LOCUS       NZ_CP054132             3692 bp    DNA     circular CON 28-JAN-2024
DEFINITION  Citrobacter portucalensis strain BY9F36 plasmid pHNBYF36-3, complete
            sequence.
ACCESSION   NZ_CP054132
VERSION     NZ_CP054132.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN15062844
            Assembly: GCF_021496985.1
KEYWORDS    RefSeq.
SOURCE      Citrobacter portucalensis
  ORGANISM  Citrobacter portucalensis
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Citrobacter; Citrobacter freundii complex.
REFERENCE   1  (bases 1 to 3692)
  AUTHORS   Lv,L., Gao,X., Zhang,Q. and Liu,J.-H.
  TITLE     CRE isolated from fish samples
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 3692)
  AUTHORS   Lv,L., Gao,X., Zhang,Q. and Liu,J.-H.
  TITLE     Direct Submission
  JOURNAL   Submitted (30-MAY-2020) College of Veterinary Medicine; National
            Risk Assessment Laboratory for Antimicrobial Resistant of
            Microorganisms in Animals, Guangdong Provincial Key Laboratory of
            Veterinary Pharmaceutics Development and Safety Evaluation, South
            China Agricultural University, NO. 483, Wushan Road, Tianhe
            District, Guangzhou, Guangdong 510642, China
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Date                     :: 11-MAY-2020
            Assembly Method :: SPAdes v. MAY-2020; Unicycler v. MAR-2020
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 200.0x
            Sequencing Technology :: Illumina HiSeq; Oxford Nanopore MiniION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 01/28/2024 03:26:05
            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)                     :: 4,845
            CDSs (total)                      :: 4,724
            Genes (coding)                    :: 4,658
            CDSs (with protein)               :: 4,658
            Genes (RNA)                       :: 121
            rRNAs                             :: 9, 8, 8 (5S, 16S, 23S)
            complete rRNAs                    :: 9, 8, 8 (5S, 16S, 23S)
            tRNAs                             :: 86
            ncRNAs                            :: 10
            Pseudo Genes (total)              :: 66
            CDSs (without protein)            :: 66
            Pseudo Genes (ambiguous residues) :: 0 of 66
            Pseudo Genes (frameshifted)       :: 21 of 66
            Pseudo Genes (incomplete)         :: 37 of 66
            Pseudo Genes (internal stop)      :: 19 of 66
            Pseudo Genes (multiple problems)  :: 11 of 66
            Pseudo Genes (short protein)      :: 1 of 66
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP054132.1.
            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..3692
                     /organism="Citrobacter portucalensis"
                     /mol_type="genomic DNA"
                     /strain="BY9F36"
                     /isolation_source="feces"
                     /host="Fish"
                     /db_xref="taxon:1639133"
                     /plasmid="pHNBYF36-3"
                     /geo_loc_name="China: Guangzhou"
                     /collection_date="2019-01-08"
     gene            329..553
                     /locus_tag="HRV88_RS24170"
                     /old_locus_tag="HRV88_24100"
     CDS             329..553
                     /locus_tag="HRV88_RS24170"
                     /old_locus_tag="HRV88_24100"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000879771.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="DUF6290 family protein"
                     /protein_id="WP_000879771.1"
                     /translation="MLAIRLSDEIESRLDSLAKQTGRTKTFYAREAILAHLEDLEDYYL
                     SAETAARVRRGDEAVHSSEDVRKSLGLDD"
                     /name="DUF6290 family protein"
     gene            537..803
                     /locus_tag="HRV88_RS24175"
                     /old_locus_tag="HRV88_24105"
     CDS             537..803
                     /locus_tag="HRV88_RS24175"
                     /old_locus_tag="HRV88_24105"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000262326.1"
                     /GO_function="GO:0008657 - DNA topoisomerase type II
                     (double strand cut, ATP-hydrolyzing) inhibitor activity
                     [Evidence IEA]; GO:0042803 - protein homodimerization
                     activity [Evidence IEA]"
                     /GO_process="GO:0030541 - plasmid partitioning [Evidence
                     IEA]; GO:0051290 - protein heterotetramerization [Evidence
                     IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="type II toxin-antitoxin system RelE/ParE family
                     toxin"
                     /protein_id="WP_000262326.1"
                     /translation="MVWTINYSDRALKSLRKMDKQNARRIVDFMDLRIAVAADPRQSGK
                     PLKGELGEFWRYRVGDYRILCEIRDDELVILAATIGHRREVYD"
                     /name="type II toxin-antitoxin system RelE/ParE family
                     toxin"
     gene            complement(865..1344)
                     /locus_tag="HRV88_RS24180"
                     /old_locus_tag="HRV88_24110"
     CDS             complement(865..1344)
                     /locus_tag="HRV88_RS24180"
                     /old_locus_tag="HRV88_24110"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_017896843.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_227525340.1"
                     /translation="MRKTLLLCVPLFLLAGCAQQKQQMPDANYEKFAKVEVASDACLKS
                     NFITAQEAGQAHSNISLFLSSWAYDYVRYSNLLAQGHEEVKKIKITQEGCNLLRAKIYQ
                     DNIEAQRYQKQMEMAAQQKALADQQALQSIQNMQNTLPKTTYCNQIGTQTICNSY"
                     /name="hypothetical protein"
     gene            complement(1436..1867)
                     /locus_tag="HRV88_RS24185"
                     /old_locus_tag="HRV88_24115"
     CDS             complement(1436..1867)
                     /locus_tag="HRV88_RS24185"
                     /old_locus_tag="HRV88_24115"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_003511628.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="DUF6530 family protein"
                     /protein_id="WP_053274236.1"
                     /translation="MNIPTHLKHKPIIAVENYDRIDGPYADDTDAMGLSVGIAQWNTPG
                     YTELSAKVWRNTGEKWSRQSEELPLHRVIDLATLICIAMDYSKHGRLSSSDDFPVSRSG
                     GNPELSRHIDLMKNELKENHEYLDESLKRLAAELKRLGY"
                     /name="DUF6530 family protein"
     gene            3039..3239
                     /locus_tag="HRV88_RS24190"
                     /old_locus_tag="HRV88_24120"
     CDS             3039..3239
                     /locus_tag="HRV88_RS24190"
                     /old_locus_tag="HRV88_24120"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001046776.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_024148903.1"
                     /translation="MNLCPDERLLFVRMISAMLRRSGGDAGAVMFEAYRHIVSDTNQAR
                     RSYMLDLLESVRHDYVHGGYT"
                     /name="hypothetical protein"
     gene            complement(3287..3475)
                     /locus_tag="HRV88_RS24195"
                     /old_locus_tag="HRV88_24125"
     CDS             complement(3287..3475)
                     /locus_tag="HRV88_RS24195"
                     /old_locus_tag="HRV88_24125"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000165998.1"
                     /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_000165998.1"
                     /translation="MTKQESAALNMAKFIRAQSLLLLEKLDVLDLDDEAADCERMHEQA
                     EALYQKLSARFGIQDGE"
                     /name="Rop family plasmid primer RNA-binding protein"
     Typing          complement(2154..2673)
                     /name="rep_cluster_2335"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="84.686"
                     /coverage="89.0"
                     /evalue="4.31e-144"
ORIGIN
        1 gtacaaaaaa agccccggag ggcttttaac tactgactta tttttttgag gatttgctgg
       61 gtttcaattt gtcagtattc cccggcgttt ttttattgtc acgctggcgt ttatcaggtt
      121 cccctgttga atcggcaatt cgtttcggac ccggcttaag acccataatc gttatccttt
      181 caatagttaa gaggaaagcc ctcaagctgg atatattgac agcgttacgg attatcaaga
      241 ggggccagca agattatttt ttgttctttt aggttgattg cgatactatt gctatacatg
      301 tatatcaaat ggtgttcagg aggtttatat gcttgctatc cggttatctg atgagattga
      361 gtcccgtctg gactcgctgg cgaagcaaac cggcagaaca aagacgttct atgcgcggga
      421 agcaatactg gcgcatctgg aagacctgga agattattat ctttcagcag aaactgccgc
      481 acgcgttcgc cgtggtgatg aagccgtgca ttcgtctgaa gacgtgagga agtcacttgg
      541 tctggacgat taactattcc gaccgggcgc tcaaatcgtt acgcaagatg gacaaacaga
      601 acgcacgacg gattgtggat tttatggatt tacgcattgc agttgctgcc gatcctcgcc
      661 agtcagggaa gccgctcaaa ggtgagctgg gcgagttctg gcgctatcgg gtgggagatt
      721 atcgcattct gtgtgagatc cgggatgacg agctggttat ccttgccgcc accattggcc
      781 atcgccgcga agtttacgac tgaagcccgc tatgcgggct ttttttgatg ttgacaacgg
      841 atgttatggt aaatcaattt atgatcagta gctgttacag attgtctgtg tgccaatctg
      901 gttacagtaa gttgttttag gtaaggtgtt ttgcatattt tgaattgatt gtaacgcctg
      961 ctgatctgct aaggcttttt gttgtgcagc catctccatc tgtttttgat atctctgtgc
     1021 ctcgatgttg tcttgataga tttttgcgcg caaaaggttg cagccttcct gtgttatctt
     1081 gatttttttt acttcttcat gtccttgcgc caagaggttt gagtaacgaa cgtagtcata
     1141 cgcccatgaa cttaaaaata aggatatgtt ggaatgtgcc tgacctgctt cctgtgctgt
     1201 aatgaagttg gattttaagc aggcatcaga ggcaacctcg acctttgcga acttttcgta
     1261 attagcatct ggcatttgtt gtttttgttg ggcgcaacca gcaagtaaaa acaacggaac
     1321 gcaaagtaat aacgtttttc tcatttagtg ttttatcctt ttttgacaag aaaaacctaa
     1381 tgccccgtgg tgggtatata aaaaatcacg ggggagcgta gcgaccttcg tctacttaat
     1441 aacctaaacg ttttagttct gctgctaaac gcttaagact ttcatctaaa tactcgtgat
     1501 tctcttttaa ttcgtttttc atcaaatcaa tatgacgaga taactcagga ttacctcctg
     1561 aacgactgac cggaaagtcg tcgctggaag ataagcgacc atgtttgctg taatccatcg
     1621 ctatgcagat aagcgttgct aagtcgatga cacggtgaag aggtaactct tcagattgcc
     1681 gtgaccactt ttctccggtg ttgcgccaga cttttgctga tagctcggta tatccggggg
     1741 tgttccattg agcaattcca acggaaagcc ccatagcatc agtgtcatca gcataggggc
     1801 catcaattcg atcatagttt tctacagcga taatcggttt gtgtttcaga tgagtaggga
     1861 tgttcatatc attctctgca gtgtgaattt ggcttcttaa tcagtaaaca agaaaacaaa
     1921 taaatttact aattagtaaa tgtaacattt tatgaattgt tggatttgaa tttgttggag
     1981 tggatcttct tgagatcatt tatggctgag cgtaatctct tgctctgaaa acgaaaaaac
     2041 cacctgggga ggtggttttt cgaaggttag gtcagttggg gaactgctta accaggtaac
     2101 tgtcttgtgc gagacgagtc acctaaactg tccttccagt gtagccggac tcaggctccc
     2161 acttcaagaa ctccagataa atctctcgca catctcagtt accaatggct accgccactg
     2221 gcgatttttc gtgtctgttc cgggttggac tcaagtgata gttaccggga cgacgtggta
     2281 gtcgggctga acggggggtt cttgcataca gcccagcttg gagcgaactg tctaaacgga
     2341 acggggcgtg gtgatttagg taaagcttcc accacaacac ggacgccgca tgacgggaac
     2401 aggagagcgc aagagggagc catcaggtgg aaacgcctgg tatctttata gtcctgtcgg
     2461 gtttcgccac cactgatttg agcgtcagat ttcgtgatgc ttgtcagggg ggcggagcct
     2521 atggaaaaac ggcttcgccg tggccttctt gcttccctgt taagcttctt cctggaagat
     2581 gccaggaaat ttccgccccg ccagtaagcc ggtaccgctc gccgcagccg aacgaccgag
     2641 cggagcgagt cagtgagcga ggaagcggaa tatctccggg cttatctttg gcaccgtacg
     2701 cgccatagct gcatttttta atacgatgca ggatagggca gacgccgcaa aatgacgtca
     2761 tccgacatca ttccgccgcg ttcgcccagt gacctacagt cggctctggg gtgtcggggc
     2821 tgtgccctga cacccgctaa aagcactgac gcgcctgcgg cttgcccaac cccgcgccgt
     2881 ccgggaaaga atttcccgat cgacccgacg tttctgttta cctgtgatgt taacgtttgg
     2941 atctttttcc cgggtttacc tattttcttc taatgaagcg ttcacagctg acgttaatag
     3001 atgggtgctt catgtttggt ttttcaccag gagaacttat gaacctttgc cccgatgaac
     3061 gtctgctctt tgtgcggatg atttccgcta tgcttcgccg ttcgggcggt gatgcgggtg
     3121 ctgttatgtt tgaggcgtat cgccatattg tgtccgatac caatcaagct cgtcgttcct
     3181 acatgctcga cctgctcgaa agcgtcaggc atgactatgt acacggtgga tatacatagt
     3241 tgccatggat acgcttttcg tctaagtgag cgttattttc gtctctttat tcgccgtcct
     3301 gtataccgaa gcgtgcgctc agcttctgat aaagcgcttc tgcctgttcg tgcattcgct
     3361 cacagtcggc tgcctcgtca tcaagatcga gcacgtcgag tttttcgagc agcagcagcg
     3421 actgcgcccg gataaatttt gccatgttca gtgcggctga ttcctgtttt gtcatacggc
     3481 tttttcccgg ttttatggtg atcgcagact gaaatcttac ttcattcact tgagtgcata
     3541 gccatgcagg tacgcagaaa tcatcagggg cgttttttct cgatatgggc acagaaaggt
     3601 gtatgtttca ggccggagtc ctcagaaacg ccctgagggc gcctgaggtg gtgcgggcaa
     3661 cagatgttat gttcaatcag actgatctgc gg
//
