LOCUS       NZ_CP085902             5275 bp    DNA     circular CON 23-DEC-2023
DEFINITION  Enterococcus faecium strain SC1762 plasmid p8, complete sequence.
ACCESSION   NZ_CP085902
VERSION     NZ_CP085902.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN22627481
            Assembly: GCF_020736585.1
KEYWORDS    RefSeq.
SOURCE      Enterococcus faecium
  ORGANISM  Enterococcus faecium
            Bacteria; Bacillota; Bacilli; Lactobacillales; Enterococcaceae;
            Enterococcus.
REFERENCE   1  (bases 1 to 5275)
  AUTHORS   Zeng,W.
  TITLE     Acquisition of daptomycin resistance by Enterococcus faecium confers
            collateral sensitivity to glycopeptides
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 5275)
  AUTHORS   Zeng,W.
  TITLE     Direct Submission
  JOURNAL   Submitted (27-OCT-2021) Laboratory Medicine, College of Life
            Sciences, Wenzhou Medical University, Wenzhou Medical University,
            Wenzhou, Zhejiang 325000, China
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: unicycler v. v0.4.8
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 200.0x
            Sequencing Technology             :: Oxford Nanopore
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 12/23/2023 20:51:41
            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)                     :: 3,307
            CDSs (total)                      :: 3,216
            Genes (coding)                    :: 3,059
            CDSs (with protein)               :: 3,059
            Genes (RNA)                       :: 91
            rRNAs                             :: 6, 6, 6 (5S, 16S, 23S)
            complete rRNAs                    :: 6, 6, 6 (5S, 16S, 23S)
            tRNAs                             :: 69
            ncRNAs                            :: 4
            Pseudo Genes (total)              :: 157
            CDSs (without protein)            :: 157
            Pseudo Genes (ambiguous residues) :: 0 of 157
            Pseudo Genes (frameshifted)       :: 63 of 157
            Pseudo Genes (incomplete)         :: 95 of 157
            Pseudo Genes (internal stop)      :: 38 of 157
            Pseudo Genes (multiple problems)  :: 30 of 157
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP085902.1.
            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..5275
                     /organism="Enterococcus faecium"
                     /mol_type="genomic DNA"
                     /strain="SC1762"
                     /host="Homo sapiens"
                     /db_xref="taxon:1352"
                     /plasmid="p8"
                     /geo_loc_name="China:wenzhou"
                     /collection_date="2018"
     gene            379..477
                     /locus_tag="LK894_RS16385"
                     /old_locus_tag="LK894_16400"
     CDS             379..477
                     /locus_tag="LK894_RS16385"
                     /old_locus_tag="LK894_16400"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_019775148.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="type I toxin-antitoxin system Fst family toxin"
                     /protein_id="WP_110958386.1"
                     /translation="MYEKFLTLVVAPLFVGLVIELVSHWLDEKDDN"
                     /name="type I toxin-antitoxin system Fst family toxin"
     gene            complement(631..1128)
                     /locus_tag="LK894_RS16390"
                     /old_locus_tag="LK894_16405"
     CDS             complement(631..1128)
                     /locus_tag="LK894_RS16390"
                     /old_locus_tag="LK894_16405"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_002322921.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_002322921.1"
                     /translation="MKLFFEKMGWHILPVVIILVGSYSLFCIFRSILEKFEEPKLKRVV
                     FALCFAFLALFVSVGISSYRPDVALSVRPKISKIEQLEAKAEAKQKKIDKISDQLEQAL
                     KIASQEKLKTFNPKDYPSEVITADWVQKNRDVIATLPDKELKDRYTKRFDDVESYFELN
                     SQ"
                     /name="hypothetical protein"
     gene            complement(1156..1611)
                     /locus_tag="LK894_RS16395"
                     /old_locus_tag="LK894_16410"
     CDS             complement(1156..1611)
                     /locus_tag="LK894_RS16395"
                     /old_locus_tag="LK894_16410"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_002322920.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_002322920.1"
                     /translation="MPLDDFASKQELQKVKQELAEIKQQNQEVIETLKSLDNSVKQGYI
                     KVRGGEDIPKMSELKAEMNRYATYVQKRTAEIDQKLDSYGNISKSVSDELSRQVRPQVQ
                     KFLANDDRATAEELKQNRIANLMSVLASVGLFIGGTAILIVSVLKLL"
                     /name="hypothetical protein"
     gene            complement(1619..2605)
                     /locus_tag="LK894_RS16400"
                     /old_locus_tag="LK894_16415"
     CDS             complement(1619..2605)
                     /locus_tag="LK894_RS16400"
                     /old_locus_tag="LK894_16415"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_002351099.1"
                     /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_002322919.1"
                     /translation="MGATLALKGGKRGASALIGYVNRHGKLDRDRIYTHKLSAENKLAQ
                     TQLEATRRIFAKTGGIQAFHWVQSFDNSFDKNNPADVQKAHEIGAKLVDEIAKSYPNHE
                     IYMGTHTDSESGYIHNHIVFASIDTETGKKFHSDTEVGYHLQDLNDKVLLSFGIEQPKE
                     KFKQVDFEMHAEGKMSNREKMKHMILGAQDMSTDFDSFKKNLQEAYAVEVYEYNKGKRI
                     GFKWVDDEGKDFTIGGRKLGSDFERPAIERTLEFSQQKQEKEVEKPLETKPKVTNDDFS
                     ISGLKNLANDIRQQEERKKKEELQRQKEIERQQRSRPFYHDRGGMER"
                     /name="relaxase/mobilization nuclease domain-containing
                     protein"
     gene            complement(2590..2946)
                     /locus_tag="LK894_RS16405"
                     /old_locus_tag="LK894_16420"
     CDS             complement(2590..2946)
                     /locus_tag="LK894_RS16405"
                     /old_locus_tag="LK894_16420"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_002323247.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="plasmid mobilization relaxosome protein MobC"
                     /protein_id="WP_029404142.1"
                     /translation="MSEQKLNAENRKDSRQIKFRVSEDEYQYLTAIADQTGMSVPQLCK
                     SVALGMKYRAPNVDREGAIQIAKELRKYGGNLNQMARFINMNKGQMPSSSDLALMNQQL
                     SQIEKGVIDLWEQL"
                     /name="plasmid mobilization relaxosome protein MobC"
     gene            complement(3502..3867)
                     /locus_tag="LK894_RS16410"
                     /old_locus_tag="LK894_16425"
     CDS             complement(3502..3867)
                     /locus_tag="LK894_RS16410"
                     /old_locus_tag="LK894_16425"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_002322917.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_002322917.1"
                     /translation="MAKMDIEDLEKKLAEARHDLSVKIGTNMVEKQGFKSYSAYNTFMR
                     NASKALKSSAGSAPAPAAAKPVATSAEKLPSELKAEAVQFQKQLEKWMEDNWGNKLDYK
                     TFYPELLEFFQKLNSLE"
                     /name="hypothetical protein"
     gene            complement(3876..4037)
                     /locus_tag="LK894_RS16415"
                     /old_locus_tag="LK894_16430"
     CDS             complement(3876..4037)
                     /locus_tag="LK894_RS16415"
                     /old_locus_tag="LK894_16430"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_002322916.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_002322916.1"
                     /translation="MTAKTVTIDVEQLEKLLERHSDAIIEYTGGLSEETINQFDLLLTE
                     IIELDSKE"
                     /name="hypothetical protein"
     gene            complement(4027..4176)
                     /locus_tag="LK894_RS16420"
                     /old_locus_tag="LK894_16435"
     CDS             complement(4027..4176)
                     /locus_tag="LK894_RS16420"
                     /old_locus_tag="LK894_16435"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_002322915.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_002322915.1"
                     /translation="MKKRLRKKMAKKNSSLDQAMKELMNYAKGERDGFLIHSYDEKGEQ
                     KNDG"
                     /name="hypothetical protein"
     gene            complement(4190..4939)
                     /locus_tag="LK894_RS16425"
                     /old_locus_tag="LK894_16440"
     CDS             complement(4190..4939)
                     /locus_tag="LK894_RS16425"
                     /old_locus_tag="LK894_16440"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_002322914.1"
                     /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_002322914.1"
                     /translation="MGQPNKKADIALKDLLSRQDYLVVQGNDLAKAFGGLKSFEQRVLD
                     YCFSFVTKDSKLDDEYEVTALEIIKHFGLNTSGDSYRRIAEAFKKLNENTALYLRVERP
                     DGTQGLRMTQLFSWIDFYADGLVRFKFSADSAPYVLDLKEKFYSFRLGELSRINGKYAL
                     IMLKLWESYRRGKEKHTTITGDLEEWESWFLGKDKRLPAGQFFQKVITRAIEELSDKMS
                     VSFFVTTLKRGRKVVGYEITINDTSKE"
                     /name="replication initiation protein"
ORIGIN
        1 aaataaactg cttctcacat catcgacaat ttatcccctt tacctcgttc aatcttacag
       61 ccacaaggca taaaggagtg atcgctacgc tctcacattt tgcttacagc agtcgcctgc
      121 gctccttcgt taaggtcaaa accgttgttc aaggagcggt tgggataggc gtaaaagctt
      181 gttgtagcaa gtttttagac tgatttagat taaatcgtta gtcttgttat acagcgcctt
      241 tacaggcggt cagggcaagc cctaacgacc caaaagcccc atctggtaga ccatcttttt
      301 tttgcaggga gtgaatgcta tattaatctt ggcactaaag ccaactaacg cttacacagg
      361 ttgggaggtg tattccgtat gtacgaaaaa tttctaacgt tggttgtcgc accgctattt
      421 gtcgggctag tcattgagct agtttctcat tggttggacg agaaagacga caactaaggc
      481 ttagtgcctt ccaactcaca cgcctagtcg cagggcgaaa aaaaagccag acaccgtcgc
      541 atggtgtctg gcttttgtgc attccgcact cgaaaaaatt ctaacgtttt cgcatggtta
      601 ttatagcatg gacgttggca aatctcaatt tcactgacta ttcagctcaa aataggattc
      661 tacatcgtca aatcgctttg tgtagcggtc tttcagctct ttatcgggca aagtagcgat
      721 cacgtcacga tttttttgta cccaatccgc cgtaataact tcgcttggat agtcttttgg
      781 gttaaaggtt ttcagctttt cttgactggc aattttcaat gcctgctcca gttggtccga
      841 aattttatca atttttttct gttttgcttc ggctttcgct tctagttgct ctattttgct
      901 gattttaggg cgtacagaca gcgcaacgtc cggacggtat gaagaaatgc cgaccgacac
      961 aaaaagcgct agaaacgcaa aacagagggc aaaaacgaca cgtttcagct ttggttcctc
     1021 aaatttttct aagatcgagc gaaaaatgca gaataaacta tacgaaccga ccaaaataat
     1081 cacgacagga agaatatgcc accccatttt ttcaaagaac agtttcattt gcgttttaag
     1141 ccccctctcg ttcgattaca ggagctttag gactgaaaca ataagaatag cagtgccacc
     1201 gataaaaagc cccacagagg ctaatacgga cattaaattc gctattcgat tttgtttcag
     1261 ctcttcggca gtcgctcgat catcgttggc taaaaatttt tggacttgtg ggcgcacttg
     1321 ccggctcaat tcgtcagata cagatttgct gatattaccg tagctatcaa gcttttggtc
     1381 gatttcagcg gttctttttt gaacgtaggt ggcgtagcgg ttcatttcag ctttcagctc
     1441 gctcattttg ggaatatctt cgccacctcg caccttgata tagccttgtt ttacgctgtt
     1501 atcaaggctt ttcagcgttt caatgacttc ttgattttgt tgcttgattt ccgctagttc
     1561 ctgcttcact ttttgaagct cctgcttact tgcaaaatca tctaacggca tatcgtcact
     1621 acctttccat gccaccacga tcatgataga acgggcgaga acgttgttga cgctcgattt
     1681 ctttttgtcg ttgcagctcc tcttttttct tgcgttcttc ttgctgacga atatcattag
     1741 caagattttt caaaccgctg atagaaaagt catcattggt gactttaggc ttggtttcaa
     1801 gcggtttttc gacttctttt tcttgttttt gttgagaaaa ttcaagtgtt cgttcgatcg
     1861 cagggcgctc aaaatcagaa cctaattttc gtccgccgat tgtgaaatct ttgccctcat
     1921 catcgaccca tttgaagcca atccttttgc ctttattgta ctcataaacc tcgacagcat
     1981 aggcttcttg aagatttttt ttgaaagaat caaaatcggt actcatatct tgtgcgccca
     2041 ggatcatatg cttcattttt tctcgattac tcattttgcc ctcggcgtgc atttcaaaat
     2101 caacttgttt gaatttttct ttcggctgtt caatgccaaa actcaataaa accttatcgt
     2161 ttaggtcttg taggtggtag ccgacctcgg tatcagagtg aaatttttta ccggtttcag
     2221 tgtcgatact ggcgaaaaca atgtgattat gaatatagcc ggattctgaa tcggtatgag
     2281 tgcccatgta gatttcatga ttgggatagc tttttgcgat ttcatcaacg agtttagcac
     2341 cgatctcatg cgctttttgc acgtccgccg gattgttttt gtcaaacgaa ttatcaaacg
     2401 attgaaccca atgaaaggct tgaataccgc ctgttttggc gaaaatccgt ctagtcgctt
     2461 ctagctgagt ttgagccaat ttattctcag ctgacagttt gtgcgtataa atgcggtcac
     2521 gatcaagctt tccatgccga tttacatagc caatcagcgc agaagcccca cgtttaccgc
     2581 cttttaaagc taaagttgct cccataagtc aatcaccccc ttttcgattt gcgaaagttg
     2641 ctggttcatc aaggctaaat ctgaacttga aggcatttgc cccttattca tgttaataaa
     2701 gcgagccatc tgattgagat ttccgccata tttgcgcaac tctttggcaa tttgtatcgc
     2761 cccctcccga tcaacgttcg gcgctcgata cttcatgcca agtgccacgc tcttgcagag
     2821 ctgtggcaca ctcataccag tttgatccgc aatggcggtc aaatactggt actcgtcttc
     2881 gctcactcga aatttaattt gccgactatc ttttcgattt tcggcattca atttctgctc
     2941 gctcatctca tcactcctca aataaaaatg ctccctattc ggtcgctttt ttcttctcgt
     3001 cattcttcgt ggtcgatatt caaagctaca aaaacgctcc ctattcagtc gccttttttc
     3061 cgcaatgaaa tctccctcgg ttatgccact acaaaatgaa agttccctac tcggtcactt
     3121 ccctttttcc gctctataac cgaatgattt attaacctca tcatactccc tattcggtcg
     3181 cataacaagg ttaataaatc atataatacg caagcaccgc atttggtacc caaatacatc
     3241 gcttgtcgag gtggcgttgc cccctacgaa ctcccccaat cacgcaacaa aaagtagcct
     3301 gttcggctat ttttattacg tgatttcgcc tcagaaaaag tagtctgttc gactattttt
     3361 ctactggctc atgcggtcaa acttgcacgc aagttgacct tatttttttg tttgcctgcg
     3421 aacagcgggc aaacaaaaaa gcaagccaaa aatcggcttg ctcgttcttc aaaaattgat
     3481 cgcatggact agctcgttcc gctattccaa gctgttcaat ttttggaaga actctagcaa
     3541 ctcaggataa aatgttttgt aatccaactt gtttccccag ttgtcttcca tccatttttc
     3601 gagttgcttt tgaaattgca ccgcttcggc tttcagctcg ctaggcaatt tttcggcaga
     3661 agtggccacc ggctttgcag ctgctggcgc aggtgcagat ccggcggacg acttcaatgc
     3721 ctttgacgca ttccgcatga aagtattgta ggcggaatag ctcttgaacc cttgtttttc
     3781 aaccatattt gtaccgattt tgactgaaag atcatgccga gcttcagcta attttttttc
     3841 caaatcttcg atatccattt ttgccatgcg taaactcact ccttagaatc tagttcgata
     3901 atttccgtta gaagaagatc aaattggttg atcgtttctt ctgaaagtcc accggtgtat
     3961 tcaataatag cgtcactatg cctttctaac agcttttcaa gctgttcaac gtcaatcgta
     4021 actgtcttag ccgtcatttt tttgttctcc tttttcgtca taactatgaa tcaaaaagcc
     4081 gtcacgttcg ccttttgcat agttcattag ttctttcata gcttgatcta gcgaagaatt
     4141 tttctttgcc atctttttac gcagtctttt tttcaactaa atcactcctc tattctttgc
     4201 tggtgtcatt gatcgtgatt tcatatccaa cgacttttcg cccacgcttt aaggttgtga
     4261 cgaaaaatga aactgacatc ttatcagata attcttcaat agcacgagta attacttttt
     4321 gaaaaaattg acctgcagga aggcgtttgt ctttaccaag aaaccaagat tcccattctt
     4381 ccaaatcacc tgtaatcgtt gtgtgttttt cttttcctct acggtaggat tcccagagtt
     4441 ttaacattat gagagcatat ttcccattga tccgagataa ttcacctaaa cgaaagctat
     4501 aaaacttttc tttgagatca agaacgtatg gagctgaatc agcagaaaat ttgaatctta
     4561 ctaacccgtc agcataaaaa tcaatccaag aaaataattg cgtcattctg agaccttgag
     4621 taccatcggg gcgctcgaca cgaagataaa gcgcagtatt ttcattaagc tttttgaaag
     4681 cttcagctat tcgacggtaa gaatctccag aggtgttcaa cccaaaatgt ttgataattt
     4741 ctaatgcggt tacctcgtat tcgtcatcta gttttgaatc tttagttaca aagctaaaac
     4801 agtagtctaa aactcgttgc tcaaacgatt taagccctcc aaatgcctta gctaagtcgt
     4861 ttccttgcac tactaaataa tcttgacggc ttagtaagtc ttttaatgca atatcagctt
     4921 ttttatttgg ttgtcccaaa ctgaaaatcc tccttttgta ctttttttaa aataatacca
     4981 tttattcagt ttttttgcaa tatttgaatt ttcaacgtgg aaaatagtat ttttgacgtg
     5041 gaaaatagta tttttgacgt ggaaaatagt attttcaacg tggaaaatag tatttatagg
     5101 cgctacaaac gctggtataa agccattcct tttcccctaa agtattttaa agtatttaaa
     5161 agtaatctat aaagtattct ctttaagcgc gcgggtgaga aaaaaattta aattcaaaaa
     5221 aaaaaaaatc ccgcccaaac cagttgtcta tttttttcca acaggttcgc gcatg
//
