LOCUS       NZ_AP022416             3789 bp    DNA     circular CON 28-NOV-2023
DEFINITION  Klebsiella quasipneumoniae strain STW0522-39 plasmid pSTW0522-39-4,
            complete sequence.
ACCESSION   NZ_AP022416
VERSION     NZ_AP022416.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMD00195879
            Sequence Read Archive: DRR199684
            Assembly: GCF_015135515.1
KEYWORDS    RefSeq.
SOURCE      Klebsiella quasipneumoniae
  ORGANISM  Klebsiella quasipneumoniae
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Klebsiella/Raoultella group; Klebsiella.
REFERENCE   1
  AUTHORS   Sekizuka,T., Katagiri,M., Asai,K. and Kuroda,M.
  TITLE     complete genome sequences of Klebsiella quasipneumoniae str.
            STW0522-39 isolated from hospital sewage
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 3789)
  AUTHORS   Sekizuka,T., Katagiri,M., Asai,K. and Kuroda,M.
  TITLE     Direct Submission
  JOURNAL   Submitted (03-FEB-2020) Contact:Tsuyoshi Sekizuka National Institute
            of Infectious Diseases, Pathogen Genomics Center; 1-23-1 Toyama,
            Shinjuku-ku, Tokyo 162-8640, Japan
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method :: flye v. 2.5; minimap v. 0.2-r124; racon v. 1.1.0;
            circlator v. 1.5.3; Pilon v. 1.18; SPAdes v. 3.11.1; A5-miseq v.
            20140604
            Genome Coverage                   :: 288x
            Sequencing Technology             :: Sequel; NextSeq 500
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 11/28/2023 10:03:20
            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)                     :: 5,526
            CDSs (total)                      :: 5,415
            Genes (coding)                    :: 5,260
            CDSs (with protein)               :: 5,260
            Genes (RNA)                       :: 111
            rRNAs                             :: 9, 8, 8 (5S, 16S, 23S)
            complete rRNAs                    :: 9, 8, 8 (5S, 16S, 23S)
            tRNAs                             :: 78
            ncRNAs                            :: 8
            Pseudo Genes (total)              :: 155
            CDSs (without protein)            :: 155
            Pseudo Genes (ambiguous residues) :: 0 of 155
            Pseudo Genes (frameshifted)       :: 63 of 155
            Pseudo Genes (incomplete)         :: 82 of 155
            Pseudo Genes (internal stop)      :: 38 of 155
            Pseudo Genes (multiple problems)  :: 23 of 155
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            AP022416.1.
            Annotated by DFAST v.1.2.3 (https://dfast.nig.ac.jp).
            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..3789
                     /organism="Klebsiella quasipneumoniae"
                     /mol_type="genomic DNA"
                     /strain="STW0522-39"
                     /isolation_source="sewage"
                     /db_xref="taxon:1463165"
                     /plasmid="pSTW0522-39-4"
                     /geo_loc_name="Japan:Tokyo"
                     /collection_date="2018-05-22"
     gene            122..445
                     /locus_tag="JLF46_RS27410"
                     /old_locus_tag="STW0522KLE39_P40010"
     CDS             122..445
                     /locus_tag="JLF46_RS27410"
                     /old_locus_tag="STW0522KLE39_P40010"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000957083.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MobC family plasmid mobilization relaxosome
                     protein"
                     /protein_id="WP_200928098.1"
                     /translation="MLTMWVTEDEHRRLLERCDGKQLAAWMRQTCLDEKPARAGKLPSL
                     SPALLRQLAGMGNNLNQIARQVNGGGGSGHDRVQVVAALMAIDAGLERLRHAVLEKGSD
                     DDR"
                     /name="MobC family plasmid mobilization relaxosome protein"
     gene            654..>1088
                     /locus_tag="JLF46_RS27805"
                     /pseudo=""
     CDS             654..>1088
                     /locus_tag="JLF46_RS27805"
                     /inference="COORDINATES: protein motif:HMM:NF015397.3"
                     /note="incomplete; partial in the middle of a contig;
                     missing C-terminus; Derived by automated computational
                     analysis using gene prediction method: Protein Homology."
                     /pseudo=""
                     /codon_start=1
                     /transl_table=11
                     /product="relaxase/mobilization nuclease domain-containing
                     protein"
                     /name="relaxase/mobilization nuclease domain-containing
                     protein"
     gene            1123..1608
                     /locus_tag="JLF46_RS27420"
                     /old_locus_tag="STW0522KLE39_P40020"
     CDS             1123..1608
                     /locus_tag="JLF46_RS27420"
                     /old_locus_tag="STW0522KLE39_P40020"
                     /inference="COORDINATES: protein motif:HMM:NF016710.3"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MbeB family mobilization protein"
                     /protein_id="WP_200928097.1"
                     /translation="MNSLLTLAKDLEQKSKAQQQSTGEMLKAVFSEHEKSVRAELSESE
                     KRISAAILDHDRKLSSAMSQRTKGMLRMVSQTWLTIVLVSALLIASSACILWWQSQQIL
                     DNYTTIREQKSTQAMLSERNSGVQLSTCGEQRRRCVRVNPEAGRFGEDSSWMILAGK"
                     /name="MbeB family mobilization protein"
     gene            1612..1827
                     /locus_tag="JLF46_RS27425"
                     /old_locus_tag="STW0522KLE39_P40030"
     CDS             1612..1827
                     /locus_tag="JLF46_RS27425"
                     /old_locus_tag="STW0522KLE39_P40030"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000137421.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MbeD family mobilization/exclusion protein"
                     /protein_id="WP_063617430.1"
                     /translation="MTELEKQLLSALEQLQQDYSKRLDEWENAFAEWRTMSGLMQRENA
                     ALSERVTGLSRQVQSLSEQLRRLSNG"
                     /name="MbeD family mobilization/exclusion protein"
     gene            2017..2217
                     /locus_tag="JLF46_RS27430"
                     /old_locus_tag="STW0522KLE39_P40040"
     CDS             2017..2217
                     /locus_tag="JLF46_RS27430"
                     /old_locus_tag="STW0522KLE39_P40040"
                     /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_109863068.1"
                     /translation="MISVIVSESVIQCILDFYAKNNEADYQMAKACQDSHEKDMTATQR
                     NVVEEAEARCLASMNDPLRFL"
                     /name="hypothetical protein"
     gene            2461..2892
                     /locus_tag="JLF46_RS27435"
                     /old_locus_tag="STW0522KLE39_P40050"
     CDS             2461..2892
                     /locus_tag="JLF46_RS27435"
                     /old_locus_tag="STW0522KLE39_P40050"
                     /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_162535687.1"
                     /translation="MLEIYRHYIEQNKRKRKERYYIMRALLLIALIIPVASFAEKNTLW
                     SDVMEAGRYVSPKGYNMQQALLRDFCGKTQDARNCMNLFAAVAFNATYARDAAECWKDE
                     AKANTQECKDALAYNQLIMSDYKSATDDMKHQQDRANGY"
                     /name="hypothetical protein"
     gene            complement(3136..3270)
                     /locus_tag="JLF46_RS27865"
     CDS             complement(3136..3270)
                     /locus_tag="JLF46_RS27865"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001717510.1"
                     /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_192526105.1"
                     /translation="MHEPPVQSDYHARSGNYQLESNPERHDKSPVAVAIGKGCTRLLM"
                     /name="replication initiation protein"
     Typing          complement(3162..3640)
                     /name="ColRNAI_rep_cluster_1987"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="88.613"
                     /coverage="92.0"
                     /evalue="4.61e-163"
     Typing          436..1931
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="92.385"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 ccgaaacccg ctaaaaccac tgacgcgcct gcggcttgtc caacaccgcg ccgtccggga
       61 aaggatttcc cgcccgtccc ggcgttatca ggaggccgga ttggcagaca aacgcagcaa
      121 aatgctcacg atgtgggtaa cggaagacga gcaccggcgt ttgctggagc gctgcgacgg
      181 taagcagctc gcagcctgga tgcggcagac gtgcctagat gagaaacccg cccgcgccgg
      241 caaacttcct tcgctctcac cggcgctgct tcgtcagctt gccggcatgg ggaacaacct
      301 taaccagatt gcccggcagg ttaacggcgg tggcggcagc gggcacgacc gcgtgcaggt
      361 tgtcgccgcg ctgatggcca tcgatgccgg actcgaacgg ctgcggcatg ccgtgctgga
      421 aaaagggtca gacgatgatc gttaagtttc acccccgggg gcgcggcggg ggcgccggtc
      481 cggtggatta tctgctgggc aaagaccgcc agcgcgaagg tgcccgcgtc ctgcagggga
      541 aaccggagga agtccgggag cttatcgacg cctcgcccta tgcaaaaaaa tacacctccg
      601 gcgtcctgtc ctttgccgaa caggatttac cgcccggtca gcgtgaaaaa ctgatggcga
      661 gcttcgagcg ggttctgatg cccggactcg ataaagacca gtacagcgtc ctatgggttg
      721 agcaccagga taagggacgg ctggagctga atttcctgat cccgaatacg gagctgctga
      781 ccggcaggcg tctccagccg tattacgacc gcgccgaccg tccgcgcatt gatgcctggc
      841 agaccatcgt gaatggcagg ctggggctgc acgacccgaa cgcgccggaa aaccggcggg
      901 cgctggtcac gccgtccgcg ctgccagaaa cgaagcagga agctgctcag acgattacgc
      961 ggggtttact ggccttagcc tcgtccgggg agctgaaaac ccgtcaggac gtcactgagg
     1021 cgctggaaaa cgcaggtttt gaggtggtgc gcaccacgaa aagcagcatc agcattgccg
     1081 acccggacgg ggggcgaaat atccgactga agggagccat ctatgaacag tcttttaacg
     1141 ctggcgaagg acttagagca gaaatcgaaa gcgcagcagc agagtaccgg cgagatgctg
     1201 aaagccgtat tcagcgagca cgagaagtct gtcagagcgg aactgagcga aagcgagaag
     1261 agaatcagcg ccgccatcct cgaccacgac cggaagctgt cctcagccat gagccagcgt
     1321 acgaaaggga tgctgcgcat ggtcagccag acgtggctga ccatcgtcct ggtctcagcg
     1381 ctgctgatcg catcgagcgc gtgcattctg tggtggcaga gtcagcagat actcgacaat
     1441 tacacgacca tccgggagca gaagagcacg caggccatgc tgtcagagag gaacagcggc
     1501 gtgcagctct cgacctgcgg cgagcagaga cgccgctgcg tgagggtgaa cccggaagcg
     1561 ggacggttcg gagaggattc gagctggatg atactggcgg ggaaatagca catgacagag
     1621 ctggaaaaac agttgctgag cgcattagag cagctacagc aggactactc gaaaaggctg
     1681 gacgagtggg agaacgcctt cgcggaatgg cggacgatgt ctggacttat gcaacgggag
     1741 aacgcagcgc tgagcgagcg cgtcacgggc ttgagcaggc aggtgcagag tttgagcgag
     1801 cagctgcgcc ggttgtcgaa cggctgaact cgattgaagc acacaggcag caagagcggg
     1861 cggcgcagca ccagaaagcg ctggagctag aacgttctca acgtcataaa agctatgatg
     1921 gaccaacttt gggatgacag cactgatcgt cgtgatggca gactggacgc tcgaaaaggg
     1981 gaacggttct ccacttaaca tagccatgag gtgcttatga ttagcgtcat cgtcagtgaa
     2041 agtgtcatcc agtgtattct ggatttctac gcaaagaaca acgaagcaga ttaccagatg
     2101 gcgaaagctt gccaggatag tcatgagaaa gacatgactg ctacgcagcg caacgttgtt
     2161 gaggaagccg aggcgcgatg ccttgcatcg atgaacgatc cactacgatt tctatagtgg
     2221 taattttgtc ggcttcggct catttctgtc attaaatccc tgcctattca tctggctgca
     2281 tggctatgca gtcgggtgaa atttatcagg cgcagaatac gcggtttgcc tggcagttga
     2341 ctgccggttt taccgggctg aagccgcttt cgcgccgaac ccgtccggag tggtgcggcc
     2401 aagggatgtt atgttcaatt cgcacgagtg gcggattacc gtcttgctcc ggcagtagat
     2461 atgctggaaa tatatcgaca ttacatagag cagaataagc gcaaacgaaa agagagatac
     2521 tacataatga gagctttatt actaatcgcc ctgatcattc ctgttgcatc attcgcggaa
     2581 aaaaacacgc tttggagtga tgttatggaa gctgggcgtt acgtttcgcc gaaaggttac
     2641 aatatgcagc aagcgttatt acgcgacttt tgcggcaaga cacaggacgc gcgtaattgc
     2701 atgaacctgt tcgcggcagt ggcttttaat gccacctatg ctagggacgc cgcggagtgt
     2761 tggaaggacg aagccaaagc gaatacacag gaatgcaaag acgctctagc gtataaccaa
     2821 ctcattatga gtgactataa atccgccact gatgatatga aacaccaaca agatagggct
     2881 aacggatatt agactgacat gccagacagg cagtttaaga gcaaaatcgt catgcagaaa
     2941 aaggatcttc ttgagatcct ttcaggagag tcgtaatctc ttgctctgaa aacgaaaaaa
     3001 ccacctgggg aggtggtttt tcgaagggta agtcagttgg ggaactgctt aaccgtggta
     3061 acagggtgta caagaccgct gccaccaaat tcgtccttcc agtttagccg tagtcaggct
     3121 tcaacttcaa gaactctaca tcagtaatct tgtacacccc ttaccaatgg ctaccgccac
     3181 tggcgatttg tcgtgtcttt ccgggttgga ctcaagttga tagttaccgg aacgggcgtg
     3241 gtagtcggac tgaacggggg gttcgtgcat acagtccagc ttggagcgaa ctgcctaccc
     3301 ggaactgagt gtcaggcgtg gaatgagaca aacgcggcca taacagcgga atgacaccgg
     3361 taaaccgaat ggcaggaaca ggagagcgcg cgagggagct accaggggga aacgcctggg
     3421 atctttatag tcctgtcggg tttcgccgcc actgatttga gcgtcagatt tcgtgatgct
     3481 tgtcaggggg gcggagccta tggaaaaacg gcaacgccgc atcttttttt gcctctcctg
     3541 atcttctact tatcccttta tcctgtcatt cgtaagcagg caacgcccgc cgcagtctca
     3601 cgacaggagc gcagcgaccg agtgagcgag gaggcgtcat ttcatcgtca tttgtatttt
     3661 gcacttacac acttccgctg catatctccc cctgcgacat gtaccacttt cctgaattac
     3721 cactccgatc taacatatta agccagtata cactccgcta gcgctacgtg actggttcag
     3781 ggctgcgcc
//
