LOCUS       NZ_AP022491             3653 bp    DNA     circular CON 30-JAN-2024
DEFINITION  Citrobacter portucalensis strain STN0717-27 plasmid pSTN0717-27-5,
            complete sequence.
ACCESSION   NZ_AP022491
VERSION     NZ_AP022491.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMD00195946
            Sequence Read Archive: DRR199751
            Assembly: GCF_015137095.1
KEYWORDS    RefSeq.
SOURCE      Citrobacter portucalensis
  ORGANISM  Citrobacter portucalensis
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Citrobacter; Citrobacter freundii complex.
REFERENCE   1
  AUTHORS   Sekizuka,T., Katagiri,M., Asai,K. and Kuroda,M.
  TITLE     complete genome sequences of Citrobacter portucalensis str.
            STN0717-27 isolated from hospital sewage
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 3653)
  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                   :: 734x
            Sequencing Technology             :: Sequel; NextSeq 500
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 01/30/2024 08:45:51
            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)                     :: 5,147
            CDSs (total)                      :: 5,032
            Genes (coding)                    :: 4,899
            CDSs (with protein)               :: 4,899
            Genes (RNA)                       :: 115
            rRNAs                             :: 9, 8, 8 (5S, 16S, 23S)
            complete rRNAs                    :: 9, 8, 8 (5S, 16S, 23S)
            tRNAs                             :: 83
            ncRNAs                            :: 7
            Pseudo Genes (total)              :: 133
            CDSs (without protein)            :: 133
            Pseudo Genes (ambiguous residues) :: 0 of 133
            Pseudo Genes (frameshifted)       :: 35 of 133
            Pseudo Genes (incomplete)         :: 79 of 133
            Pseudo Genes (internal stop)      :: 31 of 133
            Pseudo Genes (multiple problems)  :: 11 of 133
            Pseudo Genes (short protein)      :: 1 of 133
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            AP022491.1.
            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..3653
                     /organism="Citrobacter portucalensis"
                     /mol_type="genomic DNA"
                     /strain="STN0717-27"
                     /isolation_source="sewage"
                     /db_xref="taxon:1639133"
                     /plasmid="pSTN0717-27-5"
                     /geo_loc_name="Japan:Tokyo"
                     /collection_date="2018-07-17"
     gene            102..803
                     /locus_tag="JLF36_RS25565"
                     /old_locus_tag="STN0717CIT27_P50010"
     CDS             102..803
                     /locus_tag="JLF36_RS25565"
                     /old_locus_tag="STN0717CIT27_P50010"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001281399.1"
                     /GO_function="GO:0003887 - DNA-directed DNA polymerase
                     activity [Evidence IEA]"
                     /GO_process="GO:0006270 - DNA replication initiation
                     [Evidence IEA]"
                     /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_061371533.1"
                     /translation="MSDLIAYKSNALIEASYKLTLQEQRFLLVCISRLKSGEDAPSPDE
                     QKTMTITAAEFHDAFPDMGRQHAEAKLKEAIDRLWDRSVIIKNEEKREEFRWVQYRAQY
                     LKGEAKVEITFSDAIMPYLTQLKGQFTRVVVKNVSSLSSTYSIRIYELLQQFRSTGDRT
                     ISLDDFRSILELEDKYSDFKILNRDLIKPAIAELNEKSDLAVTVETVKKGRTVVALRFR
                     FKEDKQIKMAV"
                     /name="replication initiation protein"
     gene            complement(984..2423)
                     /locus_tag="JLF36_RS25825"
                     /old_locus_tag="STN0717CIT27_P50030"
     CDS             complement(984..2423)
                     /locus_tag="JLF36_RS25825"
                     /old_locus_tag="STN0717CIT27_P50030"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_011382089.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MobA/MobL family protein"
                     /protein_id="WP_052862116.1"
                     /translation="MAIARLSMKAGMKGRGADHSAYISREGKYANRLERGERLEATDHG
                     NMPEWAKDNPQQFWLAADAYERKNGTSYREMEIALPRELDSEQREALVRDWTEQELGDK
                     HAYQWAIHVPTAADGGEQPHVHLMFSERQRDGIERDPEQYFKRYNSRNPEAGGARKGYG
                     EHGGQPRTLEQRREELVALRGRWEAKANEHLERAGQRERIDMRSYTAQGKDAIPEKKQL
                     PSEWRDERKRAEILDFRAAKAEQEQAQKDAGKVLYEHNSAVEHYRGVVAAVPEHRLKNS
                     SPDSIALDLREKLVGQRVDSDPAVLAAREQEEKTGKALENARQERDKTRQEAEQQRQEQ
                     QRWEEENRMRRWLHDKGIKKDERYTGLQQQREKSEQQAQAAVQKEQQAEMQHRQAVTAR
                     EETETDVRQQANEKWFEHHHTAVKEAAAERQRELERQEREQQQAKQAEYQQLIAQQQRQ
                     REQEKEQEHTPERQHGRGMSM"
                     /name="MobA/MobL family protein"
     gene            2596..3054
                     /gene="traD"
                     /locus_tag="JLF36_RS25575"
                     /old_locus_tag="STN0717CIT27_P50040"
     CDS             2596..3054
                     /gene="traD"
                     /locus_tag="JLF36_RS25575"
                     /old_locus_tag="STN0717CIT27_P50040"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_011382088.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="conjugal transfer protein TraD"
                     /protein_id="WP_052862006.1"
                     /translation="MHENEWLEKRLAYIRGLNAPNEQQRLLLMLAQLSQPTPNDRRKLG
                     VLIRAEKAAERALKARADAAKVLNAERRAVRKARDHELYKAAGLMGVAGVVDRETGRLN
                     VDAGLLVGLLMELAAGTLPENLHQEALKSRGDAAIAAREKKNKTNQAG"
                     /name="traD"
     Typing          103..803
                     /name="rep_cluster_1778"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="97.863"
                     /coverage="100.0"
                     /evalue="0.0"
     Typing          complement(988..2423)
                     /name="MOBQ"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="98.747"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 ggttatatcc acaaaaaaag gtgagtaaaa aaaaacattg atcacctttt gattgggtga
       61 taaaacaaaa taaacactca ccataagaac ataaattact catgtctgat ttgatagcct
      121 acaaatccaa cgcccttatc gaggcaagtt acaagctcac cttgcaggaa cagcgcttcc
      181 tgttggtctg tatcagccgc ctgaaatccg gggaagatgc cccttcgccg gatgaacaaa
      241 aaaccatgac catcacggcc gcagagtttc atgatgcttt tcctgatatg ggacggcagc
      301 acgctgaagc caagctcaag gaagcgatag atcgcctctg ggacaggtca gtcatcatca
      361 aaaacgagga gaagcgcgag gagttccgct gggtgcagta ccgggcgcag tatctcaaag
      421 gtgaggcgaa agtagagata accttctccg atgccatcat gccctatctg acacagctca
      481 aggggcagtt tacgcgggta gtggtgaaga acgtatccag cctctccagc acctacagca
      541 tccgcattta cgagctgctc cagcagttcc gcagcaccgg tgacagaact atttcactcg
      601 atgacttccg atccatactg gaactggaag ataaatattc tgattttaag atattgaaca
      661 gagacttaat aaaaccggcc atcgctgagc tgaacgaaaa aagcgatcta gccgtcaccg
      721 tcgagacggt gaaaaagggg cgaaccgttg tcgcgttgcg gttccggttc aaagaggaca
      781 agcagatcaa gatggccgta tgaataacga aaccaaaaag agcctaagcc gtggatctca
      841 ccgcaggaat gcaacatgct gacggcgacg gagggcgtgg ccgttgtggt tctcaaccgc
      901 gccggcgctc cccgccgcga tgcgatagag ctggttcccg aataccgcgc cggctgaaaa
      961 aaaaggcacc gcaaggtgcc tttttacatg ctcattccgc gcccgtgctg ccgttccggt
     1021 gtgtgttcct gctctttttc ctgctcacgt tgccgctgtt gctgggcgat caactgctga
     1081 tattcagcct gttttgcctg ctgctgctcc cgctcctgcc gctcaagttc ccgctggcgt
     1141 tcggcggcag cctctttcac ggccgtatga tgatgctcga accatttttc attggcctgc
     1201 tgacggacat cagtttcggt ttcttcccgc gcagtgacgg cctgccggtg ctgcatttct
     1261 gcctgttgct ccttctgcac ggcggcctgt gcctgctgct ctgatttttc ccgttgctgt
     1321 tgcagtccgg tataacgctc gtcctttttg atgcccttgt catggagcca gcggcgcatc
     1381 cggttttctt cttcccatcg ttgctgctcc tgccgctgct gctcggcttc ctgccgggtt
     1441 ttgtcccgtt cctgccgcgc attctccagc gccttaccgg ttttttcttc ctgctcccgt
     1501 gcggccagta cggccggatc gctgtcaacg cgctgcccga cgagtttttc tcgcaaatcc
     1561 agagcgatgc tgtccggtga ggagtttttc agccggtgct ccggcaccgc ggccacaacg
     1621 ccgcgatagt gctctaccgc gctgttgtgc tcataaagca ccttgccggc gtctttctgt
     1681 gcctgttcct gctcggcttt tgcagcgcgg aaatccagta tttctgcacg cttccgctcg
     1741 tcgcgccatt cactcggtag ctgctttttt tcaggaatgg cgtccttgcc ctgcgctgta
     1801 tagctgcgca tgtcgatacg ttcgcgctgg ccggctcgct caagatgttc gttagctttg
     1861 gcctcccaac ggccgcgcag ggcgacaagt tcctcgcgcc gctgctccag cgtgcgcggc
     1921 tggccgccat gctcaccgta ccccttccgc gccccgcctg cttccgggtt ccggctgtta
     1981 tagcgtttga aatactgctc tggatcgcgc tcaatcccgt cccgctgccg ttcggagaac
     2041 atcaggtgta cgtgtggctg ctcacctccg tcagcggcgg tgggaacgtg gatagcccac
     2101 tgataagcgt gtttgtcgcc cagctcctgc tccgtccagt ccctgacaag cgcctcacgc
     2161 tgttcgctgt ccagctcacg aggcagggcg atttccatct cacggtatga ggtgccgttc
     2221 ttgcgctcat acgcatcggc ggccagccag aactgttgcg gattgtcctt cgcccactcc
     2281 ggcatattgc cgtggtcggt ggcctccaga cgctctcccc gttccagacg atttgcatac
     2341 ttgccctcac gggaaatgta ggccgagtgg tctgcgccac ggcctttcat tcccgctttc
     2401 atgctgagtc gtgcaatcgc catttcttta ccctgtaaat ttggggtgtg gggcttgcca
     2461 caccgcgcag tttctcaccg aaggggagaa actactaagc gcgccttccg aaaatcgaag
     2521 atttccgaga aggatacacc ctccgccgca actgtggtag ttttatgcag gcacgaaacg
     2581 aacagcgggg gaaaaatgca cgaaaatgaa tggctggaga aacggctcgc atatattcgc
     2641 ggactgaacg caccgaacga acagcagcgc cttttgctga tgctggcgca gttgtcccag
     2701 ccaacaccga atgaccgccg caagctggga gtgctcattc gtgctgaaaa agccgcagag
     2761 agggcgctaa aggctcgcgc tgatgccgct aaagtgctga atgccgaacg tcgcgccgtc
     2821 cgcaaagcgc gtgaccacga actctacaag gcggctggtc tgatgggcgt ggccggcgtg
     2881 gttgaccgtg aaaccgggcg gctcaatgtg gatgccggcc tgcttgtcgg attgctcatg
     2941 gagctggctg ccggtacact gccggaaaac ctgcaccagg aagcacttaa atctcgcggt
     3001 gatgctgcta tcgctgcccg tgagaaaaaa aataaaacga atcaggctgg ctgatgaacc
     3061 tcacacttgt ttgccaatag ccctgagagg ccgcagaaat catcctgcgg cttttttttg
     3121 ccttatggta gggaaacgta cagggaaaag aaaaaaacgc tcacagcgcc ttacagagcg
     3181 ttttagaact atcagccgat ccgttgctgg cttcgggctg tgacgactgc cgcccctcca
     3241 tcctgaaaag accgggtttc cccttcaccg gcaatgaagc gacaccagag cctgacggtc
     3301 gaagacgtac agcctttcag cgatttgccc gcccgtccgg gcgggtgcta cctcctgcca
     3361 tagcgcgtta ttcacaggga tttacggcca ttcagcgtcc tgcagaacag gcatatttat
     3421 aacctactgt ttattttgat gttttttttt cgtgtcgtcg ttttatccac agcgccgccg
     3481 ttaagttttt aagatctttt ttttagatct tcttttttaa aacctttttc ggtcttgtaa
     3541 ccccatgatt ttaataatgt tctggcaaga taggtgagga aatcgggggt tataggtgag
     3601 gaaatcgggg gttataggtg aggaaatcgg gggttatagg tgaggaaatc ggg
//
