LOCUS       NZ_CP136608             5234 bp    DNA     circular CON 26-JAN-2024
DEFINITION  Citrobacter portucalensis strain L2724hy plasmid p7-L2724hy,
            complete sequence.
ACCESSION   NZ_CP136608
VERSION     NZ_CP136608.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN37738783
            Assembly: GCF_032917905.1
KEYWORDS    RefSeq.
SOURCE      Citrobacter portucalensis
  ORGANISM  Citrobacter portucalensis
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Citrobacter; Citrobacter freundii complex.
REFERENCE   1  (bases 1 to 5234)
  AUTHORS   Guo,K.
  TITLE     SFO-1, KPC-2, NDM-1 were first reported in Portuguese citrobacter
            collected clinically
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 5234)
  AUTHORS   Guo,K.
  TITLE     Direct Submission
  JOURNAL   Submitted (10-OCT-2023) Basic Medicine, Zhejiang Chinese Medical
            University, Puyan Street, Hangzhou 310053, China
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: Unicylers v. 0.4.9
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 201.0x
            Sequencing Technology             :: Oxford Nanopore
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 01/24/2024 12:18:11
            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)                     :: 5,561
            CDSs (total)                      :: 5,440
            Genes (coding)                    :: 5,316
            CDSs (with protein)               :: 5,316
            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)              :: 124
            CDSs (without protein)            :: 124
            Pseudo Genes (ambiguous residues) :: 0 of 124
            Pseudo Genes (frameshifted)       :: 34 of 124
            Pseudo Genes (incomplete)         :: 90 of 124
            Pseudo Genes (internal stop)      :: 25 of 124
            Pseudo Genes (multiple problems)  :: 24 of 124
            Pseudo Genes (short protein)      :: 1 of 124
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP136608.1.
            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..5234
                     /organism="Citrobacter portucalensis"
                     /mol_type="genomic DNA"
                     /strain="L2724hy"
                     /host="Homo sapiens"
                     /db_xref="taxon:1639133"
                     /plasmid="p7-L2724hy"
                     /geo_loc_name="China:Hangzhou"
                     /collection_date="2020-09-11"
     gene            complement(join(4923..5234,1..561))
                     /locus_tag="RY846_RS27685"
                     /old_locus_tag="RY846_27685"
     CDS             complement(join(4923..5234,1..561))
                     /locus_tag="RY846_RS27685"
                     /old_locus_tag="RY846_27685"
                     /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="DUF4231 domain-containing protein"
                     /protein_id="WP_088402844.1"
                     /translation="MKYPSLYDVTNKRSASYQKRYFFFLRLEYCILILNAVNAFLTYEK
                     KHIVALVLFSMLMLMMVLKIKKTSEQEWYKYRAITESIKTVSWKFSMRAEPFNDEDEVK
                     NINSLSEYLEDIVGGSEFISKTIDPKSVDESTVTDEMKGLRTLSFEKRRDFYVDGRIND
                     QRDWYVSKAQANKDAGKKWNICMFVIYVLAFLCSLYNAYYSVPGSIIPISILTTIASSL
                     VGWIQVKRYSELSASYILTAHEIGVIKEQASYVSSESDFSSFIRDAETAFSREHTQWIA
                     RRVANRKPK"
                     /name="DUF4231 domain-containing protein"
     gene            complement(558..1463)
                     /locus_tag="RY846_RS27690"
                     /old_locus_tag="RY846_27690"
     CDS             complement(558..1463)
                     /locus_tag="RY846_RS27690"
                     /old_locus_tag="RY846_27690"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_019725130.1"
                     /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_085281041.1"
                     /translation="MHNAALELFNDRLPHKPYFSDDLHFGVRIAGKERAILAKYIQFNQ
                     PHAMFWLGFDVDRAGAAIDWSDRNAPAPTLTITNPENGHAHLLYALKTSIRTAPDGKMK
                     PLCYAAAVENALRKKLEADTGYSGLICKNPNHGHWKVAVWQPELYTLDWLADFLDLNAA
                     NEKEIVADYGLGRNCTLFDKTRKWAYRAIRQGWPEYEQWLQACYERASAYNLQFAVPLD
                     ENEVSGIAKSIAKWTSSKFSEESFSDFVKKTHTKKIQSKRGVLSGKSRRIGSLEDTRPW
                     DDLGISRRKYFYMKKNGEGK"
                     /name="replication initiation protein"
     gene            complement(1657..1941)
                     /gene="nadS"
                     /locus_tag="RY846_RS27695"
                     /old_locus_tag="RY846_27695"
     CDS             complement(1657..1941)
                     /gene="nadS"
                     /locus_tag="RY846_RS27695"
                     /old_locus_tag="RY846_27695"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000007431.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="NadS family protein"
                     /protein_id="WP_001697687.1"
                     /translation="MSFFDELKASLEEAVEIKNGVREPARVTRYELADVKAIRAQLNVS
                     QSEMAKVLGTSLDTIKSWETGRRNPTGLAAKVLATIQANPKFFQELAAH"
                     /name="nadS"
     gene            complement(1943..2275)
                     /locus_tag="RY846_RS27700"
                     /old_locus_tag="RY846_27700"
     CDS             complement(1943..2275)
                     /locus_tag="RY846_RS27700"
                     /old_locus_tag="RY846_27700"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_015873600.1"
                     /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_085281492.1"
                     /translation="MSHAIEFIETPMFTRQIKQIATDEELRELQKTLIESPDKGDLIQK
                     TGGLRKVRMATGNQGKSGSARVIYFLATTEVIYLVMAYPKSTKDSLTDAEKAALKMLTQ
                     QLKDEV"
                     /name="type II toxin-antitoxin system RelE/ParE family
                     toxin"
     gene            complement(2431..2676)
                     /locus_tag="RY846_RS27705"
                     /old_locus_tag="RY846_27705"
     CDS             complement(2431..2676)
                     /locus_tag="RY846_RS27705"
                     /old_locus_tag="RY846_27705"
                     /inference="COORDINATES: protein motif:HMM:NF016769.4"
                     /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_306802945.1"
                     /translation="MSKTMTEMEKQLLSALESLQTSYEQQQQAWQDSYSSLQHMFETTS
                     QALTHSDRVCQHLSSQVESLRAQVESLSRNVSRLMR"
                     /name="MbeD family mobilization/exclusion protein"
     gene            complement(2725..3210)
                     /locus_tag="RY846_RS27710"
                     /old_locus_tag="RY846_27710"
     CDS             complement(2725..3210)
                     /locus_tag="RY846_RS27710"
                     /old_locus_tag="RY846_27710"
                     /inference="COORDINATES: protein motif:HMM:NF016710.4"
                     /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_108490868.1"
                     /translation="MSEILNLAKGFEEKSKQQAQDTELSVKREFARLETSISAELQSSS
                     QSISNAIREQNGRLTGMIRTSVSAAMAWIFLCFALLIGILGGIIWFQGTIITSRLSEMD
                     SYSQQLESLKAKSGAGVTIYSDDKNRNTYLVVLPKQAHGVETYTSTTDNTVVKYTAK"
                     /name="MbeB family mobilization protein"
     gene            complement(<3257..3679)
                     /locus_tag="RY846_RS27715"
                     /old_locus_tag="RY846_27715"
                     /pseudo=""
     CDS             complement(<3257..3679)
                     /locus_tag="RY846_RS27715"
                     /old_locus_tag="RY846_27715"
                     /inference="COORDINATES: protein motif:HMM:NF015397.4"
                     /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(3888..4214)
                     /locus_tag="RY846_RS27720"
                     /old_locus_tag="RY846_27720"
     CDS             complement(3888..4214)
                     /locus_tag="RY846_RS27720"
                     /old_locus_tag="RY846_27720"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_006674374.1"
                     /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_000415578.1"
                     /translation="MEKRTKEIKIRLTETEHQRLLDRCDRTHLAEWLRQLGLGEHTSRK
                     RRVPDVAPELLRQVSGIGNNLNQIARRLNQTDSLTPSERASLLVVLTSLDRQLGDLLEQ
                     NRDR"
                     /name="MobC family plasmid mobilization relaxosome protein"
     gene            4501..4905
                     /locus_tag="RY846_RS27725"
                     /old_locus_tag="RY846_27725"
     CDS             4501..4905
                     /locus_tag="RY846_RS27725"
                     /old_locus_tag="RY846_27725"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_019821692.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="TIR domain-containing protein"
                     /protein_id="WP_085281039.1"
                     /translation="MAREHKVFISHAWAHHDELESLRRLIDARPYFNAEYSEVSRNEPI
                     NSTNAPYIKSVLKRKILDSNILIGLAGIYASHSSWMEWELDTALANGIPVIGVVPRGAQ
                     RISTMVSTRAVEVVRWNTESIIAAIRLHAR"
                     /name="TIR domain-containing protein"
     Typing          complement(2340..3898)
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="93.678"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 gaacatacaa atgttccatt ttttccctgc atctttgttt gcttgagcct tacttacata
       61 ccaatctctt tgatcattaa tccttccatc tacataaaag tctctgcgct tttcaaatga
      121 tagggttcga agccctttca tctcatcagt caccgtgctt tcatccactg acttaggatc
      181 aatagtttta gatatgaact cactaccacc aacaatatcc tccagatact ctgataatga
      241 gtttatattt ttaacctcat cttcatcatt aaatggttca gctctcatgg aaaacttcca
      301 tgagacagtt tttatcgatt cagtaatcgc cctgtatttg taccactctt gttctgatgt
      361 ttttttaatt tttaaaacca tcattaacat aagcatggag aacagtacta atgcgactat
      421 gtgttttttt tcataagtta agaaagcatt gaccgcatta agtatcaaaa tgcaatattc
      481 aagccttaaa aagaagaaat accttttctg atatgaagca gatcttttat ttgttacatc
      541 ataaagactt gggtatttca ttttccttca ccattctttt tcatataaaa atacttcctt
      601 ctacttatgc ccaaatcatc ccacggacga gtatcctcta gactacctat tcgtcttgat
      661 tttcctgata aaacacctct ctttgattga attttttttg tatgtgtctt tttaacaaaa
      721 tcgctgaatg attcctcact aaattttgat gaagtccact tagcaatact tttagctatt
      781 ccactaacct cattttcatc cagcggtact gcgaattgca gattataggc gctggcgcgt
      841 tcgtagcagg cttgcagcca ctgctcatac tcaggccagc cctgacggat agcgcgatag
      901 gcccacttac gggttttatc gaatagggtg cagttacggc ctaatccgta gtcggcaacg
      961 atttctttct cgttcgcggc gttcaaatca agaaaatcag ccaaccagtc cagcgtgtag
     1021 agttccggct gccatacggc aactttccag tggccgtggt tcggattttt gcagattagt
     1081 cccgaatacc ccgtgtcagc ctctaatttt ttacgtagcg cgttctccac ggcggcggcg
     1141 tagcacagcg gcttcatttt tccgtccggc gcggtacgta tcgaggtttt cagcgcataa
     1201 agcaggtgcg cgtgtccatt ttcagggtta gtgatggtca gcgtgggcgc gggcgcgttg
     1261 cggtcactcc agtcgatggc ggcaccggcg cgatcgacgt cgaatcccag ccagaacata
     1321 gcgtgaggct gattgaactg aatgtatttc gccagaatgg cgcgttcctt accggcaatg
     1381 cgtacaccaa agtgcagatc gtccgaaaag tacggcttgt gcggtaagcg gtcgttaaaa
     1441 agttcgagtg cggcgttatg caatgtgccc tgcgcttatg gcgggctgtt gtctggcacg
     1501 gttcatgtgc taatatcctt tcaaggtttc gtacctggcc ctggtagtca tgctcatccg
     1561 ccaagatagc tcatgatttc cggggctttg ttttttctgt tgccgttaaa ttacacgtga
     1621 gcggcctcgc ctgtcgaatc cttctgtcac aacggcttag tgcgccgcca gctcctggaa
     1681 gaattttgga ttcgcctgga tggttgccag caccttcgcc gccagtccag tcgggttacg
     1741 gcgtccggtt tcccagctct tgatggtgtc gagactggtt cccagcactt tcgccatctc
     1801 actctgtgaa acgttcagct gtgccctgat ggccttcacg tctgccagct cgtaacgggt
     1861 gacgcgggca ggctctctga cgccgttttt gatttcaacg gcttcttcca gcgatgcttt
     1921 cagctcgtca aaaaaactca tgtcacacct cgtctttcag ttgttgggtc agcatcttca
     1981 gcgcggcttt ctccgcgtcc gtcaggctgt ctttggtgct tttcgggtag gccatcacca
     2041 gataaatcac ctcggtggtg gccagaaagt aaatcaccct tgcactgccg ctttttccct
     2101 ggtttcccgt cgccattctg acttttcgca gcccgccggt tttctggatg agatcgcctt
     2161 tgtccggcga ctcaatcagc gtcttttgca gctccctgag ctcttcatcc gtggcgatct
     2221 gttttatctg acgggtaaac atcggggtct cgataaactc aatcgcatga ctcacggctg
     2281 tctcctgttt ttaatggcgt acatagtaca ctaaaatctg aattcggaaa agcgatcaca
     2341 tcgaggggcc atagtagcgg gtcggttttt tctgcggctc cggctgctgc tcgcgcagct
     2401 tctcctcacg ggcgcggtca tgctgtgcaa tcagcgcatc aagcggctga cgttcctgct
     2461 caagctctcg acctgcgcgc gcaagctctc tacctgactg ctcaagtgct gacacaccct
     2521 gtcgctgtgc gtcagcgcct gtgaggtagt ctcgaacatg tgctgcaagc tgctgtagct
     2581 gtcctgccac gcctgctgct gttgctcgta acttgtctgt aagctttcta aggcgctcag
     2641 aagctgtttt tccatctcgg tcatggtttt gctcatcctc ggtcttaaaa ccgctcagtc
     2701 gcgattcagg gcgttctgac ggggttattt cgccgtgtat ttcaccacgg tgttgtcggt
     2761 cgtcgatgtg taggtttcca cgccgtgcgc ctgcttcggc agcaccacca ggtaagtgtt
     2821 ccggttcttg tcgtcgctgt aaatcgtcac gcccgcgccg cttttcgctt tcaggctctc
     2881 cagctgttgg ctgtagctgt ccatctcgct caggcgcgag gtgatgatcg tgccctgaaa
     2941 ccagattatc ccgcccagga taccgatcag cagggcaaag cagaggaata tccacgccat
     3001 cgccgctgag acggaggttc tgatcatgcc cgtcagcctg ccgttctgct cgcggatagc
     3061 gttgctgatg ctctgcgagc ttgattgcag ttccgcgctg atagacgtct ccagcctcgc
     3121 gaactcgcgc ttcacgctca gctcggtatc ctgcgcctgc tgcttcgatt tctcctcgaa
     3181 gcccttcgcc aaatttaaaa tctcgctcat atatcattcc tttcagccgg atatttcggc
     3241 cgccgtccgg atcggcaatg ctgatgctgc ttttcgtttc ccgtgccacg gtcaggccgt
     3301 agctttccag ctgcgtcacc acgtcctgcc ggctgcggat catgccctgc tgcatcaggt
     3361 tcatcaggcc ggcggtaatt ttctctgccg cctgctgttt gtcgcgggga agatcgctgg
     3421 cctgcgtcag cgggcggcgg taagtcggat cgttcgggtc gcgcagcccc agccggtcgt
     3481 tggtcagggt ctgccaggcg ttgacacggg ggcggtcagc gcggtcaaag tagggttgca
     3541 ggcgtttgcc gctctgcaat tcgatgttcg ggatgacaaa attcagctca agccgtccct
     3601 tgtcgcgatg ctctacccac agacaggcgt actggtcaca atcgaggccg gtcagcagcg
     3661 tgtgctccca ttcgtccatc aggcgcgatt tctccgcgtc tgcaatgtca ggttcctgaa
     3721 atgacagcac gccagatgtg taggcgcggg caaagtcgca gccgtcgatt agctcgcgca
     3781 catgttcagg gttgccgcgc agtacgcggg cctgttcgcg ctgccggtct ttacccagca
     3841 ggtaatccac gggcccactg cccgaacccg caccccgtga gtgaatttta acgatcacgg
     3901 ttctgctcca gcaggtcgcc aagctgacgg tcaaggctgg tcagtacgac gagcagcgag
     3961 gcacgttcag aaggcgtcag ggaatcagtc tggttcaggc gacgggcgat ctggttcagg
     4021 ttgttaccaa tcccgctgac ctgtcgcaga agttcgggag ccacatcagg cacacggcgc
     4081 ttgcgtgagg tgtgttctcc cagaccaagc tgacgcagcc actctgcaag atgagtccgg
     4141 tcacagcgat caagcagtcg ctgatgctca gtttcggtga gccggatttt gatctctttt
     4201 gttcgctttt ccataggctc cgctgagaaa aaattcgcac cactgtgaga atttttcgca
     4261 gtggatgcca ggggtttcgg ggggcggcga gccccctgaa ccagtcacgg tggcacctcg
     4321 ttagagggga cgctgtgtgt actggcttaa agtaaggtga agtatggcag attctgtgct
     4381 ggctgcaaaa aaaacggccc ctctaagaga ggctgttatc tgatataggt tcgagtgcaa
     4441 aacggatcgg cgcagaggta taatgcgcgt tcatagggga ttgagtaaaa ggagcaatca
     4501 gtggcaagag aacataaggt ttttattagt catgcatggg cgcatcacga tgaactggaa
     4561 tcattaagaa gattgattga cgctagaccc tactttaatg ctgagtattc cgaagtcagc
     4621 aggaatgaac caataaattc aaccaacgca ccgtacataa aatccgttct caaaagaaag
     4681 atactagatt ctaatatctt gattggttta gcaggcatct atgcatctca tagtagttgg
     4741 atggagtggg agttagatac tgcgctagct aacggaatac ctgttatagg tgttgttcca
     4801 agaggtgcgc agcggatatc taccatggtt tcaacaagag cagtagaagt tgttagatgg
     4861 aacactgaaa gtattattgc tgcaatccgc cttcatgcgc gataaaaaag gggcggtgcc
     4921 ccttacttcg gttttctgtt ggccactcgt ctagcaatcc attgggtatg ctctctcgaa
     4981 aatgcagttt ccgcatctct aataaatgag gagaaatcac tctcacttga aacatatgac
     5041 gcctgttctt ttattacccc tatttcatgc gcggtaagaa tatacgaagc ggacagttcg
     5101 ctataccttt taacttgaat ccaacctact aatgacgatg ctattgttgt caaaatgctt
     5161 attggaatta tgctacctgg aactgaataa tatgcattat aaagtgaaca taagaacgct
     5221 aatacataga taac
//
