LOCUS       NZ_CP036324             4986 bp    DNA     linear   CON 05-JAN-2024
DEFINITION  Klebsiella pneumoniae strain VBA2172 plasmid p4_VBA2172.
ACCESSION   NZ_CP036324
VERSION     NZ_CP036324.1
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 4986)
  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  JOURNAL   Unpublished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 4986)
  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 4986)
  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
            CP036324.1.
            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..4986
                     /organism="Klebsiella pneumoniae"
                     /mol_type="genomic DNA"
                     /strain="VBA2172"
                     /isolation_source="blood"
                     /host="Homo sapiens"
                     /db_xref="taxon:573"
                     /plasmid="p4_VBA2172"
                     /geo_loc_name="India"
                     /lat_lon="12.9165 N 79.1325 E"
                     /collection_date="2016"
                     /collected_by="Christian Medical College"
     gene            complement(<1..810)
                     /locus_tag="CK244_RS28155"
                     /old_locus_tag="CK244_028155"
     CDS             complement(<1..810)
                     /locus_tag="CK244_RS28155"
                     /old_locus_tag="CK244_028155"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_015484794.1"
                     /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_131082310.1"
                     /translation="MAIYAVWNNKGGVGKSYLTFQLASEYARQNPTKKVLVVDLCPQAN
                     SSSMLLGGMINGENTLNQIHSAIQRKTISGYIEDRIRSPYIPTNTGSSYVINVSTHNSK
                     VPNNLYLVTGDEQLELQASRVVGASFPGPHDAWRTVHLWINDLISDICNSWNNEDSCVF
                     IDCNPSFSIYTELALTAAERLLIPFSADGSSKRAVKAVLSLVYGERRHQNEPQSDFYLN
                     SNRYSMSLPQIYMYVGNRLTQMNNSSASAFKTVVTEIGDEIWKVWQTK"
                     /name="ParA family protein"
     gene            complement(1138..1304)
                     /locus_tag="CK244_RS30245"
                     /old_locus_tag="CK244_028160"
                     /pseudo=""
     CDS             complement(1138..1304)
                     /locus_tag="CK244_RS30245"
                     /old_locus_tag="CK244_028160"
                     /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            1720..1911
                     /locus_tag="CK244_RS28170"
                     /old_locus_tag="CK244_028170"
     CDS             1720..1911
                     /locus_tag="CK244_RS28170"
                     /old_locus_tag="CK244_028170"
                     /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"
     gene            1911..2312
                     /locus_tag="CK244_RS28175"
                     /old_locus_tag="CK244_028175"
     CDS             1911..2312
                     /locus_tag="CK244_RS28175"
                     /old_locus_tag="CK244_028175"
                     /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            3107..3511
                     /locus_tag="CK244_RS28185"
                     /old_locus_tag="CK244_028185"
     CDS             3107..3511
                     /locus_tag="CK244_RS28185"
                     /old_locus_tag="CK244_028185"
                     /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(3605..4036)
                     /locus_tag="CK244_RS28190"
                     /old_locus_tag="CK244_028190"
     CDS             complement(3605..4036)
                     /locus_tag="CK244_RS28190"
                     /old_locus_tag="CK244_028190"
                     /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            4454..4798
                     /locus_tag="CK244_RS28195"
                     /old_locus_tag="CK244_028195"
     CDS             4454..4798
                     /locus_tag="CK244_RS28195"
                     /old_locus_tag="CK244_028195"
                     /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_131082311.1"
                     /translation="MGSNNNQNKDLQDKQADLLDQTYTLGWMDGYAEGYDDAIEDTQNA
                     LNKLENENELLTEVVESKDNVIKELASSAGRALQAVKKNKKKALLRALLFYSIIPARAT
                     MLGTCLSSCV"
                     /name="hypothetical protein"
     Typing          complement(1139..1675)
                     /name="rep_cluster_2335"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="87.906"
                     /coverage="90.0"
                     /evalue="5.3e-178"
ORIGIN
        1 ttttgtttgc catactttcc aaatttcatc accaatttcg gttactaccg tcttaaatgc
       61 actggcagat gaattgttca tttgcgttaa tctatttcca acatacatat atatttgtgg
      121 tagcgacata gaataacgat tgctattaag atagaaatct gattgtggtt cattctgatg
      181 gcgacgctca ccataaacta aagaaagtac agccttaact gctctctttg atgaaccatc
      241 ggcagagaaa ggaattaaaa ggcgctctgc tgcggttaaa gctaactctg tataaataga
      301 gaagctaggg ttgcagtcaa tgaatacgca gctatcttca ttattccatg agttgcaaat
      361 gtcactgatt aaatcattaa tccagaggtg aacagtacgc catgcatcat ggggacctgg
      421 aaatgatgcc ccaacaactc ttgatgcttg gagttctaat tgttcatcgc cagtgacaag
      481 atatagatta tttggaactt tactattgtg tgtagataca tttattacat agctagaacc
      541 agtgttggta ggaatatatg gacttctgat cctatcctca atatatccag atattgtctt
      601 tctctgtatt gctgaatgaa tctggtttag tgtgttttcg ccatttatca ttccaccaag
      661 taacatagag gacgagttcg cttgtgggca caggtcaacc accaggacct ttttagtagg
      721 gttctgtctg gcatattcag aggctaactg aaaagtaagg taacttttcc ctacaccacc
      781 cttgttattc catacggcat agatcgccat ctataactcc taatctagtt ttgttgttag
      841 cttagattca gggtactaga gattattgtt ctactgttag tttctttcag ctgactgcct
      901 ttttttggaa cgatattcag tcgaaggggt tggctggctc accatgactt atctggagtt
      961 gtcgaattcc gattaaaagg atcttcttga gatcctaacc tgcgggatgt aatcttttgc
     1021 tctgtaaacg aaaaaccacc tggggaggtg gttttcgaag gatcagtaag ttggggaact
     1081 tctgaaccgt ggtaacaggg tgtacaagac cgctgccacc aaatctgtcc tttcagttta
     1141 gctgtagtta ggctgtaact tcaagaactc tgcaccagta attcttgtac accccttacc
     1201 agtggctgct gccagtggcg ttttgtcgtg ccttccgggt tggactcaag tcgaaagtta
     1261 ccggaacagg cgcagcagtc ggactgaacg gggggttcgt gcatacagtc cagcttggag
     1321 cgaactgcct acccggaact gagtgtcagg cgtggaatga gacaaacgcg gccataacag
     1381 cggaatgaca ccggtaaacc gaaaggcagg aacaggagag cgcacgaggg agccatcagg
     1441 gggaaacgcc tgatatcttt atagtcctgt cgggtttcgc caccactgat ttgagcgtcc
     1501 gtttctgtga tgcttgtcag gggggcggag cctatggaaa aacggccgct gtgcggcctt
     1561 cccttctttt ctaaatgtga tcgctcggtt ttctcgagct ttcatacgca tgctcctgcc
     1621 gctcgccgca gccgaacggc aggagcgtag cgactgagtg agcgaggaag cggaaaagag
     1681 aacatcccta cactgagcac tgacgctctg aggcctctta tgacgaaaca acagaaaaca
     1741 gcgctgaaca tggctaaatt catccagcat caatctctgc tcctgctgga gaagcttaac
     1801 gagcttgatc ttgatgtcga ggccgacctt tgtgagaaac tccacgatga tgcggagcat
     1861 cttttccgta cactgtcctc gagactggat gcattacagg atggtaactg atggccagag
     1921 tgtctattag tgaggcagcc cgactgacgg gtaagagtag aacaacactg cacaggttaa
     1981 ttaaagcagg tgacctgtcc acctgtagcg gtgagcgcaa tgcaaaaatg gtagatactt
     2041 cagagctttt acgtgtcttt ggtccctttg aacaactgaa gggtgaacac cattctggac
     2101 aggtctctga acagcgcgat acagcctctg ttgaccagtg tgaacaggtg attcgtcatc
     2161 tgaaacagga gattgaacac ctgaacactt tacttttgtc caaagattcg cacattgaca
     2221 gcctgaaaca ggccatgctc cttcttgaaa atcaccaggc aaaattaact gaatccccgg
     2281 cgccatggtg gaaattctgg aaaaaatcct gaccctgtca tgcttcagtt ttcctctccg
     2341 gccatcccgg ggagttcctg aaccttccca aaaatagtca gatctctgaa cgctcctcac
     2401 cactaaaaat acccacaccc cacgcaaaat taaaattttg cagatttgta tttaatatca
     2461 gtagtttact ttcctgagat ttcgtttttt aaattttatt tatatagatc cgactctatg
     2521 acgactcgtc atagagtccc cggcgagtcg tcatagagtc ggtaacgact cagggctata
     2581 aaaacaatga gttaataacg acccgactct agacccgact ccccgtttgg ttgtttttta
     2641 gtcgcggcga ctctaggtac gactctagtg cagagtcgcc ggtgaatcgt gtggtgagtc
     2701 gtccggcgac ttgccataac gtgattgccg gccgtcgacg aacccgattc ctgaacgtgc
     2761 tgaaaaccgg ttttccggct gcgccggcaa cgcttcacgg ccacgcaata aattgcgtcc
     2821 ccgttcaccg ttttcggatg ggaagaacgc cggaaacagg acttaccctg tctgaatggc
     2881 gtgaatattc gcgctatgca cttgcgtgca tactcatgca tgccataaaa acagagcctg
     2941 cgcgtttctg gcgggttttc gggtggtttg ttgcctgttt taccggtttc ccgtcagaaa
     3001 cgccctcagc gcgtttctga cgatgctgat aacggatgtt atggtaaatt atccgcttgt
     3061 ctgaaagctg gctgccgaag caaccaagga aaggagaaca gacctgatga ccattttagt
     3121 gacgatacag gcccagctcg ttgtcgggga ggaacaggtt ataaagagcc tcgctcctga
     3181 gggcatgctg gccgccgtgt tcgaagacga tggccggacc gggtatttct atgcgctcga
     3241 tgagtccgtc gagggaaacc cgattatgga cgcagtacac atctacaatg ccgaagacgt
     3301 ttcagacggt cacattcctt ctgatgttaa aattggctgg tcagaagaca gtcagaagtg
     3361 cgtactcctg atcaatggat acccgcacgg ggcattcgat ttcgtgggaa aaaacgggta
     3421 ctgcaggagt ggttatcctc cccctataaa caaggtgtgg tctctttccg ggcatgagtg
     3481 gagcgactct gtggatgatt ttttccggtg aattacggca ggctatagcc tgccattatg
     3541 gttcgaaaaa cggatgttat ggtaaattcg tctgtgaagt aggtagacat ttctaaagct
     3601 agttttaata gccaagtctc ttcaattcag tcgagaggcg tttgaggctt acatcaagat
     3661 tgcttttatt ttgttttaac tcttttttca taaactcagt gtgatgtgct agctcagggt
     3721 tatcagttga gcgagtcacg ggaaaatcat cactggatga aagtcgccca tttttactgt
     3781 agtccatggt gatacagatc agagttgcaa ggtcgattac ccggtgaaga ggcagctctt
     3841 ctgattgtct tgaccatttt tctcctgtgt ttcgccaaac ctttgccgaa agctcagtcc
     3901 atccaggagt gttccattga gcaataccta cagatagccc catagcatca gtgtcatcgg
     3961 catgtgggcc gtcaatgcgg tcgtaatttt cgacttgaat aattggttta tgcttcaaat
     4021 gcgcgggtat tttcatcagt tcgtccttag gtaatgtttg tgattattaa attacattgt
     4081 ttttctaatt ataaaactca ctaaatgtaa gtaaatatta atatctattg ttatcatgtg
     4141 cttgtgattt tgtttttcca attttatgtt ttttgcttgg agagtagcgg tgtttttttg
     4201 tgtcaagtgt tatgataagc cgtacgtttt ttttctggtt tatagttcgg ttattcacag
     4261 caatgggcgt ggttttctat gactacagat aacgttagga atattggcga ctataaaaag
     4321 aaagatgtcg gggtggatgc tgactgtaat ccagtctcag gaaacacacc accagtcaga
     4381 ctaagtgaga aacttagaaa tggaattcct cctggtttga aaactcagat gcgccaacaa
     4441 atgaggaaaa aacatgggct ctaacaataa tcagaataaa gatctgcagg ataagcaagc
     4501 tgatcttttg gaccaaacgt atactcttgg ttggatggat ggctatgccg aagggtatga
     4561 tgatgctatt gaagatactc agaacgcttt gaataaactg gaaaacgaaa acgagttgct
     4621 tactgaggtt gttgaaagta aagataatgt aatcaaagag ttggcctcta gtgctggcag
     4681 ggcgctgcaa gcagtaaaga aaaacaaaaa aaaggccctt ttaagggcct tgctatttta
     4741 ttcgatcata ccagcgagag ctacaatgtt ggggacttgt ttatctagct gcgtctgatt
     4801 aacctttatt atttttcctg aaacagtttt atttcctgca gttaatgtcg cgattggaat
     4861 acctaaggct ccagatacga cagatgctgt gtttgcatca tttacttcat actgaaacat
     4921 attcctgaaa gatcttttat tatttggcgt tgagctccca tttgggtgaa tacaaaacag
     4981 acttgg
//
