LOCUS       NZ_AP022455             5947 bp    DNA     circular CON 18-DEC-2023
DEFINITION  Enterobacter kobei strain STW0522-62 plasmid pSTW0522-62-3, complete
            sequence.
ACCESSION   NZ_AP022455
VERSION     NZ_AP022455.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMD00195902
            Sequence Read Archive: DRR199707
            Assembly: GCF_015136055.1
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. STW0522-62
            isolated from hospital sewage
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 5947)
  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                   :: 550x
            Sequencing Technology             :: Sequel; NextSeq 500
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 12/17/2023 04:24:52
            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)                     :: 5,143
            CDSs (total)                      :: 5,030
            Genes (coding)                    :: 4,914
            CDSs (with protein)               :: 4,914
            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)              :: 116
            CDSs (without protein)            :: 116
            Pseudo Genes (ambiguous residues) :: 0 of 116
            Pseudo Genes (frameshifted)       :: 34 of 116
            Pseudo Genes (incomplete)         :: 80 of 116
            Pseudo Genes (internal stop)      :: 22 of 116
            Pseudo Genes (multiple problems)  :: 16 of 116
            Pseudo Genes (short protein)      :: 1 of 116
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            AP022455.1.
            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..5947
                     /organism="Enterobacter kobei"
                     /mol_type="genomic DNA"
                     /strain="STW0522-62"
                     /isolation_source="sewage"
                     /db_xref="taxon:208224"
                     /plasmid="pSTW0522-62-3"
                     /geo_loc_name="Japan:Tokyo"
                     /collection_date="2018-05-22"
     gene            123..446
                     /locus_tag="JLF39_RS25380"
                     /old_locus_tag="STW0522ENT62_P30010"
     CDS             123..446
                     /locus_tag="JLF39_RS25380"
                     /old_locus_tag="STW0522ENT62_P30010"
                     /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_126289757.1"
                     /translation="MLTMWVTEDEHRRLLERCDGKQLAAWMRQTCLDEKPARTGKLPSI
                     SPALLRQLAGMGNNLNQIARRVNAGGGTGHDRVQIVAALMAIDAGLERLRHAVLEKGTD
                     DDR"
                     /name="MobC family plasmid mobilization relaxosome protein"
     gene            436..573
                     /locus_tag="JLF39_RS25385"
                     /old_locus_tag="STW0522ENT62_P30020"
     CDS             436..573
                     /locus_tag="JLF39_RS25385"
                     /old_locus_tag="STW0522ENT62_P30020"
                     /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_200925415.1"
                     /translation="MIVKFHPRGRGGGAGPVDYLLGKDRQRELERLRHAVLEKGTDDDR
                     "
                     /name="hypothetical protein"
     gene            782..>1216
                     /locus_tag="JLF39_RS25900"
                     /pseudo=""
     CDS             782..>1216
                     /locus_tag="JLF39_RS25900"
                     /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            1251..1736
                     /locus_tag="JLF39_RS25395"
                     /old_locus_tag="STW0522ENT62_P30030"
     CDS             1251..1736
                     /locus_tag="JLF39_RS25395"
                     /old_locus_tag="STW0522ENT62_P30030"
                     /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_012565228.1"
                     /translation="MNSLLTLAKDLEQKSKAQQQNTGEMLKAAFSEHEKSVKAELNESA
                     KRISAAILDHDRKLSSAMSQRTKGMVRMVSQTWLTIVLVSALLIASSAGILWWQGQQIL
                     DNYTTIREQKSTQAMLSERNSGVQLSTCGEQRRRCVKVNPEAGRFGEDSSWMILAGK"
                     /name="MbeB family mobilization protein"
     gene            1740..1955
                     /locus_tag="JLF39_RS25400"
                     /old_locus_tag="STW0522ENT62_P30040"
     CDS             1740..1955
                     /locus_tag="JLF39_RS25400"
                     /old_locus_tag="STW0522ENT62_P30040"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000137422.1"
                     /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_012565230.1"
                     /translation="MTELEKQLLSALEQLQQDYSKRLDEWESAFAEWRTMSGLMLRENA
                     ALSERVTGLSRQVQSLSEQLRRLSSD"
                     /name="MbeD family mobilization/exclusion protein"
     gene            2301..3857
                     /locus_tag="JLF39_RS25405"
                     /old_locus_tag="STW0522ENT62_P30050"
     CDS             2301..3857
                     /locus_tag="JLF39_RS25405"
                     /old_locus_tag="STW0522ENT62_P30050"
                     /EC_number="2.7.7.65"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_015589620.1"
                     /GO_function="GO:0052621 - diguanylate cyclase activity
                     [Evidence IEA]; GO:0046872 - metal ion binding [Evidence
                     IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="sensor domain-containing diguanylate cyclase"
                     /protein_id="WP_032993376.1"
                     /translation="MRIKKPHLRPIVITLSVGGILLTSIFLIAVIMVFQRENIEKDLLY
                     ANSSYAMKMSDVMSGYIEMAQGELAYGAKKIKSTNDIDSLKDEADRLRLQSGMFNSVLV
                     VSNDAVVLATSPESLDLVGTRLNSSASKLAIEEKKPFISSPLKSVTGNLIILLSHPIYD
                     KGGNYIGYVGGSIYLKKHNLFGDVLSRHFFKNNTEISIVSDDGNVIFNNDKSAVDRPMV
                     MSDDLKSKLTASDRGEGAFFSSGHRYLLGYASMKNTAWNVLVYSRADSVTTILIAYAKS
                     VLVLLIIIIIVFSLISYFIASSISLPLEKLAISTNAKDIGASLVYIKAINAWYAEADRL
                     KKALFTYIKVMMERVDFLNEVALKDPLTGVNNRLGFLSKIQNHKRDSGYSVIVIDVDFF
                     KEINDSFGHGVGDEVLVSLAHIINSCCRSEDVVCRFGGEEFVVFLPNTSVVTAKCVAER
                     IRSVIESTVFPNNLRVTISAGVATQDDPLGRIDFLLKNADDALYQAKREGRNKVIVYSA
                     I"
                     /name="sensor domain-containing diguanylate cyclase"
     gene            3985..5016
                     /locus_tag="JLF39_RS25410"
                     /old_locus_tag="STW0522ENT62_P30060"
     CDS             3985..5016
                     /locus_tag="JLF39_RS25410"
                     /old_locus_tag="STW0522ENT62_P30060"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001395480.1"
                     /GO_function="GO:0004803 - transposase activity [Evidence
                     IEA]"
                     /GO_process="GO:0006313 - DNA transposition [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="IS630-like element ISEc33 family transposase"
                     /protein_id="WP_001395480.1"
                     /translation="MPIIVPIPRGERRLMQKAIHKTRDKNHARRLTAMLMLHRGERVSD
                     VARTLCCARSSVGRWINWFTHSGIEGLKSLPAGRSRRWPFEHICTLLRELIKHSPGDFG
                     YQRSRWSTELLAIKINEITGCQLHAGTVRRWLPSAGLVWRRAAPTLRIRDPHKDEKMAV
                     IHKALDECSAEHPVFYEDEVDIHLNPKIGADWQLRGQQKRVVTPGQNEKYYLAGALHSG
                     TGKVSYVGGNSKSSALFIALLKHLKATYRRAKTITLIVDNYIIHKSRETQRWLKANPKF
                     RVIYQPVYSPWVNHVERLWQALHDTITRNHQCRSMWQLLKKVRHFMETASPFPGGKHGQ
                     AKV"
                     /name="IS630-like element ISEc33 family transposase"
     Typing          5784..5947
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="98.182"
                     /coverage="94.0"
                     /evalue="9.34e-76"
     Typing          complement(5308..5860)
                     /name="rep_cluster_2335"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="93.345"
                     /coverage="91.0"
                     /evalue="0.0"
     Typing          124..440
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="94.34"
                     /coverage="99.0"
                     /evalue="5.32e-62"
     Typing          564..2059
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="91.182"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 ccccgaaacc cgccaaaagc ctgacgcgcc tgcggcttgt ccaaccccgc gccgaccggg
       61 aaagaggttc ccgcccgtcc cggcgttatc aggagaccgg tttgtcagag aaacgcagca
      121 aaatgctcac gatgtgggtg accgaagatg agcaccgccg tctgctggaa cgctgcgacg
      181 gtaaacagct cgcggcctgg atgcggcaga cctgcctgga cgaaaagcct gcgcgcaccg
      241 gaaagctccc ctcaatctcg ccggcgctgc tgcgccagct tgccggcatg ggcaataacc
      301 tgaaccagat agcccgccgt gttaacgccg gcggcggtac cggccatgac agggtgcaga
      361 ttgttgcggc gctgatggcc atcgatgccg gacttgagcg gctgcggcac gccgttcttg
      421 agaaaggaac ggacgatgat cgttaaattt catccacgcg gtcgcggcgg tggcgccggg
      481 ccggtggact atctgctggg taaagaccgg cagcgtgaac ttgagcggct gcggcacgcc
      541 gttcttgaga aaggaacgga cgatgatcgt taaatttcat ccacgcggtc gcggcggtgg
      601 cgccgggccg gtggactatc tgctgggtaa agaccggcag cgtgaaggcg ccaccgtcct
      661 gcaggggaag ccggaagaag tccgggagct gattgacgcg tcgccttacg ttaagaaata
      721 cacctccggg gtactgtcgt ttgcggaagc ggatttacct tccggccagc gggaaaagct
      781 gatggcaagc tttgagcggg ttctgatgcc cggacttgat aaagaccagt acagcatcct
      841 gtgggtggag catcgtgaca aggggcggct tgagctgaat tttctgatcc cgaacacgga
      901 gctgctgacc ggcagacggc tccagccgta ttacgatcgc gccgaccgtc cacgcatcga
      961 tgcctggcag accatcgtga acggcagact ggggctgcac gacccgaacg caccggagaa
     1021 ccggcgggca ctggtcacac cgtctgcact gcctaaagcg aagcaggagg ctgcagaagc
     1081 gattacacgc ggtctgcttg ctcttgcctc atccggggag ctgaaaaccc gtcaggatgt
     1141 cactgaggcg ctggaaagcg caggttttga ggtggtccgc accacaaaaa gcagtatcag
     1201 cattgccgac ccggacgggg ggcgaaacat ccgactgaag ggagccattt atgaacagtc
     1261 ttttaacgct ggcgaaggac ttagagcaga aatcgaaagc gcagcagcag aataccggcg
     1321 agatgctgaa agccgcattc agcgagcacg agaaatctgt aaaagcggaa ctgaacgaaa
     1381 gcgcgaagag aatcagcgcc gccatcctcg accacgaccg gaaactgtcc tcagccatga
     1441 gccagcgcac gaaaggcatg gtgcgcatgg tcagccagac gtggctgacc atcgtcctgg
     1501 tctccgcgct gctgatcgcc tcgagcgcgg gcattctgtg gtggcagggg cagcagatac
     1561 tcgacaacta cacgaccatc cgggagcaga agagcacgca ggccatgctg tcagagagga
     1621 acagcggcgt gcagctctcg acctgcggcg agcagagacg ccgctgcgtg aaggtgaacc
     1681 cggaagcggg acggttcgga gaggattcga gctggatgat actggcgggg aaatagcaca
     1741 tgacggagct ggaaaaacag ttgctgagcg cattagagca gctacagcag gactactcga
     1801 aaaggctgga cgagtgggag agcgccttcg cggaatggcg gacgatgtct ggtcttatgc
     1861 tacgggagaa cgcagcgctg agcgagcgcg tcacgggctt gagcaggcag gtgcagagtt
     1921 tgagcgagca gctgcgccgg ttgtcgagcg actgaatgcc gtcgagctgc accgggagca
     1981 ggagcgcgtg gtgcagcatc agaaagcgct ggagctggag cgatctcagc gacagcggac
     2041 gtataacagc ccttcactgt gataacctga taaaacgggg ctttcggcgg acatctgcgc
     2101 tgaaagccgg agccattcac ccgactgcat agccatgcag ccgggtgaaa tttatctggc
     2161 gcagaatgcg cggtttagcg gagagtttgc tgccggtttt accgggctga cgccgcattt
     2221 gttccgaacc cgtccggggc ggtgctgata agggatgtta tggtaaatgc ggcatttttt
     2281 attatatgga gtgtattttt atgagaatta aaaagcctca ccttcgtccg atagtcataa
     2341 ccttgtccgt tggtgggatt ttgttaactt ctatttttct gattgccgtt attatggttt
     2401 ttcagcgcga aaatatagaa aaagatttgc tttatgctaa ttcatcgtac gctatgaaaa
     2461 tgtcagatgt aatgagtggt tatattgaaa tggctcaagg tgaattagca tatggagcaa
     2521 aaaaaataaa atcaactaat gatattgact cacttaaaga tgaggcggat aggttaagac
     2581 tgcagtctgg tatgtttaat tcagttcttg ttgttagtaa tgatgctgtt gttctggcga
     2641 cttcgccaga atctcttgat ttagttggta cccgcttgaa ttcaagtgcc agcaaattgg
     2701 cgattgagga aaagaaacca ttcatatctt caccgttaaa atcagttact gggaatttga
     2761 ttattttgtt gtcacatcct atttatgata agggtggcaa ttacataggg tatgtcggtg
     2821 ggtctatata tctaaaaaaa cataatttat ttggcgatgt tttgagcagg cattttttca
     2881 agaacaacac tgaaattagc attgttagtg atgatgggaa tgtgatcttt aataacgata
     2941 aaagtgctgt tgatcggcct atggttatgt ctgatgattt gaaatcaaag ttaactgcgt
     3001 ctgatagagg tgagggggca tttttttctt cggggcatag atatcttctt ggttatgcta
     3061 gtatgaaaaa tactgcttgg aatgtgttgg tttatagtcg tgctgacagt gtgactacta
     3121 ttcttattgc ttatgctaaa agtgtacttg ttctgctaat tataataatt attgtgtttt
     3181 cacttatttc atatttcatt gcctccagta tttcacttcc tttagaaaag cttgctatat
     3241 ctaccaatgc taaagatatc ggagcttcgc tagtttatat taaagctatc aatgcttggt
     3301 atgccgaagc tgataggctt aaaaaggcgc tttttacgta tattaaggta atgatggaaa
     3361 gagttgattt tctaaatgag gtggcgctta aagatcccct taccggcgtg aacaatagat
     3421 tggggttttt aagtaaaata cagaatcata agcgggattc agggtattca gttattgtaa
     3481 ttgatgttga tttttttaaa gagataaatg acagtttcgg gcatggggtc ggagatgagg
     3541 tgcttgtttc tttggctcat attattaatt cctgttgccg tagtgaagat gttgtttgtc
     3601 ggtttggtgg cgaagagttt gttgttttcc tgccgaatac atctgtggta acagctaagt
     3661 gtgttgcgga gcgtattagg agtgttattg aaagtactgt cttccctaat aacttgcggg
     3721 tcaccatatc tgctggtgtg gcaacacaag atgatcctct tggtaggatc gattttttgc
     3781 tgaaaaatgc tgacgatgct ctttatcaag ccaaaaggga ggggcgtaat aaagtgattg
     3841 tatatagcgc tatttgagtt ttttgatgat gctttacgcg ctaaatagct gcgcggaata
     3901 gtagatcact gaaagggaac tcagcccgga ttgtgcgatc tgatcaatcg ccaaaccaac
     3961 caaaatcacc aaccggactg agcgatgccg atcatagtac caataccccg tggcgaacga
     4021 cgcctgatgc agaaagctat tcataaaacg cgtgataaaa atcatgcccg cagactcacg
     4081 gccatgctga tgcttcatcg gggtgaacgg gtcagcgatg ttgccagaac tctctgttgt
     4141 gcccgttcat ccgttggtcg ctggattaac tggtttacgc actcaggtat tgaaggcctg
     4201 aaatccttac ccgcagggcg ctcccgacgc tggccttttg aacatatctg caccctgtta
     4261 cgtgagctga taaagcattc tcccggcgat tttggttatc aacgttcacg ctggagcacc
     4321 gaattactgg caataaaaat caatgagata accggttgcc agttacatgc aggaaccgtt
     4381 cgccgctggt tgccatctgc ggggcttgta tggcgcaggg ccgcgccaac tctgcgtatc
     4441 cgtgacccac ataaagatga aaagatggcg gtaatccaca aagcgctgga tgaatgcagc
     4501 gcagagcatc cggtatttta tgaagatgaa gtggatatcc accttaatcc taaaatcggt
     4561 gcggactggc agttgcgcgg acagcagaaa cgggtagtga cgccggggca gaacgaaaaa
     4621 tactatctgg ccggcgcact gcacagtggc acgggtaaag tcagctacgt gggcggcaac
     4681 agcaaaagtt cagcgctgtt tatcgctctg ctgaagcacc tgaaagccac ttaccggcgg
     4741 gcgaaaacaa tcacgctgat cgttgataac tacattatcc ataaaagccg cgaaacacag
     4801 cgctggttga aagcaaatcc caagttcagg gtaatttacc agccggttta ctcgccgtgg
     4861 gtgaatcatg tggaacggct atggcaggca cttcatgaca cgataacccg taatcatcag
     4921 tgccgctcaa tgtggcagtt actgaaaaag gtccgccatt ttatggaaac cgccagccca
     4981 ttccccggag gaaaacatgg tcaggcaaaa gtgtagcggt attaggcgca gctatttagt
     5041 gtgtcgtttt ttttgtggcg aagagtgggc aagaagcgga tcctcttgtt atcccttcga
     5101 tgtcgtcgta atctcatacc ctgtaaacaa aaaaaccacc gctaccaacg gtggttcgtt
     5161 tgccggaatc aagagctacc aactctttct tccgaaggta actggctttc acggagcgca
     5221 ggtaccaaaa ctgtccttcc agtgtagccg cagtcaggcc accacttcaa gaactctgta
     5281 gaacactcta ctactccgct ccgtgaatcc tcttaccagt ggctaccgcc actggcgatt
     5341 tttcgtgtct ttccgggttg gactcaagtt gatagttacc ggaacaggcg tggtagtcgg
     5401 actgaacggg gggttcgtgc atacagtcca gcttggagcg aactgcctac ccggaactga
     5461 gtgtcaggcg tggaatgaga caaacgcggc cataacagcg gaatgacacc ggtaaaccga
     5521 aaggcaggaa caggagagcg cacgagggag ccaccagggg gaaacgcctg gtatctttaa
     5581 gtcctgtcgg gtttcgccac cactgatttg agcgtcagat ttcgtgatgc ttgtcagggg
     5641 ggcggagcct atggaaaaac ggcttcgccg cggccttctc gcttccctgt taagtttctt
     5701 cctggcatct accaggaaat ttccgccccg cccgtaagcc ggtaccgctc gccgcagccg
     5761 aacgaccgag cgcagcgagt cagtgagcga ggaagcggaa tatatcctgt atcacatatt
     5821 ctgctgacgc gccggtgccg ccttttttct cctgccacat gaagcacttc actgacaccc
     5881 tcatccgtgc caacatatta agccagtata cattccgcta gcgctacgtg actggttcag
     5941 ggctgcg
//
