LOCUS       NZ_CP093956             2056 bp    DNA     circular CON 11-APR-2024
DEFINITION  Enterococcus faecium strain NY11067 plasmid pNY11067-3, complete
            sequence.
ACCESSION   NZ_CP093956
VERSION     NZ_CP093956.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN26754766
            Assembly: GCF_022699545.1
KEYWORDS    RefSeq.
SOURCE      Enterococcus faecium
  ORGANISM  Enterococcus faecium
            Bacteria; Bacillota; Bacilli; Lactobacillales; Enterococcaceae;
            Enterococcus.
REFERENCE   1  (bases 1 to 2056)
  AUTHORS   Zhou,D.
  TITLE     Complete sequence of strain NY11067
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 2056)
  AUTHORS   Zhou,D.
  TITLE     Direct Submission
  JOURNAL   Submitted (17-MAR-2022) State Key Laboratory of Pathogen and
            Biosecurity, Beijing Institute of Microbiology and Epidemiology, No.
            20, Dongdajie, Fengtai, Beijing, Beijng 100071, China
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: HGAP v. v3.0
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 100.0x
            Sequencing Technology             :: PacBio RSII
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_022699545.1-RS_2024_04_10
            Annotation Date                   :: 04/10/2024 23:05:49
            Annotation Pipeline :: NCBI Prokaryotic Genome Annotation Pipeline
            (PGAP)
            Annotation Method :: Best-placed reference protein set; GeneMarkS-2+
            Annotation Software revision      :: 6.7
            Features Annotated                :: Gene; CDS; rRNA; tRNA; ncRNA
            Genes (total)                     :: 3,104
            CDSs (total)                      :: 3,014
            Genes (coding)                    :: 2,860
            CDSs (with protein)               :: 2,860
            Genes (RNA)                       :: 90
            rRNAs                             :: 6, 6, 6 (5S, 16S, 23S)
            complete rRNAs                    :: 6, 6, 6 (5S, 16S, 23S)
            tRNAs                             :: 68
            ncRNAs                            :: 4
            Pseudo Genes (total)              :: 154
            CDSs (without protein)            :: 154
            Pseudo Genes (ambiguous residues) :: 0 of 154
            Pseudo Genes (frameshifted)       :: 81 of 154
            Pseudo Genes (incomplete)         :: 68 of 154
            Pseudo Genes (internal stop)      :: 34 of 154
            Pseudo Genes (multiple problems)  :: 23 of 154
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP093956.1.
            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..2056
                     /organism="Enterococcus faecium"
                     /mol_type="genomic DNA"
                     /strain="NY11067"
                     /isolation_source="urine"
                     /host="Homo sapiens"
                     /db_xref="taxon:1352"
                     /plasmid="pNY11067-3"
                     /geo_loc_name="China: Shandong"
                     /lat_lon="36 N 120 E"
                     /collection_date="2020"
                     /collected_by="a teaching hospital"
     gene            310..465
                     /locus_tag="MPM51_RS15410"
                     /old_locus_tag="MPM51_15410"
     CDS             310..465
                     /locus_tag="MPM51_RS15410"
                     /old_locus_tag="MPM51_15410"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_002299939.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="CopG family transcriptional regulator"
                     /protein_id="WP_002299939.1"
                     /translation="MISNEKKRVVVTLTKEVADNLDKIAKQMGLSKSGLITIWVNANGK
                     ENEQKK"
                     /name="CopG family transcriptional regulator"
     gene            532..1134
                     /locus_tag="MPM51_RS15415"
                     /old_locus_tag="MPM51_15415"
     CDS             532..1134
                     /locus_tag="MPM51_RS15415"
                     /old_locus_tag="MPM51_15415"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_002323513.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="replication protein"
                     /protein_id="WP_010729575.1"
                     /translation="MTSRKTKDERTRNWTFVVYPESAPENWREFLDELHVPWVESPLHD
                     KDVNPDGELKKPHWHVLIMFSGKKTYDQIREITQKIRSPNPQKCANAKGMVRYFAHMDN
                     PEKFQYAKSDIIAHGGAEIASYLSVTSAERYELIREMMSFVDSKNITEIKDLIDYAMSE
                     RFDDWFPLLCDNSAYIIGQYIKSNRHGGSVNSKINKG"
                     /name="replication protein"
     gene            complement(1270..1527)
                     /locus_tag="MPM51_RS15420"
                     /old_locus_tag="MPM51_15420"
     CDS             complement(1270..1527)
                     /locus_tag="MPM51_RS15420"
                     /old_locus_tag="MPM51_15420"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_002377879.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_002377879.1"
                     /translation="MPKETTINVEQLEKLLESYSNDFIELTGGKVEETTDLFDLLLTNI
                     LELNSEEQKEHKGKLIAPSYRKAAKSAVPTGFLTKQPYIF"
                     /name="hypothetical protein"
     gene            complement(1528..1749)
                     /locus_tag="MPM51_RS15425"
                     /old_locus_tag="MPM51_15425"
     CDS             complement(1528..1749)
                     /locus_tag="MPM51_RS15425"
                     /old_locus_tag="MPM51_15425"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_002299940.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_002299940.1"
                     /translation="MRVIKSEKFTLAEIMTTSELAQELDYNQAYVLRLAKEHLTEGKEY
                     RSAGRRNYLFSPEALKKLEKVITTKEGE"
                     /name="hypothetical protein"
     Typing          complement(1193..1368)
                     /name="MOBV"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="2.01e-87"
     Typing          533..1062
                     /name="rep_cluster_2351"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="99.812"
                     /coverage="96.0"
                     /evalue="0.0"
ORIGIN
        1 gcctgcatat atttcggtag aaggaggtcg gggttcgggg cggagccctg aggtttgttt
       61 tttggttttg gtgtttatga attgggcgga ggaggggggg actacgacac cccccttatt
      121 ggtcattggt cattggtcga tagctgttta gccttactct cccaagggtt tcagcgtttt
      181 tttttgacaa aatcagtaat gccaagggtt taaggcctat tattcgctaa ttagtatcta
      241 aactgttgca ccttagttac ttttttgtta ctatggtttt taagaaaaag tcgttggagg
      301 atacgaatta tgatcagtaa tgaaaaaaag agagtcgttg taacgcttac taaggaagtg
      361 gcagataatc ttgataaaat tgcgaaacaa atgggtctta gtaagtctgg tcttattaca
      421 atttgggtta atgctaacgg aaaggaaaat gagcaaaaaa aatagcaaaa gcattagtgt
      481 tggcgcactg cttttgctgt tagactgttg ttcaattaag gtgattatag catgacgagt
      541 agaaaaacta aagatgaacg cacaaggaat tggacgtttg tagtctatcc tgaatcggct
      601 cctgaaaatt ggagggagtt tttagatgag ttacatgttc cttgggttga gagtccactt
      661 catgataaag atgtgaatcc tgacggtgaa ttgaaaaagc ctcattggca tgttttgata
      721 atgtttagcg gtaaaaagac gtatgatcaa atacgtgaga taactcaaaa gattcggtct
      781 ccaaacccgc aaaaatgtgc taatgcaaaa ggtatggtgc gatattttgc tcatatggat
      841 aatccagaaa aatttcaata tgctaaaagt gatattatcg ctcatggtgg tgcagaaatt
      901 gctagttatt tgtcagtaac gagtgcagaa cgatatgagt tgattagaga gatgatgtcg
      961 tttgttgatt ctaagaatat cactgaaatc aaagatttaa ttgactatgc aatgtcagaa
     1021 agatttgatg attggtttcc gcttctttgt gataattcag cttatattat cgggcaatat
     1081 ataaaatcga atcgtcatgg tggaagtgta aattcaaaaa taaataaagg ataagagctg
     1141 ttaatttcag ctcttttttt gtgcgtgaaa gtcttagtca ctatgaccaa aactacggac
     1201 gaaactatga ccaaaagtag gtactatatt atgaccgaaa ataggtccaa aatggatttt
     1261 tttgtgatat caaaaaatat aaggttgttt tgtaagaaaa ccagttggca cagccgactt
     1321 agccgccttc ctgtaggaag gtgctatcag ttttccctta tgctcttttt gttcttcaga
     1381 gtttaattcc agaatatttg tgagaagtag gtcaaagagg tcggtggttt cttcgacttt
     1441 tccgccggtc aattcgataa aatcattgga atatgattct agcaattttt ctagttgttc
     1501 aacgttgata gttgtttctt taggcattta ctcaccttct ttggtggtta tgactttttc
     1561 tagtttttta agggcttctg ggctgaaaag atagtttctt ctaccggcag agcgatattc
     1621 ttttccttca gtcagatgtt ctttcgctaa gcgcaaaacg taagcttggt tgtaatcaag
     1681 ttcttgtgca agttcgctgg tcgtcataat ttcggccaaa gtgaattttt ctgattttat
     1741 cactctcatt tatgctcctt ccatttaacg tccgtctata ttacgtgagt acgtcggact
     1801 tacgacataa gcttataata taagttttct gtgttgtggt caattttata ttatcgaaat
     1861 gactagtaga aaaaatcaat gctctaaaaa gggtctattt tgcgttttaa gcgatttagc
     1921 gtctatttcg tttagttatc ggcgcaatcg ttaaaacacg taagagaagc gagaatggag
     1981 cctgtaaggc gactggtagc gaaacggtcg tgttagattg caaaagccga tagctgaacg
     2041 aaatagtaag cgtggc
//
