LOCUS       NZ_CP067050             4773 bp    DNA     linear   CON 30-MAY-2024
DEFINITION  Klebsiella pneumoniae strain B6753 plasmid p_unnamed_3.
ACCESSION   NZ_CP067050
VERSION     NZ_CP067050.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN16393502
            Assembly: GCF_015159775.2
KEYWORDS    RefSeq.
SOURCE      Klebsiella pneumoniae
  ORGANISM  Klebsiella pneumoniae
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Klebsiella/Raoultella group; Klebsiella.
REFERENCE   1  (bases 1 to 4773)
  AUTHORS   Veeraraghavan,B., Shankar,C., Vasudevan,K. and Jacob,J.
  TITLE     Hypervirulent Multidrug resistant Klebsiella pneumoniae VB6753
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 4773)
  AUTHORS   Veeraraghavan,B., Shankar,C., Vasudevan,K. and Jacob,J.
  TITLE     Direct Submission
  JOURNAL   Submitted (04-JAN-2021) Clinical Microbiology, Christian Medical
            College, Ida Scudder Road, Vellore, Tamil Nadu 632004, India
REFERENCE   3  (bases 1 to 4773)
  AUTHORS   Veeraraghavan,B., Shankar,C., Vasudevan,K. and Jacob,J.
  TITLE     Direct Submission
  JOURNAL   Submitted (08-OCT-2020) Clinical Microbiology, Christian Medical
            College, Ida Scudder Road, Vellore, Tamil Nadu 632004, India
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Date                     :: 2020
            Assembly Method                   :: Unicycler v. 4.8
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 81.6x
            Sequencing Technology :: Illumina HiSeq; Oxford Nanopore MinION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_015159775.2-RS_2024_05_30
            Annotation Date                   :: 05/30/2024 04:08:39
            Annotation Pipeline :: NCBI Prokaryotic Genome Annotation Pipeline
            (PGAP)
            Annotation Method :: Best-placed reference protein set; GeneMarkS-2+
            Annotation Software revision      :: 6.7
            Features Annotated                :: Gene; CDS; rRNA; tRNA; ncRNA
            Genes (total)                     :: 5,670
            CDSs (total)                      :: 5,550
            Genes (coding)                    :: 5,387
            CDSs (with protein)               :: 5,387
            Genes (RNA)                       :: 120
            rRNAs                             :: 9, 8, 8 (5S, 16S, 23S)
            complete rRNAs                    :: 9, 8, 8 (5S, 16S, 23S)
            tRNAs                             :: 87
            ncRNAs                            :: 8
            Pseudo Genes (total)              :: 163
            CDSs (without protein)            :: 163
            Pseudo Genes (ambiguous residues) :: 0 of 163
            Pseudo Genes (frameshifted)       :: 74 of 163
            Pseudo Genes (incomplete)         :: 96 of 163
            Pseudo Genes (internal stop)      :: 28 of 163
            Pseudo Genes (multiple problems)  :: 32 of 163
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP067050.1.
            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..4773
                     /organism="Klebsiella pneumoniae"
                     /mol_type="genomic DNA"
                     /strain="B6753"
                     /isolation_source="blood"
                     /host="Homo sapiens"
                     /db_xref="taxon:573"
                     /plasmid="p_unnamed_3"
                     /geo_loc_name="India"
                     /lat_lon="12.9165 N 79.1325 E"
                     /collection_date="2019"
                     /collected_by="Department of Clinical Microbiology,
                     Christian Medical College, Vellore"
     gene            <1..484
                     /locus_tag="IL988_RS28200"
                     /old_locus_tag="IL988_028090"
     CDS             <1..484
                     /locus_tag="IL988_RS28200"
                     /old_locus_tag="IL988_028090"
                     /inference="COORDINATES: ab initio prediction:GeneMarkS-2+"
                     /note="Derived by automated computational analysis using
                     gene prediction method: GeneMarkS-2+."
                     /codon_start=2
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_193768271.1"
                     /translation="FIFGIVIVKILTNRSYFHFIIYQKMSAYKKLFTITRHYAHRSNAP
                     ETILGRNPSNPTSYPLKTPQNRPRAFYGHELLCTRLIGGGFQPEFTPDNSKPAPNQTAN
                     GERGRNLLRDREALPAQPENRFSARSGIGFVDGRQSRYGKSPDDSPHDSPAIRLVT"
                     /name="hypothetical protein"
     gene            complement(830..1252)
                     /locus_tag="IL988_RS28205"
                     /old_locus_tag="IL988_028095"
     CDS             complement(830..1252)
                     /locus_tag="IL988_RS28205"
                     /old_locus_tag="IL988_028095"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:YP_005229777.1"
                     /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_048290308.1"
                     /translation="MARVSISEAARLVKVSRPTIYKMINSGKLSYTSVVKHGKHTKVID
                     TSELIRVFGSLYGGDDTVKHDVKGDAGATAVNILGLHDLQHKIALLEAENDGLKGAVKA
                     RDEHIDSLRQAMQLLEHKHEPSPQVHSPWWKFWKKS"
                     /name="helix-turn-helix domain-containing protein"
     gene            complement(1252..1443)
                     /locus_tag="IL988_RS28210"
                     /old_locus_tag="IL988_028100"
     CDS             complement(1252..1443)
                     /locus_tag="IL988_RS28210"
                     /old_locus_tag="IL988_028100"
                     /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_032421723.1"
                     /translation="MTKQQKTALNMAKFIQNQSLLLLEKLNELDLDAEADLCEKLHDDA
                     EHLFRTLSSRLDELQDGN"
                     /name="Rop family plasmid primer RNA-binding protein"
     gene            1859..1972
                     /locus_tag="IL988_RS28215"
     CDS             1859..1972
                     /locus_tag="IL988_RS28215"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_005761324.1"
                     /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_071997595.1"
                     /translation="MHEPPVQSDCCACFGNYRLESNPKRHDKTPLAAATGN"
                     /name="replication initiation protein"
     gene            complement(2187..2411)
                     /locus_tag="IL988_RS28220"
                     /old_locus_tag="IL988_028105"
     CDS             complement(2187..2411)
                     /locus_tag="IL988_RS28220"
                     /old_locus_tag="IL988_028105"
                     /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_197986819.1"
                     /translation="MKIKLLDSVYNVEPKTDIMAWDNHWNYQWSGRTSGITKDAIKWRK
                     ESDGQFIVCDETGAVWLVDQNELDNLLAA"
                     /name="hypothetical protein"
     gene            2548..3438
                     /locus_tag="IL988_RS28225"
                     /old_locus_tag="IL988_028110"
     CDS             2548..3438
                     /locus_tag="IL988_RS28225"
                     /old_locus_tag="IL988_028110"
                     /inference="COORDINATES: protein motif:HMM:NF015983.4"
                     /GO_function="GO:0051539 - 4 iron, 4 sulfur cluster binding
                     [Evidence IEA]; GO:0003824 - catalytic activity [Evidence
                     IEA]; GO:1904047 - S-adenosyl-L-methionine binding
                     [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="radical SAM protein"
                     /protein_id="WP_048290309.1"
                     /translation="MFELKSPLLLVIDITNECNLSCNYCFQDFRSDTKNSINLGTITEI
                     LSEAKDMGIFEINICGGEPFKHKDIINIISEVKRVGFNLSIVTNGTLINKKTALLLNEL
                     DVIKNMQISFDSHIDSIHNKLRGGYHQAIRGLDYLLSYDSPPPSIGIVISKENVNHINE
                     TIDFFSRKGIRRFHIMNLLGNKELSCSDAELNEATKRINESFLQSRDGDKKLIISNLDF
                     KEKKDYQYKDVHINCLAGYTTLVLTSSLNIIPCDMVNYIIKKWKKKGDLRDGFELSKKQ
                     WLGLKESWCKGCFKC"
                     /name="radical SAM protein"
     gene            complement(3973..4263)
                     /locus_tag="IL988_RS28230"
                     /old_locus_tag="IL988_028115"
     CDS             complement(3973..4263)
                     /locus_tag="IL988_RS28230"
                     /old_locus_tag="IL988_028115"
                     /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_226554717.1"
                     /translation="MVRLIKDDRLRTLATFDGKTLKDDRLRTLATFDGKTLKDDRLRTL
                     ATFDGKTLKDDRLRTLATFDGKTLKDDRLRTLATVDGSVSIVIIAFAARIF"
                     /name="hypothetical protein"
     gene            complement(4381..>4773)
                     /locus_tag="IL988_RS28235"
                     /old_locus_tag="IL988_028120"
     CDS             complement(4381..>4773)
                     /locus_tag="IL988_RS28235"
                     /old_locus_tag="IL988_028120"
                     /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_193768272.1"
                     /translation="SFPEVGSRREEQAHFVWIALTSWCLFNKNKTITYGELAKLIGYPA
                     QAGRTLAEALGTVSLYCLYNDLPPLSCIVVAKNTNHPGWEGMIPSNSSLEKEQNKVWET
                     SWNLYRTPSVGTLRRAREELNWDEFI"
                     /name="hypothetical protein"
     Typing          1565..1972
                     /name="ColRNAI_rep_cluster_1987"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="91.484"
                     /coverage="99.0"
                     /evalue="1.3e-157"
ORIGIN
        1 ttttattttt ggaattgtca ttgttaaaat tctcacaaac cgttcatatt ttcactttat
       61 aatataccaa aagatgagtg cgtacaaaaa actatttacc ataacgcgtc attacgcgca
      121 ccgctcaaac gccccagaaa cgattctggg ccgtaaccca tcaaatccta catcttaccc
      181 cctgaaaacg cctcaaaatc gccccagggc tttttacggg catgaattgt tatgcaccag
      241 actgattggt ggcggatttc agcctgaatt cacgccagac aactcaaaac ccgcaccaaa
      301 ccagactgca aacggtgagc ggggacgcaa tttattgcgt gaccgtgaag cgttgccggc
      361 gcagccggaa aaccggtttt cagcacgttc aggaatcggg ttcgtcgacg gccggcaatc
      421 acgttatggc aagtcgccgg acgactcacc acacgattca ccggcgattc gactcgtgac
      481 ttgactctag agtcaccatg gtcaaaaagc caccaacccg gcaagtcgac tctagagtca
      541 agtcatcata acgtactgat tatatggcgt gattcacata tgaatcgtgg gcaagtcatc
      601 ggcgattcgc catagagtcg tccacgactc ggattcacct tacaaaaaat aaaattgcgt
      661 aatttaaaat agataactga ttgaaaataa aggtatatct gcaaaatttt aattttgcgt
      721 agtgtgtggg tatttttagt ggtgaggagc gttcagagat ctgacgattt ttgggaaggt
      781 tcaggaactc cccgggatgg ccggagagga aaactcaagc atggcaggat caggattttt
      841 tccagaattt ccaccacgga gaatgaacct gtggagaggg ttcgtgcttg tgctccagaa
      901 gctgcatagc ctggcgaaga gaatcgatat gttcatcacg agctttaaca gcccctttaa
      961 gaccatcgtt ttcagcttca agcaaagcaa ttttatgctg taaatcatgt aaaccaagga
     1021 tgttaaccgc tgtagcgcct gcgtcacctt ttacatcatg ttttacagtg tcgtccccac
     1081 catacagcga gccaaaaacc ctaataagct ctgatgtatc aataacttta gtatgtttcc
     1141 catgctttac aacagaggtg taacttagtt tcccactgtt aatcatcttg taaattgtgg
     1201 ggcgactaac cttaacaagc cgtgccgctt cactaataga cactctggcc atcaattacc
     1261 atcctgtaat tcatccagtc tcgaggacag tgtacggaaa agatgctccg catcatcgtg
     1321 gagtttctca caaaggtcgg cctcagcatc aagatcaagc tcgttaagct tctccagcag
     1381 gagcagagac tgattctgga tgaatttagc catgttcagc gctgttttct gttgtttcgt
     1441 cataagaggc ctcacagcgt cagtgctcag tgtagggatg ttctcttttc cgcttcctcg
     1501 ctcactcagt cgctatgctc ctgccgttcg gctgcggcga gcggcaggag catgcgtgta
     1561 aaagctcgag aaaaccgagc ggtcgcgtga cggggaaaag gaaaggccgc taagcggccg
     1621 tttttccata ggctccgccc ccctgacaag catcacgaaa tctgacactc aaatcagtgg
     1681 tggcgaaacc cgacaggact ataaagatac ctatcatttc tgataggcgg ctccctcgtg
     1741 cgctctcctg ttcctgcctt tcggtttacc ggtgtcactc cgctgttatg gccgcgttta
     1801 tctcattcca cgcctgacac tcagttccgg gtaggcagtt cgctccaagc tggactgtat
     1861 gcacgaaccc cccgttcagt ccgactgctg cgcctgtttc ggtaactatc gacttgagtc
     1921 caacccgaaa agacacgaca aaacgccact ggcagcagcc actggtaact gatttagagg
     1981 agttagtctt gaagtcatac gccagttaag gctaaactaa acgaacagtt ttggttactg
     2041 cgctcctcca agccagttac ctcggttcaa agagttgctg ctcagagaac ctttgaaaaa
     2101 ccgccttgct gggcggtttt tctctttcag gggagaagat tacgatggga aggtgaggat
     2161 ctcaagtaaa tactagaaat atggcgttat gcagcgagca agttatccaa ctcattctga
     2221 tctactagcc agacagctcc tgtctcatca caaacaataa actgcccatc agactctttc
     2281 ctccacttaa tggcatcctt cgtaattccc gatgtacggc cactccattg ataattccaa
     2341 tgattatccc acgccatgat atccgtttta ggctctacgt tataaaccga atctaacagc
     2401 ttgattttca ccgcaattac ctctcaagaa aaaatctaga actacagatg agcatataaa
     2461 atactgaatc gaattttatt gactaccgtc aagactaatc aattaattga aaaatataat
     2521 aaaaaccaaa aacacagggt aacgattatg ttcgaattga aatcaccatt gctattggtc
     2581 attgatataa ccaatgagtg taatttatca tgcaattatt gcttccaaga tttcagatcg
     2641 gatactaaaa acagcatcaa cttaggtaca atcaccgaaa tattatcaga agcaaaagat
     2701 atgggtattt ttgagataaa catatgtggc ggagaaccat ttaagcacaa agatattata
     2761 aatataatat ctgaagtaaa gagagttggg tttaatttat ccattgtaac taacggtaca
     2821 ttgatcaata aaaaaacagc attactactc aatgaacttg acgttataaa aaacatgcag
     2881 attagttttg atagccatat agattccatt cacaacaagt taagaggagg ttaccatcaa
     2941 gcaattagag ggttagacta cttgctttct tatgattccc ctcccccatc aataggcata
     3001 gttataagta aagaaaatgt taatcatata aatgaaacta tagatttttt ttccaggaag
     3061 ggaatacgca gatttcacat aatgaaccta ctgggtaaca aagagctatc atgttcagat
     3121 gctgaattaa acgaagcaac aaaaagaata aatgaatcat ttttacaatc aagagatggc
     3181 gataaaaaat taataatatc caacttagat tttaaagaaa agaaagacta tcaatataaa
     3241 gatgtgcaca tcaactgcct tgccggatac actacgttag tcttgacatc atctttaaat
     3301 ataatacctt gcgatatggt taattatatt ataaaaaaat ggaaaaaaaa aggtgatttg
     3361 cgtgatggct ttgaactttc aaaaaaacaa tggcttggat taaaggaatc atggtgtaag
     3421 ggttgtttta aatgctaagt gtattaacat gtaaatgcga gtaaaatagt tttccactac
     3481 tctatactga atactaaaaa tctttttaat ggggtttgat ggccaaccgt acgaaaacgt
     3541 acggtaagag gaaaattatc gtctgaaaaa tcgatttata gacaagcctg tccgttaaat
     3601 gccaattttc gattaaaaag acaccgtttt gagggcgttt ttcaatgtcc attatgtttc
     3661 gatatatcag acacttactt aactaacgta cgtttccgtt ccattggact tcatacccgt
     3721 ggtacggttt ctttggcaaa cgcagactga atagatcaat ggcatggcta gtcaatgtag
     3781 catgagctta tggcgggctg ttgtttggcg catttcatgc gctaatatcc ttttaggttt
     3841 tgtacctgcg ccctagtaat tgggaatcta ccgccaagtt gagtccacga tttctggggc
     3901 gttgtttttt ttacaaaaaa atcatactca tttataacac ctgtagatat aagtactttt
     3961 ttataaaaaa agtcaaaaga tgcgggcggc aaaagcgata attacaatac ttaccgaacc
     4021 atctacagtt gctaaggttc ttagcctgtc atccttgagg gtcttgccat caaaggtcgc
     4081 caaagttctt agcctgtcat ccttgagggt cttaccatca aaggtcgcca aagttcttaa
     4141 cctgtcatcc ttgagagtct tgccatcaaa ggtcgccaaa gttcttaacc tgtcatcctt
     4201 gagagtttta ccatcaaagg tcgccaaggt tcttagtctg tcatccttga tgagtcttac
     4261 catcaaaggt cgctaaagtt cttaacctgt catcttttat agttatagtc atatacatcc
     4321 cctattagaa attcattttt ctcaggtttg gattaattct gaatattact tttcataaaa
     4381 ttaaataaat tcatcccaat taagttcctc tctcgctctt cttaacgttc caaccgatgg
     4441 tgtcctatat agattccacg atgtttccca taccttattt tgttcttttt ctaatgatga
     4501 atttgaaggg atcattcctt cccatccggg atgattggta tttttggcaa caacaatgca
     4561 acttaagggg ggaagatcgt tatataaaca atacagtgag actgtaccta aagcctcagc
     4621 taaagtgcgt cctgcttgcg caggataccc aataagtttc gcaagttctc catatgtgat
     4681 tgttttattc ttattgaaca aacaccatga cgtcaaagcg atccacacaa aatgagcctg
     4741 ctcttctctt cttgaaccaa cttctggaaa tga
//
