LOCUS       NZ_AP026388             4085 bp    DNA     circular CON 26-JAN-2024
DEFINITION  Citrobacter braakii strain KAM621 plasmid pKAM621_6, complete
            sequence.
ACCESSION   NZ_AP026388
VERSION     NZ_AP026388.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMD00446294
            Assembly: GCF_024347735.1
KEYWORDS    RefSeq.
SOURCE      Citrobacter braakii
  ORGANISM  Citrobacter braakii
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Citrobacter; Citrobacter freundii complex.
REFERENCE   1
  AUTHORS   Maehana,S., Suzuki,M. and Kitasato,H.
  TITLE     Complete genome sequence of carbapenem-resistant Citrobacter spp. in
            Japan
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 4085)
  AUTHORS   Maehana,S., Suzuki,M. and Kitasato,H.
  TITLE     Direct Submission
  JOURNAL   Submitted (01-JUL-2022) Contact:Shotaro Maehana Kitasato university,
            Allied Health Sciences; 1-15-1, Kitasato, Minami-ku, Sagamihara,
            Kanagawa 252-0373, Japan URL
            :https://www.kitasato-u.ac.jp/ahs/english/index.html
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: Canu v. 2.1.1
            Genome Coverage                   :: 112x
            Sequencing Technology             :: Illumina HiSeq; ONT MinION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 01/24/2024 12:27:23
            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)                     :: 5,612
            CDSs (total)                      :: 5,499
            Genes (coding)                    :: 5,271
            CDSs (with protein)               :: 5,271
            Genes (RNA)                       :: 113
            rRNAs                             :: 9, 8, 8 (5S, 16S, 23S)
            complete rRNAs                    :: 9, 8, 8 (5S, 16S, 23S)
            tRNAs                             :: 78
            ncRNAs                            :: 10
            Pseudo Genes (total)              :: 228
            CDSs (without protein)            :: 228
            Pseudo Genes (ambiguous residues) :: 0 of 228
            Pseudo Genes (frameshifted)       :: 88 of 228
            Pseudo Genes (incomplete)         :: 146 of 228
            Pseudo Genes (internal stop)      :: 40 of 228
            Pseudo Genes (multiple problems)  :: 41 of 228
            Pseudo Genes (short protein)      :: 1 of 228
            CRISPR Arrays                     :: 1
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            AP026388.1.
            Annotated by DFAST https://dfast.ddbj.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..4085
                     /organism="Citrobacter braakii"
                     /mol_type="genomic DNA"
                     /strain="KAM621"
                     /db_xref="taxon:57706"
                     /plasmid="pKAM621_6"
                     /geo_loc_name="Japan"
                     /collection_date="2018"
     gene            293..442
                     /locus_tag="V0Z23_RS27980"
                     /old_locus_tag="KAM621c_55040"
     CDS             293..442
                     /locus_tag="V0Z23_RS27980"
                     /old_locus_tag="KAM621c_55040"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_017880354.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_166479530.1"
                     /translation="MPSEYDEQRDATDAPLPGEYDVFDLMAQVTEENLHAPVDSGPPVG
                     REAL"
                     /name="hypothetical protein"
     gene            922..1113
                     /locus_tag="V0Z23_RS27985"
                     /old_locus_tag="KAM621c_55060"
     CDS             922..1113
                     /locus_tag="V0Z23_RS27985"
                     /old_locus_tag="KAM621c_55060"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000166328.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="Rop family plasmid primer RNA-binding protein"
                     /protein_id="WP_000166328.1"
                     /translation="MTKQQKTALNMAKFIQNQSLLLLEKLNELDLDAEADLCEKLHDDA
                     EHLFRTLSSRLDALQDGN"
                     /name="Rop family plasmid primer RNA-binding protein"
     gene            1113..1535
                     /locus_tag="V0Z23_RS27990"
                     /old_locus_tag="KAM621c_55070"
     CDS             1113..1535
                     /locus_tag="V0Z23_RS27990"
                     /old_locus_tag="KAM621c_55070"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:YP_005229777.1"
                     /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_172696149.1"
                     /translation="MARVSISEAARLVKVSRPTIYKMINSGKLSYTSVVKHGKGIKVID
                     TSELIRVFGSLDGVIDAVKHDVKSDAESTGINSVGLHDLQHRIALLEAENDGLKGAVKA
                     RDEHIDSLRQAMQLLEHKHEPSSPPHSPWWKFWKKS"
                     /name="helix-turn-helix domain-containing protein"
     gene            2385..2684
                     /locus_tag="V0Z23_RS27995"
                     /old_locus_tag="KAM621c_55080"
     CDS             2385..2684
                     /locus_tag="V0Z23_RS27995"
                     /old_locus_tag="KAM621c_55080"
                     /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_023281092.1"
                     /translation="MATATNFDAWLDDVDGDYEEVMALYDSVQNVSDMGLYQCVEGGRG
                     DAWVVSSNHHPEALFLASAVARDTFLKLIRERLCGGEDVDSWYGFQRNISNDHS"
                     /name="hypothetical protein"
     gene            2755..3513
                     /locus_tag="V0Z23_RS28000"
                     /old_locus_tag="KAM621c_55090"
     CDS             2755..3513
                     /locus_tag="V0Z23_RS28000"
                     /old_locus_tag="KAM621c_55090"
                     /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_326978236.1"
                     /translation="MALMVTRRYLLGGEYPSEEFVQASLEKYFFRQGFDIDTGSYIDLI
                     CRDKESRDVVWHIEVKGKTSQPGLDFRTCLGQLVQRMTKDNINYAIAVPRIKQYERLIE
                     ETSILAVSKLNLHWIFVGPDGSVTIKEPDSSTMKNGNGNGNGNGNGNGNGNGREVSLVN
                     GGFKRFITGDFMPTCSYGKAPVVFKSSRREMWDWLDDFVISNGVIPSIADIKEEAESRS
                     GKWTLSNVKIEYQFWKIYHLYKGHFFYQSE"
                     /name="hypothetical protein"
     gene            complement(3722..3865)
                     /locus_tag="V0Z23_RS28005"
     CDS             complement(3722..3865)
                     /locus_tag="V0Z23_RS28005"
                     /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_104459923.1"
                     /translation="MHEPPVQSDCCACSGNYQLESNPERYDKAPLAAATGKQDVREMYL
                     SS"
                     /name="replication initiation protein"
     Typing          84..300
                     /name="MOB_unknown"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="86.758"
                     /coverage="100.0"
                     /evalue="9.55e-62"
     Typing          complement(3542..4047)
                     /name="rep_cluster_2358"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="86.907"
                     /coverage="99.0"
                     /evalue="1.02e-159"
ORIGIN
        1 cttgtcatgc cgtatgtctt tgctcttatc cgtgtgcagg taacgcccgc cgcagactca
       61 cggcaggagc gtcagcgacc gagtgagcga ggaggcgtca tatcaccgta acctccattt
      121 tctcctgtac gccctgccgc tgcatttttc ccctgccaca tgaagcactt tcattacgtg
      181 ttactcatcc gtaacatatt aagccagtat acactccgct agcgctacgt gactggttca
      241 gggctgcgcc ccgaaacccg ctaacaatct ctcagctact ggatatcacc ccatgccatc
      301 tgagtatgat gaacaacggg atgcgactga tgctccgctt cccggcgaat atgacgtttt
      361 tgatttaatg gcgcaggtta ctgaagagaa cctgcacgcc cctgtggatt ccgggccgcc
      421 tgtcggccgg gaagcgttat agctttttcg cttgcccgcg tacgcggtaa tacgccggta
      481 ttacatttta tttctttatt ttcatgtaat tacaggtgat tgtaatacgt tgcgtattac
      541 atgaataaac ggagatttca gtttttacct tttaattcat gcagttgcga tgaaaatcgc
      601 ggctgcgtta ggtgtatgac catttaaggg gcaaaaaatt atcattctgg ccgggtgtac
      661 tgcgcaggtt aaggagcatt ggtgacgaaa aagcgtcttt aactgcttcg ttcatgcttg
      721 catgaacgga ttatttttcc ggactacagg caaactacag gaagactaca aaagttgatg
      781 atttaatcct gatttttagt gcgatgacta cagataaact acaaaataac tacaggatta
      841 cctcagatcc gttctctgaa ccatttgtac atccgacccc cttaccggtt tacactgagc
      901 acagatgctc tgagggccct tatgacgaaa caacagaaaa cagcgctgaa catggctaaa
      961 ttcatccaga atcagtctct gctcctgctg gagaagctta acgagcttga tctcgatgct
     1021 gaggccgacc tttgtgagaa actccacgat gatgcggagc atcttttccg tacactgtcc
     1081 tcgagactgg atgcattaca ggatggtaac tgatggccag agtgtctatt agtgaagcag
     1141 cacggcttgt taaggttagt cgccctacta tttacaagat gattaacagt ggtaagttaa
     1201 gttacacctc tgttgtaaag cacgggaagg gtattaaagt tattgataca tcagagctta
     1261 ttagagtgtt tggttctctt gatggtgtaa tcgatgctgt aaaacatgat gtaaaaagtg
     1321 acgcagaatc tacaggtatt aacagcgttg gtttacatga tttacaacat agaatcgctt
     1381 tacttgaagc tgaaaacgat ggtcttaaag gggctgttaa ggctcgagat gagcatattg
     1441 attcccttcg tcaggctatg cagcttctgg agcacaagca cgaaccttct tcaccacccc
     1501 attccccgtg gtggaaattc tggaaaaaat cctgatcccg ccatgcttga gttttcctct
     1561 ccggccatgc cggggcgttc gtgaaccttc ccaaaaatcg ccagatctct gaacgctcct
     1621 cacactaaaa atatccacac cccacgcaaa attaaatttt tgcagataac tcattaatat
     1681 cagtcagttg gttgttatta aattacgcag tattaccttc tgtaaggtca atccaagtcg
     1741 tcggtgattc gtgtacgact tgccgacgac tcgtcataga gtcatcgacg actcactcca
     1801 cactatcagt aacttatgac gacttgactc tagagtcgaa tcgtcgcttt ggcgtttttt
     1861 tgaccgtggt gactctagag tcaagtcacg agtcgaatcg ccggtgaatc gtgtggtgag
     1921 tcgtccggcg acttgccata acgtgattgc cggccgtcga cgaacccgat tcctgaacgt
     1981 gctgaaaacc ggttttccgg ctgcgccggc aacgcttcac ggccacgcaa taaattgcgt
     2041 ccccgttcac cgttttcagt cgggtttggt gcgggttttg agttgtctgg cgtgaattca
     2101 ggatgaaatc tacctccagc cagtctggtg cataacaatt catgcccgta aaacccatca
     2161 gcgcgatttt gaggcgtttt cagggggtaa gacgtaggat ttaatgggtt acgccccaga
     2221 atcgtttctc gagcgtttga gcggtgcgtg taatgcgacg ttatggtaaa tgcctgtctt
     2281 gctcactttt agagcatgag gcaaaaaggg taaaaactta tttgcttaac agcccctatc
     2341 actatgtaaa ttaactcctg aaaactaaaa aatggaggat tggcatggcg actgctacta
     2401 attttgatgc gtggttagat gatgttgatg gcgattatga ggaggttatg gctctttatg
     2461 attccgttca gaatgtaagt gatatggggt tgtatcagtg tgttgagggt ggtcggggtg
     2521 atgcttgggt cgtgagctct aatcatcatc cagaagctct ttttctagca tcagctgtgg
     2581 ctagggatac tttcctcaaa ttgattagag aaaggctatg tggcggcgaa gatgttgatt
     2641 catggtatgg atttcaacga aatatatcga atgatcactc gtaatcgtac agagagttcc
     2701 ccttgtggga actcttaaaa tatgacgtta tagtaaatag gatgcgtagg ggttgtggct
     2761 cttatggtga cgagaaggta cttactaggt ggtgaatatc cctccgagga atttgttcaa
     2821 gcttctttag aaaaatattt ttttcgacaa gggttcgata tagatacggg ttcttatatt
     2881 gaccttattt gtcgtgataa agaatctagg gatgttgtgt ggcatattga agtaaaagga
     2941 aaaacatcac agccagggtt ggattttcga acttgtcttg gacaattagt gcagagaatg
     3001 acaaaagata atattaatta tgctattgct gttccaagaa taaaacagta tgaaagatta
     3061 atagaagaaa cgagcattct tgctgttagt aaattgaatt tacactggat atttgttggg
     3121 cctgatggca gtgtgacaat taaggaacct gatagctcta cgatgaaaaa tggtaatggt
     3181 aatggtaatg gtaatggtaa tggtaatggt aatggtaatg gaagagaagt ttctcttgtg
     3241 aatggggggt ttaaaagatt tattacgggg gattttatgc caacttgctc atatgggaaa
     3301 gctcctgttg tatttaaatc atctcggcga gaaatgtggg attggttgga cgattttgtt
     3361 atttcaaatg gggtgatccc aagtattgct gatattaaag aagaggctga atcgcggagt
     3421 gggaaatgga cgctttctaa tgttaaaata gagtatcagt tttggaaaat atatcacttg
     3481 tataaggggc attttttcta tcaatctgag tagctgactc atttgttcat caaatgccat
     3541 gatcttcttg agattcattc gctcaaagcg taatctcttt ctcggaaaac gaaaaaacca
     3601 cccggcaagg tggtttttcg aaggttcatt aaccggcaag tttatgaacc gtggtaacag
     3661 tcttgtgcga gacatgtcac caaatccgtc cttccagtgt agcctcagtt aggtcttcac
     3721 ttcaagaact caaatacatc tctcgcacat cctgtttacc agtggctgct gccagtggcg
     3781 ctttgtcgta cctttccggg ttggactcaa gttgatagtt accggaacag gcgcagcagt
     3841 cggactgaac ggggggttcg tgcatacagt ccagcttgga gcgaactgcc tacccggaac
     3901 tgagtgtcag gcgtggaatg agacaaacgc ggccataaca gcggaatgac accggtaaac
     3961 cgaatggcag gaacaggaga gcgcacgagg gagctaccag ggggaaacgc ctgggatctt
     4021 tatagtcctg tcgggtttcg ccaccactga tttgagcgtc agattttcgt gatgcttgtc
     4081 agggg
//
