LOCUS       NZ_CP071781             4875 bp    DNA     circular CON 15-JUL-2023
DEFINITION  Proteus mirabilis strain swupm3 plasmid pswupm3.1, complete
            sequence.
ACCESSION   NZ_CP071781
VERSION     NZ_CP071781.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN18275199
            Assembly: GCF_024138835.1
KEYWORDS    RefSeq.
SOURCE      Proteus mirabilis
  ORGANISM  Proteus mirabilis
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Morganellaceae; Proteus.
REFERENCE   1  (bases 1 to 4875)
  AUTHORS   Yi,L.
  TITLE     Proteus mirabilis from fresh-cut fruit
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 4875)
  AUTHORS   Yi,L.
  TITLE     Direct Submission
  JOURNAL   Submitted (12-MAR-2021) Food Science, Southwest Univerisity,
            Tiansheng road No.2, Chongqing 400417, China
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: Unicycler v. v0.4.8
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 10.0x
            Sequencing Technology :: Illumina HiSeq; Oxford Nanopore MinION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 07/15/2023 01:33:31
            Annotation Pipeline :: NCBI Prokaryotic Genome Annotation Pipeline
            (PGAP)
            Annotation Method :: Best-placed reference protein set; GeneMarkS-2+
            Annotation Software revision      :: 6.5
            Features Annotated                :: Gene; CDS; rRNA; tRNA; ncRNA
            Genes (total)                     :: 3,516
            CDSs (total)                      :: 3,406
            Genes (coding)                    :: 3,360
            CDSs (with protein)               :: 3,360
            Genes (RNA)                       :: 110
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 84
            ncRNAs                            :: 4
            Pseudo Genes (total)              :: 46
            CDSs (without protein)            :: 46
            Pseudo Genes (ambiguous residues) :: 0 of 46
            Pseudo Genes (frameshifted)       :: 18 of 46
            Pseudo Genes (incomplete)         :: 32 of 46
            Pseudo Genes (internal stop)      :: 9 of 46
            Pseudo Genes (multiple problems)  :: 9 of 46
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP071781.1.
            Bacteria and source DNA available from yilanhua.
            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..4875
                     /organism="Proteus mirabilis"
                     /mol_type="genomic DNA"
                     /strain="swupm3"
                     /isolation_source="fresh-cut fruits"
                     /db_xref="taxon:584"
                     /plasmid="pswupm3.1"
                     /geo_loc_name="China"
                     /lat_lon="29 N 106 E"
                     /collection_date="2019-07"
                     /collected_by="yilanhua"
     gene            complement(200..1612)
                     /locus_tag="J3U94_RS17520"
                     /old_locus_tag="J3U94_17495"
     CDS             complement(200..1612)
                     /locus_tag="J3U94_RS17520"
                     /old_locus_tag="J3U94_17495"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_012478624.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="relaxase/mobilization nuclease domain-containing
                     protein"
                     /protein_id="WP_196572940.1"
                     /translation="MLIKFFGNKGGGSPKASMDYLLREGKKDTKFQVLRGDPELSQSIA
                     ESCGFKNAYTVGCLSFEEENIPDHHKTAIMDRFEKHVFAGLEKEQYNITWVEHTDKNRL
                     ELNFYIPNVELTSLKRLQPYYDKADRPLIENFKQVINHEYGLSDPRSPDKQQTLITRAD
                     LPTEKRSALKEIDAGISALVQKGLIRNRDDVIEALKQSGFEIARVTPKNLSIKTEGQNL
                     RLKGAFYEQDFKFSADVLRECQTRQRDYDGESEARYRTARERLESATGRRQQEFERKYP
                     SRADEIDQAYRERVETTLHHHGRTDDYIGRDQSVSHVLERERIPEPDRVETVSRDIPDA
                     EPQYQTDQLHHGRQEQTTVRRRRSKISERKLGREERTLPNSSEVSHHDRDGTTLRERLE
                     HLVTTARDRYQQFISACRGARNTEQSVSHAIQGNQSTVSDFNRTAEQVSERLTQQIQRQ
                     EQKRSRGFSIGF"
                     /name="relaxase/mobilization nuclease domain-containing
                     protein"
     gene            complement(1602..1913)
                     /locus_tag="J3U94_RS17525"
                     /old_locus_tag="J3U94_17500"
     CDS             complement(1602..1913)
                     /locus_tag="J3U94_RS17525"
                     /old_locus_tag="J3U94_17500"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_005618548.1"
                     /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_196572939.1"
                     /translation="MTTKRTETVIIRLTPDEKQSLLLRKTKPRLAEWLRELALGQKPKR
                     QPKSVDPALLFELNRIGVNLNQIARHCHQAPVSMETVNIALALRHIEALLREVLERAD"
                     /name="MobC family plasmid mobilization relaxosome protein"
     gene            2060..2248
                     /locus_tag="J3U94_RS17530"
                     /old_locus_tag="J3U94_17505"
     CDS             2060..2248
                     /locus_tag="J3U94_RS17530"
                     /old_locus_tag="J3U94_17505"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000165970.1"
                     /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_196572938.1"
                     /translation="MTKQEKAVVNMAKFLQAQSLLLLEKLNELDSNNLDAETNLCEELH
                     EQAESLHQRLSAKLEGE"
                     /name="Rop family plasmid primer RNA-binding protein"
     gene            2515..2664
                     /locus_tag="J3U94_RS17625"
                     /pseudo=""
     CDS             2515..2664
                     /locus_tag="J3U94_RS17625"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001396189.1"
                     /note="internal stop; Derived by automated computational
                     analysis using gene prediction method: Protein Homology."
                     /pseudo=""
                     /codon_start=1
                     /transl_table=11
                     /product="replication initiation protein"
                     /name="replication initiation protein"
     gene            2864..3748
                     /locus_tag="J3U94_RS17535"
                     /old_locus_tag="J3U94_17510"
     CDS             2864..3748
                     /locus_tag="J3U94_RS17535"
                     /old_locus_tag="J3U94_17510"
                     /EC_number="3.1.21.-"
                     /inference="COORDINATES: protein motif:HMM:NF021097.2"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="HaeIII family restriction endonuclease"
                     /protein_id="WP_196572937.1"
                     /translation="MASTSNDNGRAFEYCLTKYILDNSSSKIDIDNETKNQQARDESKY
                     ENLSPELKILFSNASKRYFELLPTTIFSLKRLSDNEGKDGNPTDIELIFIENGLPKTKN
                     ISLKNNHNAVKHQRPGSLISQLGISDKNEDNLYRECIKSLERTFISSVESLGFNTSNEL
                     LFSDIKSCSEQVILDLYNSFCSLTASVINKFGSIHAGDYFHFLVSRTDFEKLIVYPNKI
                     IIQEWYKLPTPSAMTAFVSDNSYVNVIFNNGYTFKMRLHNASSRFKKGSSISLKFDTRL
                     EESAKIPTSEFFI"
                     /name="HaeIII family restriction endonuclease"
     gene            3845..4825
                     /locus_tag="J3U94_RS17540"
                     /old_locus_tag="J3U94_17515"
     CDS             3845..4825
                     /locus_tag="J3U94_RS17540"
                     /old_locus_tag="J3U94_17515"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_012857487.1"
                     /GO_function="GO:1904047 - S-adenosyl-L-methionine binding
                     [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="DNA cytosine methyltransferase"
                     /protein_id="WP_196572941.1"
                     /translation="MNIASLFSGAGGLDLGFELAGFNISWSNEFDKTIWETHKRNFPNC
                     ILDQRSIVEVQGNDIPEISGFIGGPPCQSWSEAGSRKGIDDHRGQLFYEYIRLLNEKKP
                     LFFLAENVSGILHKKHEDAFNNILKSFEDSGYNISFKLLNANDYNVPQDRLRVFIVGIR
                     KEYKDIFFKFPEPFGFNLKLKDYIFDIKDNAVPSDEKNKSNRNTLIPNHEYMTGGFSSI
                     FMSRNRVRSWEEPSFTIQAGGRHAPIHPNAPKMIKLETDKFEFVKEKEKFYRRMSIREC
                     ARVQTFPDSFIFEYNSVVDGYKMVGNAVPVNLARVLAEQIKKQLF"
                     /name="DNA cytosine methyltransferase"
     Typing          complement(1606..1913)
                     /name="MOBF"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="96.117"
                     /coverage="100.0"
                     /evalue="1.41e-58"
ORIGIN
        1 cccgtttaac accatcagaa cgcctcagcg cgattttaag caccaaacac accccataac
       61 acccaaatcc atcctgaaag tttagaacgg tttctgtgac gttttagggc gtttttaaca
      121 ttcctttttt tcgtccggtt ttcatcgcca aaccggtgaa agtcgcaaac ttgtttgtgg
      181 cttgaaacgg ttttatccgt taaaaaccga tactgaaccc ccgactccgt ttctgctcct
      241 gtcgttggat ctgctgtgtc agccgttctg atacctgttc agcagtccgg ttaaagtcgc
      301 taactgttga ctgatttccc tgtattgcat ggctaactga ctgttctgta tttcgagctc
      361 cccgacacgc tgagataaat tgctgataac gatctcttgc tgttgtaaca aggtgctcaa
      421 ggcgttctct aagagttgtt ccgtctcggt catggtggct cacttcgcta gaattcggta
      481 gggttcgttc ttctcgcccc agttttcgct ctgatatttt ggatcgacgg cggcgcacag
      541 tcgtttgctc ttgtcttcca tgatgcagtt ggtcagtttg atattgtggc tctgcgtctg
      601 gtatatctcg gctgaccgtt tccactcggt caggttctgg tattcgctca cgctccagta
      661 cgtgagaaac agactgatcc ctgccaatat aatcatcagt acgcccatga tgatgaaggg
      721 tagtttccac acgctcacgg tacgcctgat caatttcatc tgctcggctt ggatactttc
      781 gctcaaactc ctgctggcgt ctgccagttg cgctttcaag tcgttctcgt gctgttcgat
      841 agcgagcttc actttctccg tcataatctc gctgtcttgt ctggcattct cggagaacgt
      901 ctgcgctaaa tttaaaatcc tgctcataga acgccccttt taaacgtaaa ttttgcccct
      961 cggttttgat tgagaggttt ttcggtgtca ctctggctat ctcaaagcct gactgtttca
     1021 gcgcttcaat cacatcatca cggttgcgga tcagtccttt ctgcactaat gccgatatgc
     1081 cggcatcaat ctctttcagg gctgaccgtt tttctgtcgg taagtccgca cgggttatca
     1141 gcgtttgctg tttatccggc gaacggggat cagaaagtcc gtattcatga ttgataacct
     1201 gcttaaaatt ttcaatcagc ggtctgtctg ctttgtcata gtaaggttgt aagcgtttca
     1261 gtgaggtaag ctcgacgtta gggatgtaaa aattcagctc taaccggttt ttatccgtat
     1321 gctcaaccca tgtgatgttg tactgctctt tctccagccc cgcaaaaacg tgcttttcaa
     1381 atctgtccat aatggcggtt ttgtgatggt cgggtatatt ttcttcctca aatgacagac
     1441 accccacggt gtacgcattc ttaaatccgc aactctccgc aatagactgc gacaattcag
     1501 gatcaccccg taagacctga aattttgtgt cctttttacc ctcacgaagc agataatcca
     1561 tgctggcttt cggactacca ccgcctttgt taccaaagaa tttaatcagc acgctcgagc
     1621 acctcacgaa gcagtgcctc gatatgtcgt aacgctaagg caatattgac cgtctccatc
     1681 gagaccggcg cctgatgaca atgacgggct atctgattga ggttcacacc tatccggtta
     1741 agctcaaaca acaatgcggg atctacgctt ttcggctgac gtttaggttt ctgacctagc
     1801 gccagttcac gtaaccactc agccaaacgg ggtttggttt tccgcagaag taacgattgt
     1861 ttctcgtcag gtgtcaaacg aataatcacg gtttcggtgc gtttggtcgt catgctgttg
     1921 tccttttggg gtcaaggggc gaagcccatt gcaaggtcac gaggaaatct cgcagagata
     1981 acgatgtgtg tccttgccct aaacattaac agcagataag attttgtaca atcagcgaag
     2041 aaataatggg atttgacaga tgacgaagca ggaaaaagct gtcgtaaaca tggcgaagtt
     2101 tttacaggct cagagtctcc tcttactgga gaaactgaat gagctagatt caaataatct
     2161 cgatgcggaa accaacctat gcgaagaact ccacgaacaa gcagagtcac tacaccaacg
     2221 actgagcgca aaactagaag gtgagtagcc cttttacaat aggctccgcc ctcctgacga
     2281 gcttcacaaa aatcgactga ttttcggtgc tctagtcaag agtggcgaaa cccgacagga
     2341 ctatcgagat atcagaagtt tccctctgac ggctccctcg tgcgctctcc tgttcccacc
     2401 ttacaagttt acagccggtt ttaatccgct ctttccatct ttgggggcgc tatctctcag
     2461 cttccctgta ccggcactgc gcttgcttag gtggttcgct ccaagctggg ctatttgcac
     2521 gaactccccg tttagcccga ctatcacgcc tgttcaggta actgttctct tgaatccaac
     2581 cctgacagac acgcaaaaac gccactggcg atagcctttg gtaacaagag tgcagaattg
     2641 tttgctgaaa tccttgatgt ctgaccgtca ttacggctaa actgatagga cagaatttgg
     2701 tttcagcggt gttcagaccc tgttacctcg gttcaaagag ttgctgctct atgaaccaac
     2761 ctttaagaaa accgcctttg ctgaggcggt ttttttttac gtcactaaga ctacccgatc
     2821 tcccccctta caggaaacta ctttttttat taagaggtat aaaatggctt caacatcgaa
     2881 tgataacggt agagcatttg agtattgctt aactaaatac attttagaca actcatctag
     2941 taagatagat attgataatg aaacaaaaaa tcaacaagct agagatgaaa gtaaatatga
     3001 aaatctatca ccagaattga aaatcctttt tagtaacgca tcgaaaagat attttgaatt
     3061 actgcctaca actatatttt cgttaaaaag attaagtgat aacgaaggta aagatgggaa
     3121 tccaacagac attgagctaa ttttcataga aaatggttta ccaaaaacta aaaatatctc
     3181 tctgaaaaac aatcataatg cagtaaagca tcaaagaccg ggctctctaa tatctcaact
     3241 aggtatatca gataaaaatg aagacaatct ttacagggaa tgtataaaat cattagaaag
     3301 aacatttata tctagtgttg agtctctagg atttaacact agcaacgaac tactattctc
     3361 cgatataaaa tcatgttcag aacaagttat tttagaccta tataacagtt tctgctctct
     3421 tactgctagt gtaatcaata agtttggttc tattcatgcc ggtgattact tccatttttt
     3481 agtatcaaga actgactttg aaaaactaat cgtttaccca aataaaataa tcatacaaga
     3541 gtggtataaa ttaccaacac catcagcaat gaccgcattc gtttctgata atagctacgt
     3601 aaatgttatt tttaataatg gctatacatt caaaatgaga ttgcataatg catcatctag
     3661 attcaaaaaa ggatcatcta tatcacttaa gtttgatacc agacttgaag aatccgctaa
     3721 aataccaacc tctgaatttt tcatataatt aagataaaaa aagaaaaggt ttttctggcc
     3781 ttttcttttt ctatatgtaa tcataatgtc tctatagtta aagtgaagac aaatcatgag
     3841 tgaaattaat attgcgtctt tattctccgg agctggtggt ctagaccttg gttttgaatt
     3901 ggctggattt aatatttcct ggtcgaatga gtttgataaa acaatatggg aaacacataa
     3961 aagaaacttc cctaattgta tactagatca acgttccata gtcgaagttc aaggcaatga
     4021 tatacctgaa atatctggat ttattggtgg acctccttgt caaagctggt cagaagcagg
     4081 aagtaggaaa ggaatagatg atcatagagg tcaattgttt tatgaataca ttcgcctttt
     4141 aaatgaaaaa aaacctctgt tttttttagc tgaaaatgta tcaggcatat tacacaagaa
     4201 gcatgaagat gcttttaata atatattaaa gtcatttgaa gattctgggt ataatatttc
     4261 atttaaatta ttaaatgcaa atgattataa tgtacctcaa gatagactta gagtatttat
     4321 agttggaata agaaaagaat acaaggatat attctttaaa ttcccagagc cttttggctt
     4381 taatttaaaa ttaaaagatt atatttttga tataaaagat aatgccgttc catctgatga
     4441 aaagaataaa tctaatagaa atacattaat acctaaccat gaatatatga caggtggatt
     4501 ttcatctata ttcatgtctc gaaatagagt tcgtagttgg gaggaaccgt cattcacaat
     4561 ccaagcagga ggacgtcatg ccccaataca ccctaatgca cccaaaatga taaagctaga
     4621 aacagataaa tttgagtttg tgaaagaaaa agaaaaattt tatagaagga tgagtattag
     4681 agaatgcgcc agagttcaaa cctttcctga ctcatttata tttgaatata attcagttgt
     4741 agatggttat aaaatggtcg gaaatgcagt tcctgttaat ctagcaagag ttttagccga
     4801 acaaataaaa aaacaacttt tctagttccc ataagaccca ttatgttaaa cgggcgagtt
     4861 tactactcaa aaccg
//
