LOCUS       NZ_CP063021             5010 bp    DNA     linear   CON 15-MAY-2024
DEFINITION  Klebsiella pneumoniae strain CriePir75 plasmid unnamed2, complete
            sequence.
ACCESSION   NZ_CP063021
VERSION     NZ_CP063021.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN13153741
            Assembly: GCF_009661535.2
KEYWORDS    RefSeq.
SOURCE      Klebsiella pneumoniae
  ORGANISM  Klebsiella pneumoniae
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Klebsiella/Raoultella group; Klebsiella.
REFERENCE   1  (bases 1 to 5010)
  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 5010)
  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 5010)
  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 (31-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                   :: 64x
            Sequencing Technology             :: Oxford Nanopore MinION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_009661535.2-RS_2024_05_15
            Annotation Date                   :: 05/15/2024 02:55:25
            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)                     :: 5,555
            CDSs (total)                      :: 5,431
            Genes (coding)                    :: 5,321
            CDSs (with protein)               :: 5,321
            Genes (RNA)                       :: 124
            rRNAs                             :: 9, 8, 8 (5S, 16S, 23S)
            complete rRNAs                    :: 9, 8, 8 (5S, 16S, 23S)
            tRNAs                             :: 87
            ncRNAs                            :: 12
            Pseudo Genes (total)              :: 110
            CDSs (without protein)            :: 110
            Pseudo Genes (ambiguous residues) :: 0 of 110
            Pseudo Genes (frameshifted)       :: 40 of 110
            Pseudo Genes (incomplete)         :: 63 of 110
            Pseudo Genes (internal stop)      :: 21 of 110
            Pseudo Genes (multiple problems)  :: 12 of 110
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP063021.1.
            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..5010
                     /organism="Klebsiella pneumoniae"
                     /mol_type="genomic DNA"
                     /strain="CriePir75"
                     /isolation_source="blood"
                     /host="Homo sapiens"
                     /db_xref="taxon:573"
                     /plasmid="unnamed2"
                     /geo_loc_name="Russia: Moscow"
                     /lat_lon="55.76 N 37.62 E"
                     /collection_date="2017"
                     /collected_by="Pir Nat Surg Centre"
     gene            complement(<1..203)
                     /locus_tag="GJJ10_RS27585"
                     /old_locus_tag="GJJ10_027585"
     CDS             complement(<1..203)
                     /locus_tag="GJJ10_RS27585"
                     /old_locus_tag="GJJ10_027585"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_019725129.1"
                     /GO_function="GO:0004519 - endonuclease activity [Evidence
                     IEA]"
                     /GO_process="GO:0006401 - RNA catabolic process [Evidence
                     IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="type II toxin-antitoxin system YoeB family toxin"
                     /protein_id="WP_193699468.1"
                     /translation="MSKWNIKFTRNGADDLNYWRDTDKKKFERIRQLLLSIEADPLTGI
                     GKPERLRHHKDPALYSRRIDQS"
                     /name="type II toxin-antitoxin system YoeB family toxin"
     gene            complement(184..429)
                     /locus_tag="GJJ10_RS27590"
                     /old_locus_tag="GJJ10_027590"
     CDS             complement(184..429)
                     /locus_tag="GJJ10_RS27590"
                     /old_locus_tag="GJJ10_027590"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_012848468.1"
                     /GO_component="GO:0110001 - toxin-antitoxin complex
                     [Evidence IEA]"
                     /GO_function="GO:0003677 - DNA binding [Evidence IEA];
                     GO:0097351 - toxin sequestering activity [Evidence IEA]"
                     /GO_process="GO:0045927 - positive regulation of growth
                     [Evidence IEA]; GO:0006355 - regulation of DNA-templated
                     transcription [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="type II toxin-antitoxin system Phd/YefM family
                     antitoxin"
                     /protein_id="WP_025987695.1"
                     /translation="MHAINFTDARKHFAETMKRVTDDAEPVRVMRRDAPDIVMIDAGEY
                     EALIETVYLFSNPANAEHINESMKQAERGEFVEVEY"
                     /name="type II toxin-antitoxin system Phd/YefM family
                     antitoxin"
     gene            666..827
                     /locus_tag="GJJ10_RS27595"
                     /old_locus_tag="GJJ10_027595"
     CDS             666..827
                     /locus_tag="GJJ10_RS27595"
                     /old_locus_tag="GJJ10_027595"
                     /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_162870772.1"
                     /translation="MAKHWSGQECPKTGTYGQYHDTDNSYAGSEYDRHVSKGDKFPPSK
                     NNHHFQEK"
                     /name="hypothetical protein"
     gene            complement(1627..2028)
                     /locus_tag="GJJ10_RS27600"
                     /old_locus_tag="GJJ10_027600"
     CDS             complement(1627..2028)
                     /locus_tag="GJJ10_RS27600"
                     /old_locus_tag="GJJ10_027600"
                     /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_193699469.1"
                     /translation="MTRVSISEAARLTGKSRTTLHRLIKTGELSTCSGERNTKMVDISE
                     LLRVFGPFDQPKNEHLTRQVPEQRDTAPADQSEHVIRQLKQQIEHLNILILSNDSHIDS
                     LKQAMLLLENHQAKLTEPPAPWWKFWKKS"
                     /name="helix-turn-helix domain-containing protein"
     gene            2430..3044
                     /locus_tag="GJJ10_RS27605"
                     /old_locus_tag="GJJ10_027605"
     CDS             2430..3044
                     /locus_tag="GJJ10_RS27605"
                     /old_locus_tag="GJJ10_027605"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_012822468.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="TIR domain-containing protein"
                     /protein_id="WP_019725132.1"
                     /translation="MGKHKVFISYHHANDQYYKNALEKMNEEHEIFVNRSVSLGDIDED
                     EAPQKIREIIRDEYLRDTSVLILLVGTETKNRKHVDWELYSSMRDSTINKKSGILVVNL
                     PSTNTTYIRSTHGTNEKSEVHPTVTEWFSIDKRSTYEERFPYMPARIIDNFMKSGSYIS
                     VVNWNQIENNPETLRKLIDMTYNDREKATYDMSREMRMHNS"
                     /name="TIR domain-containing protein"
     gene            complement(3081..3788)
                     /locus_tag="GJJ10_RS27610"
                     /old_locus_tag="GJJ10_027610"
     CDS             complement(3081..3788)
                     /locus_tag="GJJ10_RS27610"
                     /old_locus_tag="GJJ10_027610"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001258875.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_004198042.1"
                     /translation="MKTFVTLWTIVFLAFIAVMCTVDISNYIPSVYTVFSKNRPLVTGA
                     LSILLISVFIWLMVSLYLLKKYSVKVEKLSLGGVNILFNESATLYKKSVKNHLDSKRAI
                     FKLRKNVDAFDEVISSYYQTYQFIRDEMKILNPKKDREIYDFSNEMLMVLNRFLTNYQN
                     NYKRWYKYISDKDEVVDRVSGDVMRFHATSINKIQMQYYDYERILKGFKDVNRFFVNDV
                     KPKFGINTDKWNW"
                     /name="hypothetical protein"
     gene            complement(3785..4690)
                     /locus_tag="GJJ10_RS27615"
                     /old_locus_tag="GJJ10_027615"
     CDS             complement(3785..4690)
                     /locus_tag="GJJ10_RS27615"
                     /old_locus_tag="GJJ10_027615"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001697689.1"
                     /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_019725130.1"
                     /translation="MHNAALELFNERLPHKPYFSDDLHFGVRIAGKERAILAKYIQFNQ
                     PHAMFWLGFDVDRAGSSIDWSDRNAPAPTLTITNPENGHAHLLYALENSIRTAPDGKIK
                     PLRYAASVENALRKKLEADAGYSGLICKNPNHNHWKIAVWQPKLYTLDWLADFLDLNTG
                     NDKEIVADYGLGRNCTLFDKTRKWAYRAIRQGWPEYEQWLQACYERACAYNLQFARPLD
                     ENEVRGIAKSIAKWTSNKFSPEEFSKFVDITHSSEIQSKRGKKSGQSRRKGSLEEIKPW
                     VAMGISRRKYFYIKKNGEIR"
                     /name="replication initiation protein"
ORIGIN
        1 tggctctgat caatcctgcg ggagtagagt gccggatctt tgtggtgccg cagccgttcg
       61 ggttttccta tacctgtcag cggatcagcc tcgatgctga gcaacagttg ccggatacgc
      121 tcaaacttct ttttgtcagt atcacgccag tagttaaggt catcagcgcc attcctagtg
      181 aacttaatat tccacttcga caaattcgcc gcgctccgcc tgtttcattg actcattgat
      241 atgctctgcg ttcgccggat tgctgaacag atagaccgtt tcgattagcg cctcatactc
      301 tcccgcatcg atcataacaa tatcaggcgc atcacggcgc atgacacgta ccggttcagc
      361 atcatcagtg acgcgcttca tcgtctcggc aaaatgttta cgggcatcag taaaattgat
      421 tgcatgcatg ttgttaaccc ccatttgttg gggcttagca tagaacatgt acgcaaataa
      481 gtacataaag atatttccct aaaaacccac aaccaaatca gctcaaaatg tgaactcaat
      541 cgaataacca caaaaacaac aagtcaatac attgaagcat aatttcaagc aattacattt
      601 atgaagtgcg gcacaatttc gtaccgctag gagcttagct cctaaaacga gcaaaggaaa
      661 agtaaatggc aaaacattgg tctgggcaag aatgtccaaa aacaggtact tacggtcaat
      721 atcatgatac cgacaactca tacgctggtt ctgaatatga tcgccatgtg agcaagggtg
      781 ataagttccc tccgagcaaa aacaaccacc acttccaaga aaaataaaat atcttcagaa
      841 gtctaaacta aaagccctct ggggcttttt ttgtacctgc cattcacttg atttaccata
      901 acatccgtta tcagcaccgc ctgagatgcc ctcagggcgt ttctgacggg aaaccggtaa
      961 acaaggcaac aaaccacccg aaaacccgcc agaaacgcgc aggctctgtt tttacggcat
     1021 gcatgagtat gcgcacaagt gcatagcgcg gaaattgaca ccattcagcc aggggaagtc
     1081 ctgtttccgg cgttcttccc atccgaaaac ggtgaacggg gacgcaattt attgcgtggc
     1141 cgtgaagcgt tgccggcgca gccggaaaac cggttttcag cacgttcagg aatcggttcg
     1201 tccacggccg gcaatcacgt tatggcaagt cgccggacga ctcaccacac gattccccgg
     1261 cgactcttca ctagagtcgt acccagagtc gccacgtcta aaaaacaacc aaacggggag
     1321 tcggatctag agtcgggtcg ttattaactc attgttttta taggcctgag tcgttaccga
     1381 ctctatgacg actcgccggg gactctatga cgactcgtca tagagtcgga tctatataaa
     1441 taaaatttaa aaaacgaaat ttcagtaaag taagctgctg atattaaata caaatctgca
     1501 aaattaaaat tttgcgtggg gtgtgggtat ttttcgtggt gaggagcgtt cagagatctg
     1561 acgattttcg ggaaggttca ggaactcccc ggaatggccg gagaggaaaa ctgaagcatg
     1621 acggggtcag gattttttcc agaatttcca ccacggcgcc gggggttcag ttaattttgc
     1681 ctggtgattt tcaagaagga gcatggcctg tttcaggctg tcaatgtgcg aatcattcga
     1741 taaaatcaat atgttaaggt gttcaatctg ctgtttcagt tgacgaatga catgttcact
     1801 ctggtcagca ggcgctgtat cacgctgttc aggtacttgt cgagtaaggt gttcattctt
     1861 cggttggtca aacggtccga aaacacgtaa aagctctgat atatcgacca tttttgtatt
     1921 tcgttcaccg ctacaagtgg acagttcacc tgttttgatt aacctgtgca gcgttgtccg
     1981 gctcttaccc gtcagccgtg cagcctcact aatagacact ctggtcatca gttatcatcc
     2041 tttaatacat tcagtctcaa ggaaacaggg gccagcttac gacatactgg tccagaagtg
     2101 atgtgttttt cagaagggcg atgaaacaca ggagtgaccg tgcaaaatgc aggcaacaaa
     2161 tgactttccg cttcctcgcg cattcgctca ctacgttcgg tcataagact gcggcgagcg
     2221 gtacgtaaga ataaagtgag gtgatagctc tcttctcaag gcgtttaggg aagcaacgag
     2281 cccgccctaa accagtcatg gcgagacctt gctgaaggga ccctatgtgt gctggctgag
     2341 aaaaaaagag ctctctaaaa gagagctgtt atctgatata ggttcaagtg caaaatagag
     2401 tgcacacaaa caaaaaaagg acaataaaaa tgggaaagca taaggtattc attagctacc
     2461 accatgcgaa tgatcagtac tacaaaaacg cacttgaaaa aatgaatgag gaacatgaaa
     2521 tattcgtgaa tcgctcagta tcattaggtg atatagatga agatgaagcc ccacaaaaaa
     2581 taagagagat aataagagat gaatatctta gagatacatc agttcttatc cttcttgttg
     2641 gaactgaaac aaaaaacaga aaacacgtag attgggaact ttactctagc atgagagata
     2701 gtaccattaa caaaaaatca ggaattttag tcgtcaatct cccgtcaaca aatactacgt
     2761 acattcgttc aacacatgga actaatgaaa aatcagaagt tcatcctacc gtaactgaat
     2821 ggttttctat tgataagcgc tcaacttatg aggaaaggtt cccatatatg ccagcaagaa
     2881 taatagacaa cttcatgaag agcgggtctt atatatcagt ggtcaactgg aatcaaatag
     2941 aaaacaaccc agaaacactc agaaaattaa tagacatgac ttataacgat agagaaaaag
     3001 caacgtatga tatgtcgaga gaaatgagaa tgcataattc atagtactat ccaaggagta
     3061 gccttggcta ctcctttaat ttaccagttc cacttatctg tattgattcc aaacttaggc
     3121 ttcacatcat taacaaagaa ccggttaaca tctttaaaac cttttaaaat acgctcataa
     3181 tcataatact gcatttgtat tttatttatg ctggttgcat gaaatctcat gacatcaccg
     3241 ctaaccctat caacaacctc atctttgtct gatatgtact tataccaacg cttgtagttg
     3301 ttctggtagt tagttagaaa tctatttaac accatgagca tctcattgct gaaatcataa
     3361 atctcacgat cttttttagg gtttagtatt ttcatttcat cacgaataaa ttggtaagtc
     3421 tgataatatg atgaaataac ctcatcaaag gcatcaacgt tttttcttaa tttgaaaatt
     3481 gctctttttg aatctaggtg attttttaca ctctttttgt aaagtgtagc actctcattg
     3541 aaaagtatat tcactccacc aaggctaagt ttctcaacct taaccgaata ctttttaagt
     3601 aagtagaggg ataccatcag ccaaataaaa acagatatca aaagaataga aagggcgcca
     3661 gttacaagag gtctattctt actaaaaact gtgtaaacag acggaatgta attagatata
     3721 tcaacagtac acatcacggc aataaatgct aaaaaaacta tagtccaaag agttacgaag
     3781 gttttcatct tatttcacca tttttcttga tataaaaata cttccgcctg cttattccca
     3841 tagctaccca aggttttatt tcctctaggc ttcctttcct ccttgactgt cctgactttt
     3901 tccctctctt tgattgaatt tcagaggaat gagtaatatc aacaaattta ctgaattctt
     3961 caggtgaaaa tttatttgat gtccatttag caatgctctt agctatccct cttacctcat
     4021 tttcatccag aggccgtgca aattgcaggt tgtatgcgca agcgcgttcg tagcaggctt
     4081 gcagccactg ctcatactca ggccagccct gacggatggc gcgatatgcc cacttacggg
     4141 ttttgtcgaa caacgtgcag ttacggccta agccgtagtc ggcaacgatt tccttgtcat
     4201 tccctgtgtt cagatcgaga aagtcggcca gccagtccag agtgtagagc ttcggctgcc
     4261 acacggcgat tttccagtgg ttgtggttcg gatttttgca gatgagcccc gaatatccag
     4321 cgtcagcctc taatttttta cgtagcgcat tctccacgga ggcggcgtag cgtaacggtt
     4381 ttattttgcc gtccggcgcg gtgcgtatcg agttttccag cgcgtacagc aggtgcgcgt
     4441 gtccgttttc ggggttagtt atggtcagcg tcggtgcagg cgcgttgcgg tcgctccagt
     4501 cgatggagga accggcgcgg tcaacgtcaa atcccagcca gaacatggcg tgaggctgat
     4561 tgaactggat atatttcgcc agaatagcgc gttccttacc ggcgatacgg acaccaaagt
     4621 gcagatcgtc cgaaaagtac ggcttgtgtg gtaagcgttc gttgaaaagt tcgagtgcgg
     4681 cgttatgcaa tgtgccctgc gcttatggcg ggctgttgtc tggcacggtt catgtgctaa
     4741 tatcctttca aggtttcgac ctagccctgg ttatcatgcg atccgccaag atatgacatg
     4801 atttccgggg ctttgttttt tctgaggcta acgttacacc gactttgcct ttgtgtcgat
     4861 ctgacagcga cttaccctaa catccgttgt acgccttgca tgaaaagccc gcatcaagcg
     4921 ggctatatcg acttttgcta tttgtcacca tagtgataac gggctgcgta gatgatgatt
     4981 tctccgttct ggattgaata gaccagacgg
//
