LOCUS       NZ_AP022470             5666 bp    DNA     circular CON 18-DEC-2023
DEFINITION  Enterobacter roggenkampii strain STW0522-66 plasmid pSTW0522-66-5,
            complete sequence.
ACCESSION   NZ_AP022470
VERSION     NZ_AP022470.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMD00195906
            Sequence Read Archive: DRR199711
            Assembly: GCF_015136315.1
KEYWORDS    RefSeq.
SOURCE      Enterobacter roggenkampii
  ORGANISM  Enterobacter roggenkampii
            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 roggenkampii str.
            STW0522-66 isolated from hospital sewage
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 5666)
  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                   :: 513x
            Sequencing Technology             :: Sequel; NextSeq 500
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 12/17/2023 04:28:47
            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)                     :: 5,279
            CDSs (total)                      :: 5,169
            Genes (coding)                    :: 5,025
            CDSs (with protein)               :: 5,025
            Genes (RNA)                       :: 110
            rRNAs                             :: 9, 8, 8 (5S, 16S, 23S)
            complete rRNAs                    :: 9, 8, 8 (5S, 16S, 23S)
            tRNAs                             :: 77
            ncRNAs                            :: 8
            Pseudo Genes (total)              :: 144
            CDSs (without protein)            :: 144
            Pseudo Genes (ambiguous residues) :: 0 of 144
            Pseudo Genes (frameshifted)       :: 47 of 144
            Pseudo Genes (incomplete)         :: 99 of 144
            Pseudo Genes (internal stop)      :: 23 of 144
            Pseudo Genes (multiple problems)  :: 24 of 144
            Pseudo Genes (short protein)      :: 1 of 144
            CRISPR Arrays                     :: 1
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            AP022470.1.
            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..5666
                     /organism="Enterobacter roggenkampii"
                     /mol_type="genomic DNA"
                     /strain="STW0522-66"
                     /isolation_source="sewage"
                     /db_xref="taxon:1812935"
                     /plasmid="pSTW0522-66-5"
                     /geo_loc_name="Japan:Tokyo"
                     /collection_date="2018-05-22"
     gene            180..974
                     /locus_tag="JLF42_RS26075"
                     /old_locus_tag="STW0522ENT66_P50010"
     CDS             180..974
                     /locus_tag="JLF42_RS26075"
                     /old_locus_tag="STW0522ENT66_P50010"
                     /EC_number="2.1.1.-"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_015164793.1"
                     /GO_function="GO:0003677 - DNA binding [Evidence IEA];
                     GO:0008170 - N-methyltransferase activity [Evidence IEA]"
                     /GO_process="GO:0009307 - DNA restriction-modification
                     system [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="site-specific DNA-methyltransferase"
                     /protein_id="WP_227818858.1"
                     /translation="MLQSDSIDLIVTSPPYADQRKKTYGGVSADKYVEWFTPIAKELLR
                     VTKSSGSFVLNIKERAINGERHTYVIELILMMRKLGWLWTEEYIWHKKNSYPGKWPNRF
                     RDSWERCIHFTKSKKFNMYQEEVMVPMGDWKNSRLKNMSDTDKKRDESKVGSGFGKKIE
                     NWVTRDLAYPTNVLHMATECGNRSHSAAFPESLPEWFIKLFTTEGDTVLDPFSGSGTTL
                     KVAKAMKRNAVGIEILDEYCEITANRVGLKKSSQKKYRYTND"
                     /name="site-specific DNA-methyltransferase"
     gene            967..1725
                     /locus_tag="JLF42_RS26080"
                     /old_locus_tag="STW0522ENT66_P50020"
     CDS             967..1725
                     /locus_tag="JLF42_RS26080"
                     /old_locus_tag="STW0522ENT66_P50020"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_013558434.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="PmeII family type II restriction endonuclease"
                     /protein_id="WP_065782962.1"
                     /translation="MIESRIISDFIESCIDEEFHQKKQEKIRAIKLSDITKRKNPYLFK
                     AKGLTSASDLIKSIMDATVSSGEETVFGNFMEKIAIFTCSQAFGGRKSSAVGIDLEFET
                     ESTKYLISIKSGPNWGNSSQKKKMQDNFIKAKKVLGTSGGINSKSITCIEGCCYGYDAR
                     PEKGTHIKLCGQDFWTFISNGNNELYSDIIEPIGKLADEKNKELIELTNAKLNLFTAEF
                     ISEYCNSDGSINWALFVARNSGSKSDYHSN"
                     /name="PmeII family type II restriction endonuclease"
     gene            complement(2136..2507)
                     /locus_tag="JLF42_RS26085"
                     /old_locus_tag="STW0522ENT66_P50030"
     CDS             complement(2136..2507)
                     /locus_tag="JLF42_RS26085"
                     /old_locus_tag="STW0522ENT66_P50030"
                     /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_021314598.1"
                     /translation="MSKKNDLNLSESTLESLREYVDDFGMTVDDVVLKLINENKSLKES
                     LGQDFVLSGEKEAHHFKDYVIHKLPKGKILVTHNGLKASNMKKILIEAGRELGMDENEL
                     NPDFTTYEIGRFLFKHLHA"
                     /name="hypothetical protein"
     gene            complement(3013..3228)
                     /locus_tag="JLF42_RS26090"
                     /old_locus_tag="STW0522ENT66_P50040"
     CDS             complement(3013..3228)
                     /locus_tag="JLF42_RS26090"
                     /old_locus_tag="STW0522ENT66_P50040"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_015328239.1"
                     /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_015328239.1"
                     /translation="MTELEKQLLSALEQLQQDYSRRLDEWESAFEEWRKMSGLMQRENA
                     ALSERVSGLSRQVQSLSEQLRRLSTG"
                     /name="MbeD family mobilization/exclusion protein"
     gene            complement(3235..3732)
                     /locus_tag="JLF42_RS26095"
                     /old_locus_tag="STW0522ENT66_P50050"
     CDS             complement(3235..3732)
                     /locus_tag="JLF42_RS26095"
                     /old_locus_tag="STW0522ENT66_P50050"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_020325392.1"
                     /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_200925863.1"
                     /translation="MSSLLTASRDFEEKSKAQQQLTEERLKAAFSKHENVVKSELNASA
                     KRINDAISAHEQGMNAAMQSNRLSVLRMVGRTWLTITMVSGLLFASLSGMLWYQGNRIA
                     ANLAEIRQQRDTLSKLHMQTWGVTYLENRNGRFLVLPEGMKAETGRTVDNKTRNAVKLV
                     RE"
                     /name="MbeB family mobilization protein"
     gene            complement(<3773..4471)
                     /locus_tag="JLF42_RS26855"
                     /pseudo=""
     CDS             complement(<3773..4471)
                     /locus_tag="JLF42_RS26855"
                     /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            complement(4410..4751)
                     /locus_tag="JLF42_RS26105"
                     /old_locus_tag="STW0522ENT66_P50060"
     CDS             complement(4410..4751)
                     /locus_tag="JLF42_RS26105"
                     /old_locus_tag="STW0522ENT66_P50060"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_006122514.1"
                     /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_071599364.1"
                     /translation="MADKRNKMLTMWVTEDEHRRLLERCDGKQLAAWMRQTCLDEKPTR
                     AGRLPSISPALLRQLAGMGNNLNQIARKVNAGGAGHDRVQIVAALMAIDAGLERLRHAV
                     LEKGPDDDC"
                     /name="MobC family plasmid mobilization relaxosome protein"
     gene            5366..5494
                     /locus_tag="JLF42_RS26860"
     CDS             5366..5494
                     /locus_tag="JLF42_RS26860"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001505258.1"
                     /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_074440740.1"
                     /translation="MHEPPVQSDRCALSGNYRLESNPERHDKTPLAAANSKRVYKR"
                     /name="replication initiation protein"
     Typing          complement(4837..5012)
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="81.667"
                     /coverage="100.0"
                     /evalue="2.75e-31"
     Typing          4961..5468
                     /name="ColRNAI_rep_cluster_1987"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="90.411"
                     /coverage="97.0"
                     /evalue="0.0"
     Typing          complement(2898..4420)
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="99.803"
                     /coverage="100.0"
                     /evalue="0.0"
     Typing          complement(4417..4730)
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="92.453"
                     /coverage="99.0"
                     /evalue="1.04e-58"
ORIGIN
        1 cgtcgcatct tatacttagg tcaacaacca tcagcaagac tggacctcca aaacaaaagg
       61 aggtaatatc ctgataatga acacagaatg cgacaaaaga aatgctaatg aaacaagaag
      121 ttaaagaaaa aaaacagacg atagaactaa tcaatgatga ttgtttaatc gctttaaaga
      181 tgcttcaaag cgattcaata gatctgatcg ttacatcacc accttacgca gaccaaagga
      241 aaaaaaccta tggcggagta agtgcagaca aatatgttga gtggttcacc ccgatagcca
      301 aagaactact gagagtgaca aaatcatcag gctcatttgt tctaaacata aaggaaaggg
      361 cgattaatgg cgagcgccat acgtatgtaa tagagctaat tttaatgatg cgaaaattag
      421 gctggttatg gacagaggaa tacatatggc ataaaaaaaa tagttaccct gggaaatggc
      481 caaatcgctt tagagactct tgggaaagat gcatccactt tacgaaaagt aaaaaattca
      541 acatgtacca agaggaagta atggtgccta tgggggattg gaaaaactca cgacttaaaa
      601 acatgagtga tacagataag aaaagagatg aatcgaaagt agggagtggt ttcggtaaaa
      661 aaatagaaaa ctgggtcacc agggatctag catacccaac caacgtgcta cacatggcta
      721 cagagtgtgg aaaccgcagt cacagcgcag cttttcctga aagcctacct gaatggttca
      781 tcaaactttt caccacagaa ggtgacaccg ttctggatcc attttccggt tctggaacca
      841 cattaaaagt tgcgaaagca atgaaaagga acgctgtagg tattgaaata ttagatgaat
      901 attgcgagat aacggcaaat agagtaggtt tgaaaaaatc gtctcaaaaa aaataccggt
      961 atacaaatga ttgaatcacg gattatttca gattttatag aatcttgcat tgatgaagag
     1021 ttccatcaaa aaaaacaaga aaaaataagg gcgataaaat tatcagatat aacaaaaaga
     1081 aaaaacccat atttatttaa ggcgaagggg ctaacatcag caagtgactt aataaagtca
     1141 ataatggatg caacggtatc ctctggagag gagaccgttt ttggcaattt catggaaaag
     1201 attgcaatct tcacatgttc ccaagcattt ggtggaagaa aatccagtgc ggtaggaata
     1261 gatcttgagt tcgaaactga aagcacaaaa tatctaataa gcatcaaatc cggcccaaac
     1321 tggggtaact catcacaaaa aaagaaaatg caagacaact tcattaaagc caaaaaagtc
     1381 ctaggcacat ccggtggaat taattcaaaa tcaataactt gcatcgaggg gtgttgttat
     1441 ggttatgacg ccagacctga aaagggaacc cacataaaac tatgcggcca agacttctgg
     1501 acatttatat ctaacggaaa caacgaatta tatagtgata taattgagcc tattggtaag
     1561 cttgcagacg aaaaaaacaa ggaactgata gaactaacaa atgccaaact aaatcttttt
     1621 acggctgagt ttatttcaga atattgtaat agtgatggtt caataaattg ggctttattt
     1681 gtagcaagaa actcaggttc aaaatcagac tatcatagca actaacagaa gagtataaat
     1741 ggggaaatgc ctcaacaaaa acaaggacac tccatgccag catgcatagt aaatggttgc
     1801 cagaatcatg catctaacaa ctttggtgta agactccgta gagaggatac cagtgcaatc
     1861 tgggcaccca atactgaagc ctacatctgt gatgttcatg caagttcagg ctttgatatc
     1921 ttcgtacagc tacacactcg aaccgacaac aacatagtca cacatgtgag tgctaatggt
     1981 ggggctgtcg cacaaagact gacaccaata accaacacac cttagcaaaa agccgccttt
     2041 taggcggttt ttttttgcat cagattaaat actcatattt accataacat ccgggcagcg
     2101 aagttcgatg cctgcccttc aggcctgcag gattgttacg catgtaggtg cttaaacaaa
     2161 aaacgcccta tctcataggt tgtgaaatct ggattgagtt cattttcatc catgcctagc
     2221 tccctccccg cctcaatcaa tatcttcttc atgttgctgg ccttaagccc attatgggta
     2281 accagaattt ttcctttggg cagtttatga atcacataat ctttaaagtg gtgcgcttcc
     2341 ttttcgccag ataacacaaa gtcttgtcca agtgattcct tcaatgactt attctcatta
     2401 attaacttca gaacaacatc atcaacagtc ataccgaagt catcgacata ctccctgagg
     2461 ctttctaacg ttgattcact aaggtttaaa tcgttttttt tactcatgta gtcaccacca
     2521 tgctagttgt cagaaaagaa aaaacacaac ataagtggta tagtacaccg ctttttagta
     2581 ttgaacaaat aacatagaag tcactgatcg ctggttcaaa aagaacagct acaccgctgg
     2641 atttaccata acatctctta cccgcaccgc gccggaggca ctcagggcgt ttctgatggc
     2701 tgacgggcaa aaggtggtgg caagtacacc gaaaaccacc agaaacgcac ctgatttatt
     2761 ttacgcatat gcatcactta ttcacatcac tgcatagccg gtgatttcgg ttaaaaaaga
     2821 ctctctgtgt gctgaaatcg cagaaaatgg ccatgatccc cgtcacgctc aggccacctg
     2881 agacgggcgt ttatcagtct ccatactccc tgtcaccatg agataatgtg cgttgccgtt
     2941 ccggtaccag atctgctgtc ttctctggtt ccttttccgt tgtttgcccg tatcgctgtt
     3001 gctcaatctc attcagcctg tcgataaccg gcgcagctgc tcgctcaaac tctgcacctg
     3061 cctgctcaag cccgacacgc gctcgctcag cgccgcgttc tcccgttgca taagaccaga
     3121 catcttccgc cattcctcga aggcgctctc ccactcgtcc agccttctcg agtagtcctg
     3181 ctgtagctgc tctaacgcgc tcagcaattg tttttccagt tccgtcattc tgctctactc
     3241 ccgtaccagc ttcaccgcgt tccgcgtctt gttgtccacc gtccggcccg tttcggcttt
     3301 catcccctcc ggcagcacca gaaaccgtcc gttgcggttc tccagatagg tcacgcccca
     3361 cgtctgcatg tgcagtttcg acagcgtatc tctctgctgc ctgatttccg ccaggttcgc
     3421 cgctatccgg ttcccctggt accacagcat cccgctcagg ctggcgaaca gcagccctga
     3481 caccatggtg atggtcagcc acgtccgccc gaccattcgc agcacgctca gccggttcga
     3541 ctgcatcgcc gcgttcatcc cctgttcgtg ggcgctgatg gcgtcgttga ttctcttcgc
     3601 gcttgcgttc agttccgatt tgacaacgtt ctcgtgcttg ctgaatgcgg ctttcagcct
     3661 ctcttcggta agctgctgct gtgctttcga tttctcctcg aagtccctcg aggccgttaa
     3721 aagactgctc ataaatggct cccctcagtc ggatatttcg ccccccgtcc gggtcggcaa
     3781 tgctgatact gttttttgtg gttctgacca cctcaaaacc ggccgctgtg agcgcccctg
     3841 tgacgtcatc acgcgttttc agctctcctg atgaggctaa catcagcaaa ccccgtgtaa
     3901 tcgtctctgc ggcttcctgc ttcgtttctg gcagtcctga aggcgtgacc agcgcccgcc
     3961 ggttctccgg gtcgttcgga tcatgtagcc ccagcctgcc gttgaccact gtctgccacg
     4021 catcgatgcg cggccggtcg gcacgatcgt aatacggctg gaggcgtttc cccgtcagta
     4081 attcggtatt ggggatcaga aaattcagct caagacgacc cttgtctgcg tgttccaccc
     4141 acagaatgct gtactggtct ttatcgagtc cgggcatcag aacccgctca aagctggcca
     4201 tcagtttttc acgctgaccc ggcggcaggt ccgcctccgc gaatgacagc accccggagg
     4261 tatatttttt cacatacggc gacgcatcaa tcagctcccg gacttcttcc ggcttcccct
     4321 gcaggacgct ggcaccttca cgctgccggt ctttacccag aagataatcc acaggaccgg
     4381 cgcccccgcc gcgaccccgg ggatggaatt taacaatcat cgtccggccc tttttccagt
     4441 acggcatgcc gcaaccgttc cagaccggca tcgatcgcca tcagcgctgc cacgatctgc
     4501 acccggtcat gaccggcacc accggcgttc actttccggg cgatctggtt caggttattg
     4561 cccatgccgg caagctgacg cagcagcgcg ggcgaaatcg agggaagcct gccggcgcgt
     4621 gtcggtttct catcaaggca ggtctggcgc atccacgccg ccagttgttt tccgtcgcac
     4681 cgctcaagca accgccggtg ttcgtcttcc gtcacccaca tcgtgagcat cttgttgcgt
     4741 ttatctgcca gaatcgcctc ctgataacgc cgtgacggac gggaaagcct ttcccggtcg
     4801 gcgcggggtt ggacaagccg caggcgcgtc agtggggttt cggggcgcag ccctgaacca
     4861 gtcacgtagc gctagcggag tgtatactgg cttactatgg tggcatcggt atgggtatca
     4921 gcgaaagtgc tatatatggc agggatgaca tgcagcgaag gtgcgtaagg cagataatgg
     4981 tagtgccggg gatatgacgc ctcctcgctc actcggtcgc tgacgctcct gccgtgaggc
     5041 tgcggcgggc gttacctgct cacgagtgac gagataaaga gatggagcta gagtcagaaa
     5101 agggcacgaa aaggatgcgg cgttgccgtt tttccatagg ctccgccccc ctgacgagca
     5161 tcacagaatc tgacgctcaa atcagtggtg gcgaaacccg acaggactat aaagatacca
     5221 ggcgtttccc cctgatggct ccctcgtgcg ctctcctgtt cctgcctttc ggtttaccgg
     5281 tgtcattccg ctgttatggc cgcggtttct cattccacgc ctgacactca gttccgggta
     5341 ggcagttcgc tccaagctgg actgtatgca cgaacccccc gttcagtccg accgctgcgc
     5401 cttatccggt aactatcgtc ttgagtccaa cccggaaaga cacgacaaaa cgccactggc
     5461 agcagccaac agtaagaggg tgtacaagag ataactgatg cagagttctt gaagtctcag
     5521 cccaactacg gctaaactga aaggacagaa tttggtttca gcggtcttgt acaccctgtt
     5581 accacggttc agaagttccc caacttactg aaccctcgaa aaaaccgcct ccccaggcgg
     5641 ttttttcgtt tcagacgagg atatta
//
