgt
     3961 agggatctcc tcttttccgc ttcctcgctc actcagtcgc tacgctcctg ccgttcggct
     4021 gcggcgagcg gcaggagcat gcgtagaaac gctcgagaaa accgagtaat cgcatggagg
     4081 aaagaaggaa aggccgcaca gcggccgttt ttccataggc tccgcccccc tgacgagcat
     4141 cacggaatct gacgctcaaa tcagtgg
//
