LOCUS       NZ_AP022507             2353 bp    DNA     circular CON 18-DEC-2023
DEFINITION  Enterobacter kobei strain STN0717-53 plasmid pSTN0717-53-9, complete
            sequence.
ACCESSION   NZ_AP022507
VERSION     NZ_AP022507.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMD00195972
            Sequence Read Archive: DRR199777
            Assembly: GCF_015137465.1
KEYWORDS    RefSeq.
SOURCE      Enterobacter kobei
  ORGANISM  Enterobacter kobei
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Enterobacter; Enterobacter cloacae complex.
REFERENCE   1
  AUTHORS   Sekizuka,T., Katagiri,M., Asai,K. and Kuroda,M.
  TITLE     complete genome sequences of Enterobacter kobei str. STN0717-53
            isolated from hospital sewage
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 2353)
  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                   :: 315x
            Sequencing Technology             :: Sequel; NextSeq 500
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 12/17/2023 04:58:55
            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)                     :: 5,316
            CDSs (total)                      :: 5,203
            Genes (coding)                    :: 5,103
            CDSs (with protein)               :: 5,103
            Genes (RNA)                       :: 113
            rRNAs                             :: 9, 8, 8 (5S, 16S, 23S)
            complete rRNAs                    :: 9, 8, 8 (5S, 16S, 23S)
            tRNAs                             :: 83
            ncRNAs                            :: 5
            Pseudo Genes (total)              :: 100
            CDSs (without protein)            :: 100
            Pseudo Genes (ambiguous residues) :: 0 of 100
            Pseudo Genes (frameshifted)       :: 32 of 100
            Pseudo Genes (incomplete)         :: 71 of 100
            Pseudo Genes (internal stop)      :: 15 of 100
            Pseudo Genes (multiple problems)  :: 15 of 100
            Pseudo Genes (short protein)      :: 1 of 100
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            AP022507.1.
            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..2353
                     /organism="Enterobacter kobei"
                     /mol_type="genomic DNA"
                     /strain="STN0717-53"
                     /isolation_source="sewage"
                     /db_xref="taxon:208224"
                     /plasmid="pSTN0717-53-9"
                     /geo_loc_name="Japan:Tokyo"
                     /collection_date="2018-07-17"
     gene            102..848
                     /locus_tag="JLH17_RS26470"
                     /old_locus_tag="STN0717ENT53_P90010"
     CDS             102..848
                     /locus_tag="JLH17_RS26470"
                     /old_locus_tag="STN0717ENT53_P90010"
                     /inference="COORDINATES: ab initio prediction:GeneMarkS-2+"
                     /GO_process="GO:0006260 - DNA replication [Evidence IEA];
                     GO:0006276 - plasmid maintenance [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: GeneMarkS-2+."
                     /codon_start=1
                     /transl_table=11
                     /product="replication/maintenance protein RepL"
                     /protein_id="WP_012564909.1"
                     /translation="MDIGNILNESLSIDYEKLDLFLEKYDLTPEQKVAVYEFHAKAYKK
                     NKTLVISETKENKFKSISEGVEYVHLFPKNLKILIKKYGLNTNELLVLTEIMESMLSHG
                     NLLINFSQKALCELTGINKSTMCKTFKTLKQKQCLIEKNGHIYLNSVIFMKGLPHKLFM
                     QFRDHFLNSISYKLDDEEEFEKVFDDNFIKAYEKNLKEIKKKKQQIKEKKISKALDNFE
                     KEISKEWKEKFKDEEENFEFGFESEI"
                     /name="replication/maintenance protein RepL"
     gene            1218..1949
                     /locus_tag="JLH17_RS26475"
                     /old_locus_tag="STN0717ENT53_P90020"
     CDS             1218..1949
                     /locus_tag="JLH17_RS26475"
                     /old_locus_tag="STN0717ENT53_P90020"
                     /inference="COORDINATES: protein motif:HMM:NF012798.3"
                     /GO_function="GO:0003677 - DNA binding [Evidence IEA]"
                     /GO_process="GO:0015074 - DNA integration [Evidence IEA];
                     GO:0006310 - DNA recombination [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="site-specific integrase"
                     /protein_id="WP_088299203.1"
                     /translation="MGNSKRNINKLNENFREDILDYAIAHNLKCANALAILYATGCRPD
                     ELHTGVKINYDKQKNEIRFKIIGSKLNRRMKRGIGIREFSVKINNDNERFFKGIIDLIN
                     ERPVDSFDHNFKIESAKAFSGYITKISKKLWPRKTYHASAYSFRHAKATELKNSDYDKE
                     KIAQIMGHASVRSQQSYGRKNKKSKGGFNDIEDIKTNVKPRGADRLLRFKIASKNQAAA
                     KIADTSTPSSPPPAPVRRFKM"
                     /name="site-specific integrase"
     Typing          2010..2193
                     /name="Col(IRGK)"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="94.624"
                     /coverage="99.0"
                     /evalue="1.28e-74"
ORIGIN
        1 taaactgcaa ctttttctac tttttgcaac ttaatctatt gactagtcct ttataaatgt
       61 taaaacatat atatagaaat aaataaaaag aggaggtttc tatggatatt ggaaatatat
      121 taaatgagag tttaagtatt gattacgaaa aattagattt gtttttggaa aaatatgatt
      181 taacaccaga acaaaaagtt gcagtttatg aatttcacgc aaaagcttat aaaaaaaata
      241 aaactttagt tatttctgaa acaaaagaaa ataaatttaa atctatttcc gaaggtgttg
      301 aatacgtgca tttattccca aaaaatttaa aaattttaat taaaaaatat ggtttaaata
      361 caaacgaatt attggtttta acggaaataa tggagtcaat gctttcacac ggaaatttat
      421 taattaattt ttcgcaaaag gcactttgcg aattaacagg aattaataaa tctacaatgt
      481 gtaaaacatt taaaaccctc aaacaaaagc agtgtttaat tgagaaaaac ggacatattt
      541 atttaaattc tgtgatattt atgaaagggt tacctcataa attgtttatg caatttagag
      601 atcatttttt aaattctatc tcatataaat tagatgatga agaagaattt gaaaaagtct
      661 tcgacgataa ttttattaaa gcatacgaaa aaaatctcaa agagattaaa aagaaaaagc
      721 aacaaataaa agaaaagaaa atatcaaaag cattagataa ttttgaaaaa gaaatctcga
      781 aagaatggaa ggaaaagttt aaagacgaag aggaaaattt cgaatttggt tttgaatcgg
      841 aaatataaaa ccgccctcgc cgggcaggcg aatcccttat tgaaatagaa taaattctat
      901 tccactaagg gatttttttt attcattttt tctccacatt tgcaatattg acattaactt
      961 ccacccggat ataacagtag tataagttgt tgtttcaacc cctcttttgg ggtggaacaa
     1021 caaggcattt taggggtgaa gcgaagagaa cccgtaaaac tgccaccccc aaccgggggt
     1081 cgttgttcga ttttgagcga cagcgaaaaa atagaacata aggggggagg gtttgggttt
     1141 tacggtattt taaatatgag caaagcgaat ttttaaaatg tccggttctt taaattttgc
     1201 aatgaggaaa aactattatg ggtaattcaa aaagaaatat aaataaatta aatgaaaatt
     1261 ttagagagga tattttagat tatgcgatcg cgcacaatct aaaatgtgct aacgcactcg
     1321 ctattttata cgccaccggt tgccgtccgg acgaactcca cactggggtt aaaataaatt
     1381 acgataaaca aaaaaatgaa attagattta aaattattgg atcaaaactt aatcgaagaa
     1441 tgaaaagagg tattggaatt cgtgagtttt cagtaaaaat caataatgat aatgaaagat
     1501 tttttaaagg aattattgat ctaataaatg aaagacctgt tgattcattc gatcataatt
     1561 ttaaaattga aagtgcaaag gcattttccg gatatattac aaaaataagc aaaaagttat
     1621 ggccccgaaa aacttatcat gcttctgcat attctttcag acatgcaaaa gcaactgagt
     1681 tgaaaaattc agattatgat aaagaaaaaa tagcccaaat aatgggccac gcgtcagtta
     1741 gatctcagca aagttacggt agaaaaaaca aaaaaagcaa aggtgggttt aacgacattg
     1801 aagatataaa aactaatgtt aaaccccgtg gtgcagatag attgctaagg ttcaaaattg
     1861 ccagcaaaaa ccaagcagcg gcaaaaattg ccgatacttc cacccccagc agtcctccac
     1921 cggctcccgt tcgtcgcttc aaaatgtgaa ccgtgagcag ttcaggaggt cccctcctgg
     1981 actgtgaagg gttggcctgg cggcgagccg gttttctagc aaaatcctcc atattgcgaa
     2041 gcagggcccg gaaccgggca actggatggt tttcccctgt gggggattga tctgttactt
     2101 gaaaaccaat gatcttaaaa accatctcaa aagttgaaaa tttcaccccc ttagtgttct
     2161 taaaattctt agatgttctt aggagttaaa aaattactct ctaaccattg atattgctca
     2221 atttttaaaa atggcagttg tcaaaaactt caaccgtagt tgtcaaattc gtcaactcca
     2281 gttgtcaaat tcgtcaactg aggttgtcaa atccgacaac tctagccagt ttccaagtag
     2341 aaactacagt ttc
//
