LOCUS       NZ_CP036323             6136 bp    DNA     linear   CON 05-JAN-2024
DEFINITION  Klebsiella pneumoniae strain VBA2172 plasmid pColKP3.
ACCESSION   NZ_CP036323
VERSION     NZ_CP036323.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN07572687
            Assembly: GCF_002300675.1
KEYWORDS    RefSeq.
SOURCE      Klebsiella pneumoniae
  ORGANISM  Klebsiella pneumoniae
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Klebsiella/Raoultella group; Klebsiella.
REFERENCE   1  (bases 1 to 6136)
  AUTHORS   Veeraraghavan,B., Shankar,C., Vasudevan,K., Venkatesan,M. and
            Narasimman,V.
  TITLE     VBA2172 Klebsiella pneumoniae hybrid assembly
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 6136)
  AUTHORS   Veeraraghavan,B., Shankar,C., Vasudevan,K., Venkatesan,M. and
            Narasimman,V.
  TITLE     Direct Submission
  JOURNAL   Submitted (16-FEB-2019) Clinical Microbiology, Christian Medical
            College, Ida Scudder Road, Vellore, Tamil Nadu 632004, India
REFERENCE   3  (bases 1 to 6136)
  AUTHORS   Shankar,C. and Veeraraghavan,B.
  TITLE     Direct Submission
  JOURNAL   Submitted (30-AUG-2017) Clinical Microbiology, Christian Medical
            College, Ida Scudder Road, Vellore, Tamil nadu 632004, India
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Date                     :: 2019
            Assembly Method                   :: Canu v. 1.7; Unicycler v. 0.4.6
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 69.57x
            Sequencing Technology :: IonTorrent; Oxford Nanopore MiniION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 01/04/2024 22:47:43
            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)                     :: 5,548
            CDSs (total)                      :: 5,423
            Genes (coding)                    :: 5,177
            CDSs (with protein)               :: 5,177
            Genes (RNA)                       :: 125
            rRNAs                             :: 9, 8, 8 (5S, 16S, 23S)
            complete rRNAs                    :: 9, 8, 8 (5S, 16S, 23S)
            tRNAs                             :: 86
            ncRNAs                            :: 14
            Pseudo Genes (total)              :: 246
            CDSs (without protein)            :: 246
            Pseudo Genes (ambiguous residues) :: 0 of 246
            Pseudo Genes (frameshifted)       :: 160 of 246
            Pseudo Genes (incomplete)         :: 93 of 246
            Pseudo Genes (internal stop)      :: 28 of 246
            Pseudo Genes (multiple problems)  :: 30 of 246
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP036323.1.
            Bacteria and source DNA available from Department of Clinical
            Microbiology, Christian Medical College, Vellore, India.
            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/
FEATURES             Location/Qualifiers
     source          1..6136
                     /organism="Klebsiella pneumoniae"
                     /mol_type="genomic DNA"
                     /strain="VBA2172"
                     /isolation_source="blood"
                     /host="Homo sapiens"
                     /db_xref="taxon:573"
                     /plasmid="pColKP3"
                     /geo_loc_name="India"
                     /lat_lon="12.9165 N 79.1325 E"
                     /collection_date="2016"
                     /collected_by="Christian Medical College"
     gene            complement(<1..162)
                     /locus_tag="CK244_RS30050"
                     /pseudo=""
     CDS             complement(<1..162)
                     /locus_tag="CK244_RS30050"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001557251.1"
                     /note="incomplete; too short partial abutting assembly gap;
                     missing C-terminus; Derived by automated computational
                     analysis using gene prediction method: Protein Homology."
                     /pseudo=""
                     /codon_start=1
                     /transl_table=11
                     /product="nuclease"
                     /name="nuclease"
     gene            complement(143..481)
                     /locus_tag="CK244_RS28110"
                     /old_locus_tag="CK244_028110"
     CDS             complement(143..481)
                     /locus_tag="CK244_RS28110"
                     /old_locus_tag="CK244_028110"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000502641.1"
                     /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_043907051.1"
                     /translation="MAGQPLKRLRSIKIRVSDAELERLRELCPKAQLAEWMREQCLGVA
                     QPQRRTPAPTVDPALLRQLAGMGNNLNQIARRVNSGEWGPLDRLRIIAELSAIGRELEE
                     LHHDHQIP"
                     /name="MobC family plasmid mobilization relaxosome protein"
     gene            complement(463..855)
                     /locus_tag="CK244_RS28115"
                     /old_locus_tag="CK244_028115"
     CDS             complement(463..855)
                     /locus_tag="CK244_RS28115"
                     /old_locus_tag="CK244_028115"
                     /inference="COORDINATES: protein motif:HMM:NF037437.4"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="antitoxin VbhA family protein"
                     /protein_id="WP_043907050.1"
                     /translation="MSTTQIEKDSRRKAVNGVISSFQLEGEAITDEFKILLEDYINGKI
                     STDEVLAMVSDEPTTTEYDYEITPRTLGLGGGWNLRLLENGEEVGGGVFPLPEHCDFRD
                     EKALQTLLDSLYEDALAEASAWLASR"
                     /name="antitoxin VbhA family protein"
     gene            complement(1260..2207)
                     /locus_tag="CK244_RS28120"
                     /old_locus_tag="CK244_028120"
     CDS             complement(1260..2207)
                     /locus_tag="CK244_RS28120"
                     /old_locus_tag="CK244_028120"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_014293673.1"
                     /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_015060053.1"
                     /translation="MRKCAQLELFRERLPRKPYYSDELTTGLRIADVARALGARYIQPN
                     GPTHRHWIVFDVDHAAATLSWDDVGAPAPNITVTNKANGHAHLIYGLDTPIRTAPDGNA
                     APLRYAAAIEAALREKLGADMGYSGLICKNPLHEHWLVQVWEPRLYDLAWLSDYLDLSS
                     YNGRKSLPEYGLGRNCTLFEKTRLWAYKAIRQGWPDYPEWLAACVDRASGYNAQFEQPL
                     PANEVRHTAKSIAKWTHQHLSPAGFREEQARRGAKGGKVSKGGGRPSNSGKDKSDLLPE
                     VLRLKAQGYTNRDIADDLQISPSTVSVYLKRDRP"
                     /name="replication initiation protein"
     gene            <2582..2734
                     /locus_tag="CK244_RS28125"
                     /old_locus_tag="CK244_028125"
                     /pseudo=""
     CDS             <2582..2734
                     /locus_tag="CK244_RS28125"
                     /old_locus_tag="CK244_028125"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_015059985.1"
                     /note="incomplete; partial in the middle of a contig;
                     missing N-terminus; Derived by automated computational
                     analysis using gene prediction method: Protein Homology."
                     /pseudo=""
                     /codon_start=1
                     /transl_table=11
                     /product="EreA family erythromycin esterase"
                     /name="EreA family erythromycin esterase"
     gene            complement(3141..3938)
                     /locus_tag="CK244_RS28130"
                     /old_locus_tag="CK244_028130"
     CDS             complement(3141..3938)
                     /locus_tag="CK244_RS28130"
                     /old_locus_tag="CK244_028130"
                     /EC_number="3.5.2.6"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_011071128.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="OXA-48 family carbapenem-hydrolyzing class D
                     beta-lactamase OXA-232"
                     /protein_id="WP_043907054.1"
                     /translation="MRVLALSAVFLVASIIGMPAVAKEWQENKSWNAHFTEHKSQGVVV
                     LWNENKQQGFTNNLKRANQAFLPASTFKIPNSLIALDLGVVKDEHQVFKWDGQTRDIAA
                     WNRDHDLITAMKYSVVPVYQEFARQIGEARMSKMLHAFDYGNEDISGNVDSFWLDGGIR
                     ISATQQIAFLRKLYHNKLHVSERSQRIVKQAMLTEANGDYIIRAKTGYSTSIEPKIGWW
                     VGWVELDDNVWFFAMNMDMPTSDGLGLRQAITKEVLKQEKIIP"
                     /name="OXA-48 family carbapenem-hydrolyzing class D
                     beta-lactamase OXA-232"
     gene            4282..4563
                     /locus_tag="CK244_RS28135"
                     /old_locus_tag="CK244_028135"
     CDS             4282..4563
                     /locus_tag="CK244_RS28135"
                     /old_locus_tag="CK244_028135"
                     /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_043907053.1"
                     /translation="MGFFNLSKALEEVSDAFGAKETAIASAKLLGKGVVNLAHFAATTG
                     LDSVVKQTSNKVLNSESSTEEQREQAKKSAAWADARIAARNKAENTED"
                     /name="hypothetical protein"
     gene            complement(4844..>6136)
                     /locus_tag="CK244_RS30055"
     CDS             complement(4844..>6136)
                     /locus_tag="CK244_RS30055"
                     /inference="COORDINATES: protein motif:HMM:NF015397.4"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="relaxase/mobilization nuclease domain-containing
                     protein"
                     /protein_id="WP_228261975.1"
                     /translation="SGVLSFAEADLPRATKDKLMSDFEKALLPGLEGNQYAVLWVEHRD
                     KGRLELNFVVPNIELQSGKRLQPYFHKADNPRLDAWRTVVNGELKLHDPDDPLNRQAVI
                     TPKDLPRGHKEAAQAITDGLLRMAGAGEIQSRDDVRKALQGAGFSVVRETKNSLSIADP
                     DGGRNIRLKGVLYEQDFRHGEGLRAELEAAGQRYREASDRRIHEARESYLRGVEIKRGE
                     NERRYCRAQPENGLAVAQNVDLDAGQHRPVLERNERDPLVSGGIDSGAASHSPSLGREG
                     RQAKADPVREEIGAPLRADLRPQSNRLGEGYLLDRAEGVLNDGIGAGIALRVRGFAERI
                     RAAAQGMAGKLRELGEHVREHQTRGRDQQGSSRAIDEAGERLNAASGRLEQAAGGLDRA
                     SQQVAKEREHRLLKALDRGWERGDRSRGFER"
                     /name="relaxase/mobilization nuclease domain-containing
                     protein"
     ARG             complement(3145..3938)
                     /name="blaOXA-232"
                     /gene="blaOXA-232"
                     /gene_name="OXA-48 family carbapenem-hydrolyzing class D
                     beta-lactamase OXA-232"
                     /tool="amrfinderplus"
                     /drug_class="BETA-LACTAM"
                     /identity="100.0"
                     /coverage="100.0"
     Typing          complement(1274..2195)
                     /name="rep_cluster_1195"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="81.974"
                     /coverage="98.0"
                     /evalue="0.0"
     Typing          complement(4848..6136)
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="98.372"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 ggtgtatttt ttggcgtagg gactggaatc aatcagggct tcaatcaccg cagggttgcc
       61 ccggtcgagc gttgcgcctt cccggttccc gtcacggccc aacaagtagc caacaggccc
      121 ggagccccgg cctaccccac ggttatggaa tttgatgatc atggtgcagt tcctccagct
      181 cgcggcctat agcggacagc tccgctatga tgcgcagccg atccaacggc ccccactccc
      241 cggaattaac gcgccgggcg atctggttca ggttgttgcc cattccggcc aactgccgca
      301 agagcgccgg atctacggta ggcgccggcg ttcggcgctg gggttgcgca acaccgagac
      361 attgctcccg catccactcc gccagttggg ccttggggca gagctcccgc aggcgctcaa
      421 gctccgcatc tgagacccgg atcttgatag agcggaggcg ctttaacggc tggccagcca
      481 tgcagaggcc tccgctaagg cgtcctcata gaggctatcg agtagcgtct ggagcgcctt
      541 ttcatcccga aaatcgcagt gctccggcaa ggggaaaaca cccccgccga cctcttcgcc
      601 gttctccagc aaacgcagat tccagccccc gccaagaccg agagtgcggg gggtgatttc
      661 gtagtcgtat tccgttgttg tgggttcgtc acttaccata gctaacacct catcggtgga
      721 aatttttcca ttgatataat cttcaagtag aattttgaat tcatcggtta tggcctcccc
      781 ctctagttgg aaactagaaa taacgccatt gactgccttc cttctcgaat ctttctctat
      841 ctgtgttgtt gacatagggc ctcgtccatt ctccagagcc aagaagccac cgcgcagacc
      901 gtcccgaagg ggcggatcga gcgggggcca cagggggttt cgggggggcg tagcacccct
      961 gaacaaggcc acagaggccc gagaccgcga agcaggtaga gggcctctgt gtagccttgc
     1021 ttagtacatt attcaaccat gggcgggata ctgcaagccc tagagcaaga tcaagggaaa
     1081 gagcggctcc gtggataact gctgccgccc acacccccga aaaacagggg ggcgatggac
     1141 ggacaggcgc agttgtccac ctcgccaaag atccgcgcta aaaggatttt ttaaggctaa
     1201 aagacaagag cgcaggaacc cccctaaagg gggctattat ctgataaggc ttgtttcgat
     1261 cacggacgat cacgctttag gtaaacgctc accgtactgg gggagatttg aagatcgtcc
     1321 gctatatcgc ggttggtgta cccctgagcc ttaagccgca gaacctccgg caatagatcg
     1381 gacttgtcct taccgctatt gctcggcctt ccccctccct tggatacctt gccgcccttc
     1441 gcacctctcc gggcctgctc ctctctgaac cctgcggggc ttaggtgctg gtgcgtccat
     1501 ttggcaatgg acttggccgt gtgccggact tcgtttgcgg ggagcggctg ctcgaactgg
     1561 gcgttatatc ctgatgcccg gtcaacacaa gcggccaacc attcggggta atccggccag
     1621 ccctgccgga tcgctttata ggcccacagg cgcgttttct cgaacagggt acagtttcgc
     1681 ccaagcccgt actcaggaag cgatttgcgg ccattgtagg agctcagatc gaggtaatcg
     1741 gatagccagg ctaaatcgta gagccggggt tcccatacct gcaccagcca gtgctcatgc
     1801 agggggttct tgcagatcag cccggagtag cccatatccg cccctaattt ctcccggagc
     1861 gcggcctcga tggcggcggc ataccgcaga ggggctgcat ttccatccgg ggcagtgcgg
     1921 atcggcgtat ccagtccgta gatcagatgc gcgtggccgt tggccttgtt cgtgacggta
     1981 atgttagggg ctggagcgcc tacgtcatcc caagataacg tagcggctgc atggtctacg
     2041 tcaaaaacga tccagtggcg gtgcgttggc ccgttcggct ggatgtaacg cgcaccaagg
     2101 gcgcgggcaa catccgcaat ccgtaggccc gttgtaagct cgtcggaata gtagggtttc
     2161 cggggcaggc gctcccgaaa cagctcaagc tgtgcgcact ttctcaagca ccaccgcgct
     2221 tattggcggc gtggggttgt ttggcatgat ccatgtgata gacttctctt gtgattcgtc
     2281 acggccccgt ttttcgcagc tccgccaaga tgcaagcgat aacggggggt tgtcttttct
     2341 ggacaatacg ttacagcagg cacatcctag agagcaacgt tagttgcatg taacctttca
     2401 ccctggaaca tatttccacc tccttctgct tctgcgctgt tttgaattgc ttgatctacg
     2461 cctctaacta ggtcgatcct tgggattgag tggcaccatt gtcagtgcaa gaatactgat
     2521 ccatataagt ctctctagtc ggacaacacc aagtgttgaa gagatcaaaa atcaacctat
     2581 atcggaggat tcatgtctga cattgacaga tgcccccatg aaagcaaagc gaatgcggtc
     2641 ccaaagcgcc tctgtagaaa cgaatttgag cgaggcattt gatgccatcg tctgcgtccc
     2701 aagcgccggc aaggacggcc tggttgacct atagtaaacc ggtagatgaa aatgatggag
     2761 aaccaatatc agcgccttct tggacttttt cgtcaaacgc tttagcagcc aagaaagcct
     2821 acaatccttg atgggctagg cactttatcg cagcggcatt cacctttact gacatcgcca
     2881 ctcctttatt cacaccccca tgttgagtga ccatggccat tgagataaca aaaaagccta
     2941 gcaaattggc taggcttttt acgtttagga atgtgatgct aatgctcagg ctgaaagtta
     3001 acgcgcggag cttaagtcga ttaggcctga ccgattaagt atgagccatt aactacaagc
     3061 gcatcgagca tcagcatttt gtccatatat ctttacagct tatatgacgg ctatttcaca
     3121 caaatacgcg ctaaccactt ctagggaata attttctcct gtttgagcac ttcttttgtg
     3181 atggcttggc gcagccctaa accatccgat gtgggcatat ccatattcat cgcaaaaaac
     3241 cacacattat catcaagttc aacccaacca acccaccagc caatcttagg ttcgatacta
     3301 gtcgagtatc ccgttttagc ccgaataata tagtcgccat tggcttcggt cagcatggct
     3361 tgtttcacga tgcgctgact acgctcagaa acgtgcagct tgttgtgata cagcttgcgt
     3421 aaaaaagcga tttgctgggt agccgaaatg cgaataccac catcgagcca aaaactgtct
     3481 acattgcccg agatatcctc attgccataa tcgaaggcgt gcagcatttt actcatacgt
     3541 gcctcaccaa tttggcgggc aaattcttga taaacaggca caactgagta cttcatcgcg
     3601 gtaattaagt catggtcacg attccaagcg gcgatatcac gcgtctgtcc atcccactta
     3661 aagacttggt gttcatcctt aaccacgccc aaatcgaggg cgatcaagct attgggaatt
     3721 ttaaaggtag atgcgggtaa aaatgcttgg ttcgcccgtt taagattatt ggtaaatcct
     3781 tgctgcttat tctcattcca gagcacaact acgccctgtg atttatgttc agtaaagtga
     3841 gcattccaac ttttgttttc ttgccattcc tttgctaccg ctggcattcc gataatcgat
     3901 gccaccaaaa acacagccga taaggctaat acacgcataa cgtccccttg cttaatgcaa
     3961 tatatccata caaattaagt gctaagctta tcattctctg ccctctcatt ccctagcaaa
     4021 ctgctgacca attgtggcaa caatcaggca caagctttaa ctattaccta aattccacgt
     4081 gtgtttttta ttagcttcaa aaatcactat ttcacgaaga atttagactg cttctcacac
     4141 attgtaacat tatttacaac cacctttcaa tcatttttga taaatcattg atttcatctt
     4201 tgctgcaatg atacttaata aactctgcaa gttatccaca gagcaacact caattttatt
     4261 gatgatattc ttagggggag tatgggattt tttaacctat ctaaagcgct tgaggaggtg
     4321 tctgatgctt ttggggctaa agaaaccgca atcgctagtg ccaagttgtt aggtaaggga
     4381 gttgttaacc tagctcattt tgcagcaaca acaggtttgg attcggtggt caaacaaacg
     4441 agcaacaaag ttctcaacag cgagtcttca accgaagaac aacgagaaca ggctaaaaag
     4501 tctgccgcat gggcagacgc gagaatcgcc gctagaaata aagcagaaaa caccgaagac
     4561 tagctgaacg cacatttcga caatgatgtg gactacatcg ttgatcataa cttcacggtg
     4621 cgctagcttc catagaagcc aactaataac aaggagttag catgtctgat tcagatttca
     4681 aaaatagccc tgagtatgat gactggattg aatctggtgg tagagatgaa gattacagtt
     4741 actactatga aaaatggcat agaagaactc aacgataatt cccgccgata aaaggaaagt
     4801 gatagcactt tcctttttta taactgacgg ccgttttgtt ccgtcaacgc tcaaagcctc
     4861 gcgatctgtc tccacgctcc cagcctcgat ccagtgcctt caggagcctg tgttcccttt
     4921 cttttgcaac ttgctgacta gcccggtcaa gccctccagc tgcttgctca agccgtccac
     4981 ttgctgcgtt aagccgttca cctgcctcgt caatcgctct gctgctgccc tgctgatctc
     5041 ggcctcttgt ttggtgctct cgtacatgct cgccaagttc gcgtagcttt cctgccatgc
     5101 cttgtgctgc tgctcgtatg cgctctgcaa agcctcgaac gcgcagagca attcccgctc
     5161 caatcccgtc atttagtacc ccttcggcac gatccaatag gtatccttcc cccaaacggt
     5221 tggattgggg tcggagatct gcacgcaaag gtgctccaat ttcttcccgc actgggtcag
     5281 ctttagcttg ccgcccttct ctgccaaggc ttggagagtg gcttgccgct ccgctatcaa
     5341 ttccccctga taccagagga tcccgctcgt tgcgctcaag aacaggacga tgctgaccag
     5401 catccagatc cacgttttga gcaacagcca gcccattttc tggctgtgct cggcaatagc
     5461 ggcgctcatt ttctcctcgc ttgatttcaa cgccccggag atagctttct cgtgcctcgt
     5521 gaattcttcg gtcagacgct tctcgatagc gttggcctgc tgcttcgagc tctgctcgaa
     5581 gtccttcgcc atgtctaaaa tcttgctcat acagcacccc ctttaatcgg atgttccgcc
     5641 ccccgtccgg gtcggcaatg ctcaggctgt ttttggtttc gcgtaccacg ctgaaacccg
     5701 caccctgcaa ggctttgcgc acatcatcgc ggctctggat ctcccctgct ccggccatgc
     5761 gtaaaagccc gtctgtaatg gcctgagcgg cctccttgtg ccccctcggc aaatcctttg
     5821 gcgtgataac ggcctgacgg tttaacggat cgtccgggtc gtgcaatttc agctccccgt
     5881 ttaccacggt tcgccacgca tcgaggcgcg gattgtcggc cttgtggaag tagggttgca
     5941 gccgcttccc gctctgcaat tcgatgttcg ggactacaaa attcagctcc agccgcccct
     6001 tgtcgcggtg ctctacccac aaaacagcgt actggttgcc ctccagtccg ggcaggagcg
     6061 ccttttcaaa gtcgctcatc agcttgtcct tggtcgccct gggtaaatca gcctcggcaa
     6121 acgacagaac gccaga
//
