LOCUS       NZ_CP079184             4991 bp    DNA     circular CON 10-JAN-2024
DEFINITION  Klebsiella pneumoniae subsp. pneumoniae strain WRC13_AI2040PC
            plasmid pAI2040P_P5, complete sequence.
ACCESSION   NZ_CP079184
VERSION     NZ_CP079184.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN20115569
            Assembly: GCF_019287095.1
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 4991)
  AUTHORS   Balaji,V., Snehal,P., Yamuna,B.D. and Monisha,P.
  TITLE     Complete genome of Carbapenem resistant Klebsiella
            pneumoniae_WRC13_AI2040PC
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 4991)
  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                     :: WRC13_AI2040PC
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 85.0x
            Sequencing Technology :: Illumina MiSeq; Oxford Nanopore MinION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 01/10/2024 03:03:16
            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)                     :: 5,583
            CDSs (total)                      :: 5,456
            Genes (coding)                    :: 5,297
            CDSs (with protein)               :: 5,297
            Genes (RNA)                       :: 127
            rRNAs                             :: 9, 8, 8 (5S, 16S, 23S)
            complete rRNAs                    :: 9, 8, 8 (5S, 16S, 23S)
            tRNAs                             :: 87
            ncRNAs                            :: 15
            Pseudo Genes (total)              :: 159
            CDSs (without protein)            :: 159
            Pseudo Genes (ambiguous residues) :: 0 of 159
            Pseudo Genes (frameshifted)       :: 69 of 159
            Pseudo Genes (incomplete)         :: 93 of 159
            Pseudo Genes (internal stop)      :: 25 of 159
            Pseudo Genes (multiple problems)  :: 24 of 159
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP079184.1.
            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..4991
                     /organism="Klebsiella pneumoniae subsp. pneumoniae"
                     /mol_type="genomic DNA"
                     /strain="WRC13_AI2040PC"
                     /isolation_source="urine"
                     /host="Homo sapiens"
                     /sub_species="pneumoniae"
                     /db_xref="taxon:72407"
                     /plasmid="pAI2040P_P5"
                     /geo_loc_name="India"
                     /lat_lon="12.9165 N 79.1325 E"
                     /collection_date="2016"
                     /collected_by="Christian medical college"
     gene            91..257
                     /locus_tag="KWY86_RS28190"
                     /pseudo=""
     CDS             91..257
                     /locus_tag="KWY86_RS28190"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001505258.1"
                     /note="frameshifted; 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            587..1645
                     /locus_tag="KWY86_RS27755"
                     /old_locus_tag="KWY86_27755"
     CDS             587..1645
                     /locus_tag="KWY86_RS27755"
                     /old_locus_tag="KWY86_27755"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_012508929.1"
                     /GO_function="GO:0005524 - ATP binding [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="ParA family protein"
                     /protein_id="WP_042109829.1"
                     /translation="MAIYAVWNNKGGVGKSYLTFQLASEYARQNPTKKVLVVDLCPQAN
                     SSSMLLGGMINGENTLNQIHSAIQRKTISGYIEDRIRSPYIPTNTGSSYVINVSTHNSK
                     VPNNLYLVTGDEQLELQASRVVGASFPGPHDAWRTVHLWINDLISDICNSWNNEDSCVF
                     IDCNPSFSIYTELALTAAERLLIPFSADGSSKRAVKAVLSLVYGERRHQNEPQSDFYLN
                     SNRYSMSLPQIYMYVGNRLTQMNNSSASAFKTVVTEIGDEIWKVWQTKPSLFCIHPNGS
                     STPNNKRSFRNMFQYEVNDANTASVVSGALGIPIATLTAGNKTVSGKIIKVNQTQLDKQ
                     VPNIVALAGMIE"
                     /name="ParA family protein"
     gene            complement(1675..1932)
                     /locus_tag="KWY86_RS27760"
                     /old_locus_tag="KWY86_27760"
     CDS             complement(1675..1932)
                     /locus_tag="KWY86_RS27760"
                     /old_locus_tag="KWY86_27760"
                     /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_042109830.1"
                     /translation="MGSNNNQNKDLQDKQADLLDQTYTLGWMDGYAEGYDDAIEDTQNA
                     LNKLENENELLTEVVESKDNVIKELASSAGRALQAVKKNK"
                     /name="hypothetical protein"
     gene            2350..2781
                     /locus_tag="KWY86_RS27765"
                     /old_locus_tag="KWY86_27765"
     CDS             2350..2781
                     /locus_tag="KWY86_RS27765"
                     /old_locus_tag="KWY86_27765"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001025244.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="DUF6530 family protein"
                     /protein_id="WP_042109831.1"
                     /translation="MKIPAHLKHKPIIQVENYDRIDGPHADDTDAMGLSVGIAQWNTPG
                     WTELSAKVWRNTGEKWSRQSEELPLHRVIDLATLICITMDYSKNGRLSSSDDFPVTRST
                     DNPELAHHTEFMKKELKQNKSNLDVSLKRLSTELKRLGY"
                     /name="DUF6530 family protein"
     gene            complement(2875..3279)
                     /locus_tag="KWY86_RS27770"
                     /old_locus_tag="KWY86_27770"
     CDS             complement(2875..3279)
                     /locus_tag="KWY86_RS27770"
                     /old_locus_tag="KWY86_27770"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_016529521.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="DUF2251 domain-containing protein"
                     /protein_id="WP_008321396.1"
                     /translation="MTILVTIQAQLVVGEEQVIKSLAPEGMLAAVFEDDGRTGYFYALD
                     ESVEGNPIMDAVHIYNAEDVSDGHIPSDVKIGWSEDSQKCVLLINGYPHGAFDFVGKNG
                     YCRSGYPPPINKVWSLSGHEWSDSVDDFFR"
                     /name="DUF2251 domain-containing protein"
     gene            complement(4074..4475)
                     /locus_tag="KWY86_RS27775"
                     /old_locus_tag="KWY86_27775"
     CDS             complement(4074..4475)
                     /locus_tag="KWY86_RS27775"
                     /old_locus_tag="KWY86_27775"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_009310048.1"
                     /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_032489494.1"
                     /translation="MARVSISEAARLTGKSRTTLHRLIKAGDLSTCSGERNAKMVDTSE
                     LLRVFGPFEQLKGEHHSGQVSEQRDTASVDQCEQVIRHLKQEIEHLNTLLLSKDSHIDS
                     LKQAMLLLENHQAKLTESPAPWWKFWKKS"
                     /name="helix-turn-helix domain-containing protein"
     gene            complement(4475..4666)
                     /locus_tag="KWY86_RS27780"
                     /old_locus_tag="KWY86_27780"
     CDS             complement(4475..4666)
                     /locus_tag="KWY86_RS27780"
                     /old_locus_tag="KWY86_27780"
                     /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_032489493.1"
                     /translation="MTKQQKTALNMAKFIQHQSLLLLEKLNELDLDVEADLCEKLHDDA
                     EHLFRTLSSRLDALQDGN"
                     /name="Rop family plasmid primer RNA-binding protein"
     Typing          2..388
                     /name="rep_cluster_2358"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="84.198"
                     /coverage="94.0"
                     /evalue="2.38e-101"
     Typing          4788..4991
                     /name="ColRNAI_rep_cluster_1987"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="92.195"
                     /coverage="99.0"
                     /evalue="6.78e-76"
ORIGIN
        1 ccggtgtcat tccgctgtta tggccgcgtt tgtctcattc cacgcctgac actcagttcc
       61 gggtaggcag ttcgctccaa gctggactgt atgcacgaac cccccgttca gtccgactgc
      121 tgcgcctgtt ccggtaactt tcgacttgag tccaacccgg aaggcacgac aaaacgccac
      181 tggcagcagc cactggtaag gggtgtacaa gaattactgg tgcagagttc ttgaagttac
      241 agcctaacta cagctaaact gaaaggacag atttggtggc agcggtcttg tacaccctgt
      301 taccacggtt cagaagttcc ccaacttact gatccttcga aaaaccacct ccccaggtgg
      361 ttttttcgtt tacagagcaa aagattacat cccgcaggtt aggatctcaa gaagatcctt
      421 ttaatcggaa ttcgacaact ccagataagt catggtgagc cagccaaccc cttcgactga
      481 atatcgttcc aaaaaaaggc agtcagctga aagaaactaa cagtagaaca ataatctcta
      541 gtaccctgaa tctaagctaa caacaaaact agattaggag ttatagatgg cgatctatgc
      601 cgtatggaat aacaagggtg gtgtagggaa aagttacctt acttttcagt tagcctctga
      661 atatgccaga cagaacccta ctaaaaaggt cctggtggtt gacctgtgcc cacaagcgaa
      721 ctcgtcctct atgttacttg gtggaatgat aaatggcgaa aacacactaa accagattca
      781 ttcagcaata cagagaaaga caatatctgg atatattgag gataggatca gaagtccata
      841 tattcctacc aacactggtt ctagctatgt aataaatgta tctacacaca atagtaaagt
      901 tccaaataat ctatatcttg tcactggcga tgaacaatta gaactccaag catcaagagt
      961 tgttggggca tcatttccag gtccccatga tgcatggcgt actgttcacc tctggattaa
     1021 tgatttaatc agtgacattt gcaactcatg gaataatgaa gatagctgcg tattcattga
     1081 ctgcaaccct agcttctcta tttatacaga gttagcttta accgcagcag agcgcctttt
     1141 aattcctttc tctgccgatg gttcatcaaa gagagcagtt aaggctgtac tttctttagt
     1201 ttatggtgag cgtcgccatc agaatgaacc acaatcagat ttctatctta atagcaatcg
     1261 ttattctatg tcgctaccac aaatatatat gtatgttgga aatagattaa cgcaaatgaa
     1321 caattcatct gccagtgcat ttaagacggt agtaaccgaa attggtgatg aaatttggaa
     1381 agtatggcaa acaaaaccaa gtctgttttg tattcaccca aatgggagct caacgccaaa
     1441 taataaaaga tctttcagga atatgtttca gtatgaagta aatgatgcaa acacagcatc
     1501 tgtcgtatct ggagccttag gtattccaat cgcgacatta actgcaggaa ataaaactgt
     1561 ttcaggaaaa ataataaagg ttaatcagac gcagctagat aaacaagtcc ccaacattgt
     1621 agctctcgct ggtatgatcg aataaaatag caaggccctt aaaagggcct ttttttattt
     1681 gtttttcttt actgcttgca gcgccctgcc agcactagag gccaactctt tgattacatt
     1741 atctttactt tcaacaacct cagtaagcaa ctcgttttcg ttttccagtt tattcaaagc
     1801 gttctgagta tcttcaatag catcatcata cccttcggca tagccatcca tccaaccaag
     1861 agtatacgtt tggtccaaaa gatcagcttg cttatcctgc agatctttat tctgattatt
     1921 gttagagccc atgttttttc ctcatttgtt ggcgcatctg agttttcaaa ccaggaggaa
     1981 ttccatttct aagtttctca cttagtctga ctggtggtgt gtttcctgag actggattac
     2041 agtcagcatc caccccgaca tctttctttt tatagtcgcc aatattccta acgttatctg
     2101 tagtcataga aaaccacgcc cattgctgtg aataaccgaa ctataaacca gaaaaaaaac
     2161 gtacggctta tcataacact tgacacaaaa aaacaccgct actctccaag caaaaaacat
     2221 aaaattggaa aaacaaaatc acaagcacat gataacaata gatattaata tttacttaca
     2281 tttagtgagt tttataatta gaaaaacaat gtaatttaat aatcacaaac attacctaag
     2341 gacgaactga tgaaaatacc cgcgcatttg aagcataaac caattattca agtcgaaaat
     2401 tacgaccgca ttgacggccc acatgccgat gacactgatg ctatggggct atctgtaggt
     2461 attgctcaat ggaacactcc tggatggact gagctttcgg caaaggtttg gcgaaacaca
     2521 ggagaaaaat ggtcaagaca atcagaagag ctgcctcttc accgggtaat cgaccttgca
     2581 actctgatct gtatcaccat ggactacagt aaaaatgggc gactttcatc cagtgatgat
     2641 tttcccgtga ctcgctcaac tgataaccct gagctagcac atcacactga gtttatgaaa
     2701 aaagagttaa aacaaaataa aagcaatctt gatgtaagcc tcaaacgcct ctcgactgaa
     2761 ttgaagagac ttggctatta aaactagctt tagaaatgtc tacctacttc acagacgaat
     2821 ttaccataac atccgttttt cgaaccataa tggcaggcta tagcctgccg taattcaccg
     2881 gaaaaaatca tccacagagt cgctccactc atgcccggaa agagaccaca ccttgtttat
     2941 agggggagga taaccactcc tgcagtaccc gttttttccc acgaaatcga atgccccgtg
     3001 cgggtatcca ttgatcagga gtacgcactt ctgactgtct tctgaccagc caattttaac
     3061 atcagaagga atgtgaccgt ctgaaacgtc ttcggcattg tagatgtgta ctgcgtccat
     3121 aatcgggttt ccctcgacgg actcatcgag cgcatagaaa tacccggtcc ggccatcgtc
     3181 ttcgaacacg gcggccagca tgccctcagg agcgaggctc tttataacct gttcctcccc
     3241 gacaacgagc tgggcctgta tcgtcactaa aatggtcatc aggtctgttc tcctttcctt
     3301 ggttgcttcg gcagccagct ttcagacaag cggataattt accataacat ccgttatcag
     3361 catcgtcaga aacgcgctga gggcgtttct gacgggaaac cggtaaaaca ggcaacaaac
     3421 cacccgaaaa cccgccagaa acgcgcaggc tctgttttta tggcatgcat gagtatgcac
     3481 gcaagtgcat agcgcgaata ttcacgccat tcagacaggg taagtcctgt ttccggcgtt
     3541 cttcccatcc gaaaacggtg aacggggacg caatttattg cgtggccgtg aagcgttgcc
     3601 ggcgcagccg gaaaaccggt tttcagcacg ttcaggaatc gggttcgtcg acggccggca
     3661 atcacgttat ggcaagtcgc cggacgactc accacacgat tcaccggcga ctctgcacta
     3721 gagtcgtacc tagagtcgcc gcgactaaaa aacaaccaaa cggggagtcg ggtctagagt
     3781 cgggtcgtta ttaactcatt gtttttatag ccctgagtcg ttaccgactc tatgacgact
     3841 cgccggggac tctatgacga gtcgtcatag agtcggatct atataaataa aatttaaaaa
     3901 acgaaatctc aggaaagtaa actactgata ttaaatacaa atctgcaaaa ttttaatttt
     3961 gcgtggggtg tgggtatttt tagtggtgag gagcgttcag agatctgact atttttggga
     4021 aggttcagga actccccggg atggccggag aggaaaactg aagcatgaca gggtcaggat
     4081 tttttccaga atttccacca tggcgccggg gattcagtta attttgcctg gtgattttca
     4141 agaaggagca tggcctgttt caggctgtca atgtgcgaat ctttggacaa aagtaaagtg
     4201 ttcaggtgtt caatctcctg tttcagatga cgaatcacct gttcacactg gtcaacagag
     4261 gctgtatcgc gctgttcaga gacctgtcca gaatggtgtt cacccttcag ttgttcaaag
     4321 ggaccaaaga cacgtaaaag ctctgaagta tctaccattt ttgcattgcg ctcaccgcta
     4381 caggtggaca ggtcacctgc tttaattaac ctgtgcagtg ttgttctact cttacccgtc
     4441 agtcgggctg cctcactaat agacactctg gccatcagtt accatcctgt aatgcatcca
     4501 gtctcgagga cagtgtacgg aaaagatgct ccgcatcatc gtggagtttc tcacaaaggt
     4561 cggcctcgac atcaagatca agctcgttaa gcttctccag caggagcaga gattgatgct
     4621 ggatgaattt agccatgttc agcgctgttt tctgttgttt cgtcataaga ggcctcagag
     4681 cgtcagtgct cagtgtaggg atgttctctt ttccgcttcc tcgctcactc agtcgctacg
     4741 ctcctgccgt tcggctgcgg cgagcggcag gagcatgcgt atgaaagctc gagaaaaccg
     4801 agcgatcacg taatttagaa aagggaaggc cgcacagcgg ccgtttttcc ataggctccg
     4861 cccccctgac aagcatcaca gaaacggacg ctcaaatcag tggtggcgaa acccgacagg
     4921 actataaaga tatcaggcgt ttccccctga tggctccctc gtgcgctctc ctgttcctgc
     4981 ctttcggttt a
//
