LOCUS       NZ_CP036325             3991 bp    DNA     linear   CON 05-JAN-2024
DEFINITION  Klebsiella pneumoniae strain VBA2172 plasmid p5_VBA2172.
ACCESSION   NZ_CP036325
VERSION     NZ_CP036325.1
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 3991)
  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  JOURNAL   Unpublished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 3991)
  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 3991)
  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
            CP036325.1.
            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..3991
                     /organism="Klebsiella pneumoniae"
                     /mol_type="genomic DNA"
                     /strain="VBA2172"
                     /isolation_source="blood"
                     /host="Homo sapiens"
                     /db_xref="taxon:573"
                     /plasmid="p5_VBA2172"
                     /geo_loc_name="India"
                     /lat_lon="12.9165 N 79.1325 E"
                     /collection_date="2016"
                     /collected_by="Christian Medical College"
     gene            489..761
                     /locus_tag="CK244_RS28205"
                     /old_locus_tag="CK244_028205"
     CDS             489..761
                     /locus_tag="CK244_RS28205"
                     /old_locus_tag="CK244_028205"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_004897311.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_019405140.1"
                     /translation="MATDAQVKEINALIKKYPDSCSICHEVYDEDDVTYTVFGYDRKGK
                     IQVTTGCCAGMLTEPVLLGVCGCFDPEERDEIMQNHPMAKQFFTE"
                     /name="hypothetical protein"
     gene            1342..2316
                     /locus_tag="CK244_RS28210"
                     /old_locus_tag="CK244_028210"
     CDS             1342..2316
                     /locus_tag="CK244_RS28210"
                     /old_locus_tag="CK244_028210"
                     /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_114269875.1"
                     /translation="MAFFNLLFVASLICFGGVMGSYSRGCRDSQNKFSKDKDENNKRAS
                     VYRFGIASAFICVPFISSFLHVDYSSIIFPVADGGGTKFIEQILLLISVSGISAYLGYA
                     LLDGLANKVLKEQVDGIDKKQQDLEAEQDEFKDELDRSKELIEQLEMDKKTTKFELGYF
                     KAISAVDKAESMMSIPDEALSVKKKLTEALDAVTESLSLVKREDVAKDDYDKLLVLKAY
                     ILKRLDRIDDALSITDELLMSNEDNPILIYNKACYQYILRRCQADNSDIKDMIRRALTI
                     KVTDPEFIRRQEKIRTKVIGNKDNDLEGLFTDAELEELKVAIK"
                     /name="hypothetical protein"
     gene            complement(2543..2655)
                     /locus_tag="CK244_RS30060"
                     /old_locus_tag="CK244_028215"
                     /pseudo=""
     CDS             complement(2543..2655)
                     /locus_tag="CK244_RS30060"
                     /old_locus_tag="CK244_028215"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_005761324.1"
                     /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            3063..3254
                     /locus_tag="CK244_RS28225"
                     /old_locus_tag="CK244_028225"
     CDS             3063..3254
                     /locus_tag="CK244_RS28225"
                     /old_locus_tag="CK244_028225"
                     /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_040198051.1"
                     /translation="MTKQQKTALNMAKFIQNQSLLLLDKLNELDLDVEADLCEKLHDDA
                     EHLFRTLSSRLDELQDGN"
                     /name="Rop family plasmid primer RNA-binding protein"
     gene            3254..3676
                     /locus_tag="CK244_RS28230"
                     /old_locus_tag="CK244_028230"
     CDS             3254..3676
                     /locus_tag="CK244_RS28230"
                     /old_locus_tag="CK244_028230"
                     /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_040214596.1"
                     /translation="MAIVSISEAARLVKVSRPTIYKMINSGKLSYTSVVKHGKAIKVID
                     TSELIRVFGSLDGVIDTVKYDVKSDAESTGINSVGLHDLQHRIALLEAENDGLKGAVKA
                     RDEHIDSLRQAMQLLEHKHEPSSPPHSPWWKFWKKS"
                     /name="helix-turn-helix domain-containing protein"
     Typing          complement(2544..3015)
                     /name="ColRNAI_rep_cluster_1987"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="86.777"
                     /coverage="92.0"
                     /evalue="7.8799999999999974e-146"
ORIGIN
        1 ggtggctttt tgaccatggc gactctagag tcaagtcacg agtcgaatcg ccggtgaatc
       61 gtgtggtgag tcgtccggcg acttgccata atgtgattgc tggtctcgac aaacccgatt
      121 cctgaacgtg ctgaaaaccg gttttccggc tgcgccggca acgcttcacg gccacgcaat
      181 aaattgcgca cccgttcacc gttttcagtc tggtttggtg cgggttttga gttgcctggc
      241 ctgaattcag gctgaaatcc ccagacagtc agtcaagtgc ataacgattc atgcccgtaa
      301 aacgccctgg agcgattttg aggcgttttc agggggtaag acgtaggatt taatgggtta
      361 cgccccagaa tcgttctgag gccgttttag cggtgcgtgt aatgggacgt tatggtaaat
      421 caacggcgga tgcctgagtc tgtgttagag tcagcggatt gtgataatca gtgactcagg
      481 gagatgtttt ggctactgac gctcaggtaa aagaaattaa tgcactcatc aaaaaatacc
      541 cggactcatg ctccatctgt catgaagtct atgatgagga tgatgtgacc tacaccgttt
      601 ttgggtatga ccggaaaggt aaaatacagg tcaccacggg atgctgtgcc ggaatgctga
      661 cagagccggt tctgctgggt gtctgtgggt gctttgaccc ggaagaacgt gacgagatca
      721 tgcagaatca ccccatggca aagcagtttt tcacagagtg attccgtatc tgttgagtct
      781 gaagcccgcc ttgtgcgggc tttttcatat ctgcgtgaaa tgaggcgtta tggtaaatgc
      841 acgcattcat tcttttgaaa aatccagaat gacgaataca tggggcatgt ttatatgact
      901 attgagagga aggatgttat tgtaaaaaaa tcctttaaat tcaatcattt aattatggta
      961 gccaaagggg cggggcttcg cttattccta aggaataagc gaagccccgc ccctttggct
     1021 accagtgcat tatacttttt ttttcaccca atgtcaatac atgggttgat tttatcattt
     1081 taagcatttt tgttgttgtg agtgctgggt ttatgcccta tattcagcgc taagcaagca
     1141 tgggcttgca aaggaacaat taatgagagg tgctctatga aaaaaatcaa acttcacgat
     1201 gagcgtccag acttgtaagt gtcaagtcag cagaaaaagg cagccaaggc tgcctttttt
     1261 gttattggtt agtatatgat tgagcttatc ttaacttacc tgaacaaagt tttattgttt
     1321 gctttgcgca aggattctct catggctttt tttaacctat tgtttgttgc atctctaatt
     1381 tgttttggtg gtgttatggg gagctattcc agaggttgcc gagactccca aaataaattt
     1441 tcaaaagata aggatgagaa taataaaaga gctagtgttt atagatttgg tatagcatcc
     1501 gcatttattt gtgttccttt catatcatca tttcttcatg ttgattactc aagtataata
     1561 tttcctgtgg ctgatggtgg tggaactaag ttcatagaac aaatattgct tcttatttct
     1621 gtttcgggga tctctgcgta tcttgggtac gcattactgg atggtcttgc caacaaagta
     1681 ttaaaagagc aagtagacgg tatagataaa aagcaacaag atttggaggc tgaacaagat
     1741 gagtttaaag atgagcttga taggagcaag gagctgatag aacagcttga aatggataag
     1801 aaaacaacaa aattcgagct aggatacttt aaagccattt cagctgtgga taaagcagaa
     1861 tcaatgatgt ccattccgga tgaggctctt tctgttaaga aaaaactaac tgaggcatta
     1921 gatgctgtaa cggaatcatt gtctcttgtt aaaagagagg atgtagctaa ggatgactac
     1981 gacaagctct tagtgcttaa agcttatatt ttgaaaagac ttgatcgtat tgatgatgct
     2041 ctgtcaatta cggatgagtt acttatgagt aatgaggata accctatact tatttacaat
     2101 aaggcttgct atcaatatat tttgcgtcgt tgccaagctg ataactccga tattaaggat
     2161 atgattcgca gggctctgac tattaaagtt acagatcctg aattcattcg caggcaagaa
     2221 aaaataagaa ccaaggtcat aggaaataaa gataatgatc ttgaagggtt gtttactgac
     2281 gctgagctgg aggaattaaa ggtggctatc aaataggcag tggctagctc tatgaattcc
     2341 aaaaagatcc ttgacgatcc tttgaggtgc agcgtactct acccctcaaa cgaaaaaacc
     2401 acccggcaag gtggtttttc gaaggttcag taaccggcaa gtttctgaac cgaggtaact
     2461 ggcttagagg agcgcagtca ccaaaacagt tcgtttagtt tagccttaac tggcgcataa
     2521 cttcaagact aactcctcta aatcaattac cagtggctgc tgccaatggc gataagtcgt
     2581 gtctttccgg gttggactca agagatagtt actggaacgg gcgcagcagt cggactgaac
     2641 ggggggttcg tgcatacagt ccagcttgga gcgaactgcc ttcccggagc cgagtatcag
     2701 gcatggaatg agaaaacgcg gccataacag cggaatgaca ccggtaaacc gaaaggcagg
     2761 aacaggagag cgcacgaggg agccaccagg gggaaacgcc tggtatcttt aagtcctgtc
     2821 gggtttcgcc accactgatt tgagcgtccg tttccgcgat gcttgtcagg ggggcggagc
     2881 ctatggaaaa acagccgttc ggcggccttt gcttttctgc ctcatatctt ggttgcctac
     2941 gtttttatgt acacgctcct gccgctcgcc gcagccgaac ggctggagcg tagcgactga
     3001 gtgagcgagg aagcggaaaa gagactagtt tgacattgag cactgacgct ctgaggcttc
     3061 ttatgacaaa acaacagaaa acagcgctga acatggctaa attcatccag aatcagtctc
     3121 tgctcctgct ggataagctt aacgagcttg atctcgatgt cgaggccgac ctttgtgaga
     3181 aactccatga tgatgcggag catcttttcc gtacactgtc ctcgagactg gatgaattac
     3241 aggatggtaa ctgatggcca tagtgtctat tagtgaagcg gcacggcttg ttaaggttag
     3301 tcgccccaca atttacaaga tgattaacag tgggaagtta agttacacct ctgtggtaaa
     3361 gcacgggaaa gctattaaag ttattgatac ttcagagcta attagagtgt ttggttctct
     3421 tgatggtgta atcgatactg taaaatatga tgtaaaaagt gacgcagaat ctacaggtat
     3481 taacagcgtt ggtttacatg atttacaaca tagaatcgct ttacttgaag ctgaaaacga
     3541 tggtcttaaa ggggctgtta aggctcgaga tgagcatatt gattcccttc gtcaggctat
     3601 gcagcttctg gagcacaagc acgaaccttc ttcaccaccc cattccccgt ggtggaaatt
     3661 ctggaaaaaa tcctgatccc gccatgcttc cattttgctc tccggccatt ccggggagtt
     3721 cctgaacctt cccaaaaatc gtcagatccc tgaacgctcc tcaccactaa aaatacccac
     3781 acactacgca aaattaaaat tttgcagata gacctttatt ttcaatcagt tatctatttt
     3841 aaattacgca attttatttt ttgtaaggtg aatccgagtc gtggacgact ctatggcgaa
     3901 tcgccgatga cttgcccacg attcatatgt gaatcacgcc atataatcag tacgttatga
     3961 tgacttgact ctagagtcga cttgccgggt t
//
