LOCUS       NZ_CP063001             3336 bp    DNA     circular CON 08-MAY-2024
DEFINITION  Klebsiella pneumoniae strain CriePir197 plasmid unnamed4, complete
            sequence.
ACCESSION   NZ_CP063001
VERSION     NZ_CP063001.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN13153760
            Assembly: GCF_009661415.2
KEYWORDS    RefSeq.
SOURCE      Klebsiella pneumoniae
  ORGANISM  Klebsiella pneumoniae
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Klebsiella/Raoultella group; Klebsiella.
REFERENCE   1  (bases 1 to 3336)
  AUTHORS   Shelenkov,A., Mikhaylova,Y., Yanushevich,Y., Samoilov,A.,
            Petrova,L., Fomina,V., Gusarov,V., Zamyatin,M., Shagin,D. and
            Akimkin,V.
  TITLE     Molecular Typing, Characterization of Antimicrobial Resistance,
            Virulence Profiling and Analysis of Whole-Genome Sequence of
            Clinical Klebsiella pneumoniae Isolates
  JOURNAL   Antibiotics (Basel) 9 (5), 261 (2020)
   PUBMED   32429555
  REMARK    Publication Status: Online-Only
REFERENCE   2  (bases 1 to 3336)
  AUTHORS   Shelenkov,A., Mikhaylova,Y., Yanushevich,Y., Petrova,L., Fomina,V.,
            Zamyatin,M. and Shagin,D.
  TITLE     Direct Submission
  JOURNAL   Submitted (24-SEP-2020) Department Of Molecular Diagnostics and
            Epidemiology, Central Research Institute of Epidemiology,
            Novogireevskaya str., 3a, Moscow 111123, Russia
REFERENCE   3  (bases 1 to 3336)
  AUTHORS   Shelenkov,A., Mikhaylova,Y., Yanushevich,Y., Samoilov,A.,
            Petrova,L., Fomina,V., Gusarov,V., Zamyatin,M. and Shagin,D.
  TITLE     Direct Submission
  JOURNAL   Submitted (29-OCT-2019) Department Of Molecular Diagnostics and
            Epidemiology, Central Research Institute of Epidemiology,
            Novogireevskaya str., 3a, Moscow 111123, Russia
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: Unicycler v. v0.4.8-beta
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 214x
            Sequencing Technology             :: Oxford Nanopore MinION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_009661415.2-RS_2024_05_08
            Annotation Date                   :: 05/08/2024 05:36:25
            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)                     :: 5,441
            CDSs (total)                      :: 5,324
            Genes (coding)                    :: 5,156
            CDSs (with protein)               :: 5,156
            Genes (RNA)                       :: 117
            rRNAs                             :: 9, 8, 8 (5S, 16S, 23S)
            complete rRNAs                    :: 9, 8, 8 (5S, 16S, 23S)
            tRNAs                             :: 80
            ncRNAs                            :: 12
            Pseudo Genes (total)              :: 168
            CDSs (without protein)            :: 168
            Pseudo Genes (ambiguous residues) :: 0 of 168
            Pseudo Genes (frameshifted)       :: 62 of 168
            Pseudo Genes (incomplete)         :: 110 of 168
            Pseudo Genes (internal stop)      :: 19 of 168
            Pseudo Genes (multiple problems)  :: 20 of 168
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP063001.1.
            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/
            COMPLETENESS: full length.
FEATURES             Location/Qualifiers
     source          1..3336
                     /organism="Klebsiella pneumoniae"
                     /mol_type="genomic DNA"
                     /strain="CriePir197"
                     /isolation_source="Gall bladder"
                     /host="Homo sapiens"
                     /db_xref="taxon:573"
                     /plasmid="unnamed4"
                     /geo_loc_name="Russia: Moscow"
                     /lat_lon="55.76 N 37.62 E"
                     /collection_date="2018"
                     /collected_by="Pir Nat Surg Centre"
     gene            complement(join(3299..3336,1..220))
                     /locus_tag="GJJ12_RS27030"
                     /old_locus_tag="GJJ12_027030"
     CDS             complement(join(3299..3336,1..220))
                     /locus_tag="GJJ12_RS27030"
                     /old_locus_tag="GJJ12_027030"
                     /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="bacteriocin immunity protein"
                     /protein_id="WP_025714833.1"
                     /translation="MAGNKISDFTEEEFTAFVSKIIAADFPTDKENDDAIYSFAQLTEH
                     PAGWNLIFKPKVGEDSSAKGIVKTVKEWRAANGKPGFKKA"
                     /name="bacteriocin immunity protein"
     gene            complement(222..>704)
                     /locus_tag="GJJ12_RS27035"
                     /old_locus_tag="GJJ12_027035"
                     /pseudo=""
     CDS             complement(222..>704)
                     /locus_tag="GJJ12_RS27035"
                     /old_locus_tag="GJJ12_027035"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_004178051.1"
                     /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="S-type pyocin domain-containing protein"
                     /name="S-type pyocin domain-containing protein"
     gene            <703..951
                     /locus_tag="GJJ12_RS27040"
                     /old_locus_tag="GJJ12_027040"
                     /pseudo=""
     CDS             <703..951
                     /locus_tag="GJJ12_RS27040"
                     /old_locus_tag="GJJ12_027040"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_004178052.1"
                     /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="hypothetical protein"
                     /name="hypothetical protein"
     gene            complement(1699..2121)
                     /locus_tag="GJJ12_RS27045"
                     /old_locus_tag="GJJ12_027045"
     CDS             complement(1699..2121)
                     /locus_tag="GJJ12_RS27045"
                     /old_locus_tag="GJJ12_027045"
                     /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_025714834.1"
                     /translation="MARVSISEAARLVKVSRPTIYKMINSGKLSYTSVVKHGKAIKVID
                     TSELIRVFGSLDGVIDTVKYDVKSDAESTSINSVGLHDLQHRIALLEAENDGLKGAVKA
                     RDEHIDSLRQAMQLLEHKREPSSPPHSPWWKFWKKS"
                     /name="helix-turn-helix domain-containing protein"
     gene            complement(2121..2312)
                     /locus_tag="GJJ12_RS27050"
                     /old_locus_tag="GJJ12_027050"
     CDS             complement(2121..2312)
                     /locus_tag="GJJ12_RS27050"
                     /old_locus_tag="GJJ12_027050"
                     /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_023302508.1"
                     /translation="MTKQQKTALNMAKFIQNQSLLLLEKLNELDLDVEADLCEKLHDDA
                     EHLFRTLSSRLDELQDGN"
                     /name="Rop family plasmid primer RNA-binding protein"
     gene            2717..2878
                     /locus_tag="GJJ12_RS27475"
     CDS             2717..2878
                     /locus_tag="GJJ12_RS27475"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001326446.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_049165871.1"
                     /translation="MHEPPVQSDCCVLSGNYHLESNPERHDKAPLAAATGNGFRGVGLE
                     VMRLLRLN"
                     /name="hypothetical protein"
     gene            complement(3036..3191)
                     /locus_tag="GJJ12_RS27055"
                     /old_locus_tag="GJJ12_027055"
     CDS             complement(3036..3191)
                     /locus_tag="GJJ12_RS27055"
                     /old_locus_tag="GJJ12_027055"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_008323621.1"
                     /GO_component="GO:0019867 - outer membrane [Evidence IEA]"
                     /GO_process="GO:0019835 - cytolysis [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="colicin release lysis protein"
                     /protein_id="WP_071561715.1"
                     /translation="MKKLLFLGVVTVSVVLAACQVNNVRDTGGGAVSPSSTVTGVTLDS
                     GTNGNP"
                     /name="colicin release lysis protein"
     Typing          2361..2827
                     /name="ColRNAI_rep_cluster_1987"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="89.979"
                     /coverage="92.0"
                     /evalue="2.73e-170"
ORIGIN
        1 gccattcctt tacggtttta acaattcctt tcgccgaaga atcttcgcct accttaggct
       61 tgaagatgag gttccaacca gcaggatgct ctgttagttg ggcgaacgaa taaatagcat
      121 catcgttctc tttgtcagtt ggaaaatcag cagcgattat tttactaaca aaagcagtaa
      181 attcttcttc cgtaaaatct gaaattttat taccagccat tttattttcc tttatgtgtc
      241 tcaatatgat ttttaggtgt tagcgcctta atgttatcga catccataac agcccctcct
      301 tgagatattt ctttttcgtg gtgtaattca attttaacac gtttccctac tgattctaaa
      361 aagtccgcag taggtgccct tccagctttc atctgattaa tatcagcttc actaaattgc
      421 ttgctcagtg cagaatcgtc agcaaccgct ttccagaacg cccgacggaa agaatcaaaa
      481 ctaccgaaag tcttcccgcg taatttatcc gcaatctggg aaggaacagg agcaccatcc
      541 ccggtactgg ccccccccat ccagttattg ccaacgttct gccctttgcc gctcactgta
      601 ccgggcatgt tacgagggct acggtacatc acatacagcg gttttaggcc ggattccgga
      661 ggaaacacca gaataatatc gtcaaaatcg aggtcatccg ccatacgaaa agcagaaggt
      721 agtgcatctg accacagcta tgcactccag ttactggaga ttaatttcaa ggcaaaccca
      781 ctggatctca tctatcaccc tgactgctgg ttcaatgatg aagcattgtt tcatgcccgg
      841 ctgactaccg aagaaattgg tggctactta atgaaaaaat caggtcgatg gctcaacgat
      901 gcaccggata tccaactggt gtatgccatc ccccaggatg tttatgatta accaagtcac
      961 catttaccat aatcccttaa ttgtacgcac cgctaaaacg gcctcaggac gtttctgacg
     1021 ggaaaccggt aaaacaggca acaaaccacc cgaaaacccg ccagaaacgc gcaggctctg
     1081 tttttacggc atgcatgagt atgcgcgcaa gtgcatagcg cggaaattca cgccattcag
     1141 ccagggtaag tcctgtttcc ggcgttcttc tgatccgaaa acggtgaacg gggacgcaat
     1201 ttattgcgtg gccgtgaggc gttgccggcg cagccggaaa accggttttc agcacgttca
     1261 ggaatcgggt tcgtcgacgg ccggcaatca cgttatggca agtcgccgga cgactcacca
     1321 cacgattcac cggcgattcg aatcgtgaat tgaatcaaga gtcaccatga acaaaaaacg
     1381 cccaaattga tgaattgaat caagagtcga ttcatcataa caacatgata ataaagcgtg
     1441 attcacatat gaatcgtggg caattcgtaa acgattcgcc atagagtcgt ccacgacttg
     1501 gatctgcact ttgtaacaca tcactgcaca ttaatttttc attaaccaat tgttttaaat
     1561 aaggaatctg caaaatttta attttgcgta gtgtgtgggt atttttagtc gtgaggagcg
     1621 ttcagagatc tggcgatttt tgggaaggtt caggaactcc ctgggatggc cggagaggaa
     1681 aactcaagca tggcaggatc aggatttttt ccagaatttc caccacgggg aatggggtgg
     1741 tgaagaaggc tcgcgcttgt gctccagaag ctgcatagcc tgacgaaggg aatcaatatg
     1801 ctcatctcga gccttaacag cccctttaag accatcgttt tcagcttcaa gtagagcgat
     1861 tctatgttgt aaatcatgta aaccaacgct gttaatactt gtagattctg cgtcactttt
     1921 tacatcatat tttacagtat cgatgacacc atcaagagaa ccaaacactc taataagctc
     1981 tgaagtatca ataactttaa tagccttccc gtgctttaca acagaggtgt aacttaactt
     2041 cccactgtta atcatcttgt aaattgtggg acggctaacc ttaacaagcc gtgccgcttc
     2101 actaatagac actctggcca tcaattacca tcctgtaatt catccagtct cgaggacagt
     2161 gtacggaaaa gatgctccgc atcatcgtgg agtttctcac aaaggtcggc ctcaacatcg
     2221 agatcaagct cgttaagctt ctccagcagg agcagagact gattctggat gaatttagcc
     2281 atgttcagcg ctgttttctg ttgtttcgtc ataaagggcc tcagagcgtc agtgctcaat
     2341 gtcagacaga tctcttttcc gcttcctcgc tcactcagtc gctacgctcc tgccgttcgg
     2401 ctgcggcgag cggtcgcaac gcgcacataa cgacatagag cagacagctc ggagagggag
     2461 aaggcagcac agcggccgtt tttccatagg ctccgccccc ctgacaagca tcacagaatt
     2521 tgacgctcaa atcagtggtg gcgaaacccg acaggactat aaagatacca ggcgtttccc
     2581 cctgatggct ccctcgtgcg ctctcctgtt cctgccattc ggtttaccgg tgtcattccg
     2641 ctgttatggc cgcgtttgtc tcattccacg cctgacactc agttccgggt aggcagttcg
     2701 ctccaagctg gactgtatgc acgaaccccc cgttcagtcc gactgctgcg tcttatccgg
     2761 taactatcat cttgagtcca acccggaaag acacgacaaa gcgccactgg cagcagccac
     2821 tggtaacgga tttagaggag ttggtcttga agtcatgcgc ctgttaaggc taaactgaaa
     2881 gaacaagttt tggtgactgc gctcctccaa gccagttacc ttggttcaat cacctgcaag
     2941 tgtttgaacc ttcggaaaaa ccgccctgca aggcggtttt ttcgtttaca gagcaagaga
     3001 ttacgacgat ccaaatggga tctcaagaag atcctttacg gattgccgtt cgtaccgcta
     3061 tcaagcgtga ctccggtcac cgtcgatgaa ggtgaaacag ccccacctcc ggtgtctcga
     3121 acattattga cctgacatgc tgccagaacc acagaaacgg taacaacccc taggaaaagt
     3181 aattttttca tatatcacct tttattttta ttattctagg caaatggata tctagtaatt
     3241 attcttcaaa tccagagtta caaatgagcg ggctcataac ttgaacccgc aaattcaatc
     3301 acgctttttt aaaacctggc ttaccgttag cagctc
//
