LOCUS       NZ_CP083936             4167 bp    DNA     linear   CON 08-JAN-2024
DEFINITION  Klebsiella pneumoniae strain BA4946 plasmid p_unnamed_2.
ACCESSION   NZ_CP083936
VERSION     NZ_CP083936.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN21529401
            Assembly: GCF_026427375.1
KEYWORDS    RefSeq.
SOURCE      Klebsiella pneumoniae
  ORGANISM  Klebsiella pneumoniae
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Klebsiella/Raoultella group; Klebsiella.
REFERENCE   1  (bases 1 to 4167)
  AUTHORS   Veeraraghavan,B., Shankar,C., Teekaraman,M. and Shanmugam,S.
  TITLE     Klebsiella pneumoniae BA4946
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 4167)
  AUTHORS   Veeraraghavan,B., Shankar,C., Teekaraman,M. and Shanmugam,S.
  TITLE     Direct Submission
  JOURNAL   Submitted (21-SEP-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. June 2021
            Genome Representation             :: Full
            Expected Final Version            :: No
            Genome Coverage                   :: 60.0x
            Sequencing Technology :: Illumina HiSeq; Oxford Nanopore MinION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 01/08/2024 05:37:06
            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)                     :: 5,638
            CDSs (total)                      :: 5,516
            Genes (coding)                    :: 5,355
            CDSs (with protein)               :: 5,355
            Genes (RNA)                       :: 122
            rRNAs                             :: 9, 8, 8 (5S, 16S, 23S)
            complete rRNAs                    :: 9, 8, 8 (5S, 16S, 23S)
            tRNAs                             :: 85
            ncRNAs                            :: 12
            Pseudo Genes (total)              :: 161
            CDSs (without protein)            :: 161
            Pseudo Genes (ambiguous residues) :: 0 of 161
            Pseudo Genes (frameshifted)       :: 67 of 161
            Pseudo Genes (incomplete)         :: 92 of 161
            Pseudo Genes (internal stop)      :: 28 of 161
            Pseudo Genes (multiple problems)  :: 23 of 161
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP083936.1.
            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..4167
                     /organism="Klebsiella pneumoniae"
                     /mol_type="genomic DNA"
                     /strain="BA4946"
                     /isolation_source="blood"
                     /host="Homo sapiens"
                     /db_xref="taxon:573"
                     /plasmid="p_unnamed_2"
                     /geo_loc_name="India"
                     /lat_lon="12.9165 N 79.1325 E"
                     /collection_date="2020"
                     /collected_by="Department of Clinical Microbiology,
                     Christian Medical College, Vellore"
     gene            280..1395
                     /locus_tag="LCH45_RS28110"
                     /old_locus_tag="LCH45_28155"
     CDS             280..1395
                     /locus_tag="LCH45_RS28110"
                     /old_locus_tag="LCH45_28155"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_019405083.1"
                     /GO_function="GO:0005524 - ATP binding [Evidence IEA];
                     GO:0016887 - ATP hydrolysis activity [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="ATP-binding protein"
                     /protein_id="WP_012579087.1"
                     /translation="MIKEISLKNFKCFNELYLKQLKTLNIIAGKNNYGKTSILDAIFCF
                     YDVKNPAVLLNIQAFRKEMAEINKNKPFWVSYFHDMDTSQKMSIVIRDERSEVTQTYET
                     ETNQRLESSLSLNVDTVLSNQNIPRQTIGSQATVNSLKINVTETPNAKNRVSNKLFSMQ
                     LKEDGVEIKSEIKNERDGINYKFKTATIITTSRKINKEATITNVSSLLTQKRKKDILEN
                     LKKIDDRIVDIAISAIGNNKEIYLDIGFSELNEISMLGEGISRALSFISSVLVQENSII
                     LIDEIENGIHYSVIKDIIKSLISSAKQNNNQIFATTHSQDVIRAINEIDSKNEDIAYIR
                     LGREKNSLKPTAVQFNMDDFSYSVENDWEVR"
                     /name="ATP-binding protein"
     gene            1395..2027
                     /locus_tag="LCH45_RS28115"
                     /old_locus_tag="LCH45_28160"
     CDS             1395..2027
                     /locus_tag="LCH45_RS28115"
                     /old_locus_tag="LCH45_28160"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000804504.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="DUF3226 domain-containing protein"
                     /protein_id="WP_012579086.1"
                     /translation="MKDINNSKKIIFVEGDDDFHFLCNLLEIQGITDVFVEKINGKSKL
                     KQALRAFKNIDSFDEKESIFIILDADTSFSDTERSIIATLRELQISSPSSHNEIAMNGN
                     TKISFFIMPGKDKQGAIEDLIIEHASTRALYEYIIEFFEKIKNNKDDISASDKEYTYPT
                     NEKKAKVQVYLSCNRESDSRIGISMKNGIINTADNCFDEIKDFISKI"
                     /name="DUF3226 domain-containing protein"
     gene            complement(2981..3382)
                     /locus_tag="LCH45_RS28120"
                     /old_locus_tag="LCH45_28165"
     CDS             complement(2981..3382)
                     /locus_tag="LCH45_RS28120"
                     /old_locus_tag="LCH45_28165"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_009310048.1"
                     /GO_function="GO:0003677 - DNA binding [Evidence IEA]"
                     /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_012579088.1"
                     /translation="MARVSISEAARLTGKSRTTLHRLIKAGDLSTCSGERNAKMVDTSE
                     LLRVFGPFEQPKGEHHSGQVSGQRDTASADQSEQVIRHLKQEIEHLNTLLLSKDSHIDS
                     LKQAMLLLENHQAKLTESPAPWWKFWKKS"
                     /name="helix-turn-helix domain-containing protein"
     gene            complement(3382..3573)
                     /locus_tag="LCH45_RS28125"
                     /old_locus_tag="LCH45_28170"
     CDS             complement(3382..3573)
                     /locus_tag="LCH45_RS28125"
                     /old_locus_tag="LCH45_28170"
                     /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_004187666.1"
                     /translation="MTKQQKTALNMAKFIQNQSLLLLEKLNELDLDVEADLCEKLHDDA
                     EHLFRTLSSRLDALQDGN"
                     /name="Rop family plasmid primer RNA-binding protein"
     gene            3989..4102
                     /locus_tag="LCH45_RS28130"
                     /old_locus_tag="LCH45_28175"
                     /pseudo=""
     CDS             3989..4102
                     /locus_tag="LCH45_RS28130"
                     /old_locus_tag="LCH45_28175"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_007772075.1"
                     /note="internal stop; 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"
     Typing          3695..4102
                     /name="ColRNAI_rep_cluster_1987"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="93.399"
                     /coverage="99.0"
                     /evalue="5.92e-171"
ORIGIN
        1 tgcgctccct ttaagccagt tacctcggtt catagagcgc caactctact gaacctttcg
       61 aaaaaaccgc ccgccaaggc ggtttttttc gttcacagcc ggaagcttac ggctgctgcc
      121 agataatctc aagaagaaag taaaaaaaat cgattaaaac acaagcaatc aaagttaatc
      181 tttgacataa agtctagcta atcacaatga aagctgtaca ttttattaag gtactaacaa
      241 atcgtatggc atataacaaa aacacgaaca gaggctatca tgataaagga aataagttta
      301 aagaacttca aatgcttcaa tgagctatat ctaaagcaat taaagacttt aaatatcata
      361 gctgggaaaa acaactacgg gaaaacatct atactggatg ctattttttg tttttatgat
      421 gtaaaaaacc cggctgtttt gttaaacatt caagcattca gaaaagaaat ggcagaaata
      481 aacaaaaaca agccattttg ggttagttac tttcatgata tggacacatc acaaaagatg
      541 tccatagtca ttcgagatga acgctctgaa gtaacacaaa catatgaaac agaaacaaat
      601 cagagattag aatcaagttt gtctctaaac gttgacaccg tactatctaa ccaaaacata
      661 cctcgtcaaa ctatcggttc tcaggccaca gtaaactctt taaaaataaa tgtgaccgag
      721 acacccaatg cgaaaaacag ggtttccaat aagcttttct ctatgcaatt gaaagaagat
      781 ggcgtagaaa taaaatccga aataaaaaac gaaagggatg ggattaatta taaatttaag
      841 acagcaacaa taataacaac atccagaaag ataaacaaag aggcaacaat tacaaatgta
      901 tctagcctac taacacaaaa aaggaaaaaa gacatactag aaaacttaaa aaaaatagat
      961 gacagaattg tagatatagc aatatctgcg ataggtaaca ataaggaaat atatttagac
     1021 attggattta gtgagctaaa tgaaatatca atgcttggcg agggtatcag tcgagcatta
     1081 tcttttatca gctcagtgct ggtacaggaa aactcaatta ttcttattga tgaaatcgag
     1141 aacggaatac attactcagt aattaaagac ataataaaat cattaatttc atctgcaaaa
     1201 caaaacaaca atcaaatatt tgcaacaact catagtcaag atgtgatacg agcaataaac
     1261 gaaatagata gcaaaaatga agatatcgct tatattagac taggaagaga aaagaactcc
     1321 ctaaaaccaa cagccgtaca attcaatatg gatgatttct cctactcagt tgagaacgac
     1381 tgggaggtaa gataatgaaa gacataaata atagcaaaaa gatcattttc gttgagggtg
     1441 atgatgattt tcattttcta tgcaacctac ttgaaataca aggcattacc gatgtttttg
     1501 tcgaaaaaat aaatggaaaa tcaaaattaa aacaagcact tagagcattc aaaaacattg
     1561 attctttcga tgaaaaagaa agtattttta ttatattaga tgctgacaca tcattttctg
     1621 acacagaaag atcaataatt gccacattgc gagaactaca aatctcctcc cccagctcgc
     1681 ataacgagat agctatgaat ggcaatacaa aaatttcttt ctttataatg ccaggaaaag
     1741 acaagcaagg tgccattgaa gatctgataa ttgaacacgc aagcactcga gcgttatatg
     1801 aatacataat agaatttttc gaaaaaatta aaaataataa agatgacatc tcagcgagtg
     1861 acaaagagta cacttatcca acaaacgaaa aaaaagctaa ggtacaagtc tatcttagct
     1921 gcaatagaga atccgactca agaataggaa tatccatgaa aaatggaata ataaacacag
     1981 cagacaattg ctttgatgaa ataaaagatt ttatttcaaa aatataaatc caaatcaagc
     2041 cagcccttca cgggctggct tatcaccagg gtgttattaa acgccggata acgtatagaa
     2101 agcatcatac actttagtta tcagcaatct caaacgtcct aaagacatca ccagatgcca
     2161 aaacaatgat tgtgcagatc taatgtaaaa gacccagcac aagatgctcc cttaagttat
     2221 attctctcta ttcacttaaa acaatttaac ataaaatcat aattgtacgc accgctaaaa
     2281 cggcctcagg gcgtttctga cggaaaaccg gtaaaacagg caacaaacca cccgaaaacc
     2341 cgccagaaac gcgcaggctc tgtttttacg gcatgcatga gtatgcacgc aagtgcatag
     2401 cgcgaaaatt cacgccattc agccagagta agtcctgttt ccggcgttct ttccatccga
     2461 aaacggtgaa cggggacgca atttattgcg tggccgtgaa gcgttgccgg cgcagccgga
     2521 aaaccggttt tcagcacctt caggaatcgg gttcgtcgac ggccggcaat cacgttatgg
     2581 caagtcgccg gacgactcac cacacgattc accggcgatt cgaatcgtga attgaatcaa
     2641 gagtcaccat gagcaaaaaa cacccaaagt gatgaattga atcaagagtc gattcatcat
     2701 aacaatatga taataaagcg tgattcacat atgaatcgtg ggcaattcgt cagcgattcg
     2761 ccatagagtc gtccacgact tggatctgca ctttgtaaca catcaccgca catttatttt
     2821 tcattaaccc attgttgtaa ataaggaatc tgcaaaattt taattttgcg tggggtgtgg
     2881 gtatttttag tggtgaggag cgttcagaga tctgacgatt tttgggaagg ttcaggaact
     2941 ccccgggatg gccggagagg aaaactgaag catgacgggg tcaggatttt ttccagaatt
     3001 tccaccatgg cgccggggat tcagttaatt ttgcctggtg attttcaaga aggagcatgg
     3061 cctgtttcag gctgtcaatg tgcgaatcct tggacaaaag taaggtgttc aggtgttcaa
     3121 tctcctgttt cagatgacgg atcacctgtt cactctggtc agcagaggct gtatcacgct
     3181 gtccagagac ctgtccagaa tggtgttcac ccttcggttg ctcaaagggg ccaaagacac
     3241 gtaaaagctc tgaagtatct accatttttg cattgcgctc accgctacag gtggacaggt
     3301 cacctgcttt aattaacctg tgcagtgttg ttctactctt acccgtcagt cgggcagcct
     3361 cactaataga cactctggcc atcagttacc atcctgtaat gcatccagtc tcgaggacag
     3421 tgtacggaaa agatgctccg catcatcgtg gagtttctca caaaggtcgg cctcgacatc
     3481 gagatcaagc tcgttaagct tctccagcag gagcagagac tgattctgga tgaatttagc
     3541 catgttcagc gctgttttct gttgtttcgt cataagaggc ctcagagcgt cagtggtcag
     3601 tgtagggatc tcctcttttc cgcttcctcg ctcactcagt cgctacgctc ctgccgttcg
     3661 gctgcggcga gcggcaggag catgcgtaga aacgctcgag aaaaccgagt aatcgcatgg
     3721 aggaaagaag gaaaggccgc acagcggccg tttttccata ggctccgccc ccctgacgag
     3781 catcacggaa tctgacgctc aaatcagtgg tggcgaaacc cgacaggact ataaagatac
     3841 caggcgtttc cccctgatgg ctccctcgtg cgctctcctg ttcctgcctt tcggtttacc
     3901 ggtgtcattc cgctgttatg gccgcgtttg tctcattcca cgcctgacac tcagttccgg
     3961 gtaggcagtt cgctccaagc tggactgtat gcacgaaccc cccgttcagt ccgactgctg
     4021 cgcctaatcc ggtaactatc gtcttgagtc caacccggaa agacacgaca aagcgccact
     4081 ggcagcagcc actggtaact gatttaggga gttagtcttg aagttatacg ccagttaaag
     4141 ctaaactaaa cgaacagttt tggtgac
//
