LOCUS       NZ_CP040707             2133 bp    DNA     linear   CON 25-JUL-2023
DEFINITION  Enterococcus faecium strain HOU503 plasmid unnamed1.
ACCESSION   NZ_CP040707
VERSION     NZ_CP040707.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN11848047
            Assembly: GCF_005952885.1
KEYWORDS    RefSeq.
SOURCE      Enterococcus faecium
  ORGANISM  Enterococcus faecium
            Bacteria; Bacillota; Bacilli; Lactobacillales; Enterococcaceae;
            Enterococcus.
REFERENCE   1  (bases 1 to 2133)
  AUTHORS   Shamoo,Y.
  TITLE     Direct Submission
  JOURNAL   Submitted (24-MAY-2019) Biosciences, Rice University, 6100 Main St.,
            Houston, TX 77005, USA
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: SPAdes v. Mar-2017
            Assembly Name                     :: HOU503F_del_liaR
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 10.0x
            Sequencing Technology             :: PacBio
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 07/25/2023 04:46:50
            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)                     :: 2,942
            CDSs (total)                      :: 2,851
            Genes (coding)                    :: 2,745
            CDSs (with protein)               :: 2,745
            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)              :: 106
            CDSs (without protein)            :: 106
            Pseudo Genes (ambiguous residues) :: 0 of 106
            Pseudo Genes (frameshifted)       :: 38 of 106
            Pseudo Genes (incomplete)         :: 59 of 106
            Pseudo Genes (internal stop)      :: 27 of 106
            Pseudo Genes (multiple problems)  :: 15 of 106
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP040707.1.
            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/
FEATURES             Location/Qualifiers
     source          1..2133
                     /organism="Enterococcus faecium"
                     /mol_type="genomic DNA"
                     /strain="HOU503"
                     /host="Homo sapiens"
                     /db_xref="taxon:1352"
                     /plasmid="unnamed1"
                     /geo_loc_name="USA: Houston"
                     /collection_date="2015"
                     /note="liaR deleted isolate"
     gene            complement(154..309)
                     /locus_tag="FGF98_RS15100"
                     /old_locus_tag="FGF98_15105"
     CDS             complement(154..309)
                     /locus_tag="FGF98_RS15100"
                     /old_locus_tag="FGF98_15105"
                     /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            926..1147
                     /locus_tag="FGF98_RS15105"
                     /old_locus_tag="FGF98_15110"
     CDS             926..1147
                     /locus_tag="FGF98_RS15105"
                     /old_locus_tag="FGF98_15110"
                     /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"
     gene            1148..1405
                     /locus_tag="FGF98_RS15110"
                     /old_locus_tag="FGF98_15115"
     CDS             1148..1405
                     /locus_tag="FGF98_RS15110"
                     /old_locus_tag="FGF98_15115"
                     /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(1541..>2133)
                     /locus_tag="FGF98_RS15115"
                     /old_locus_tag="FGF98_15120"
     CDS             complement(1541..>2133)
                     /locus_tag="FGF98_RS15115"
                     /old_locus_tag="FGF98_15120"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_002323513.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=3
                     /transl_table=11
                     /product="replication protein"
                     /protein_id="WP_138816306.1"
                     /translation="KTKDERTRNWTFVVYPESAPENWREFLDELHVPWVESPLHDKDVN
                     PDGELKKPHWHVLIMFSGKKTYDQIREITQKIRSPNPQKCANAKGMVRYFAHMDNPEKF
                     QYAKSDIIAHGGAEIASYLSVTSAERYELIREMMSFVDSKNITEIKDLIDYAMSERFDD
                     WFPLLCDNSAYIIGQYIKSNRHGGSVNSKINKG"
                     /name="replication protein"
     Typing          1308..1483
                     /name="MOBV"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="2.01e-87"
     Typing          complement(1614..2133)
                     /name="rep_cluster_2351"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="99.808"
                     /coverage="96.0"
                     /evalue="0.0"
ORIGIN
        1 ctccctccaa ttttcaggag ccgattcagg atagactaca aacgtccaat tccttgtgcg
       61 ttcatcttta gtttttctac tcgtcatgct ataatcacct taattgaaca acagtctaac
      121 agcaaaagca gtgcgccaac actaatgctt ttgctatttt ttttgctcat tttcctttcc
      181 gttagcatta acccaaattg taataagacc agacttacta agacccattt gtttcgcaat
      241 tttatcaaga ttatctgcca cttccttagt aagcgttaca acgactctct ttttttcatt
      301 actgatcata attcgtatcc tccaacgact ttttcttaaa aaccatagta acaaaaaagt
      361 aactaaggtg caacagttta gatactaatt agcgaataat aggccttaaa cccttggcat
      421 tactgatttt gtcaaaaaaa aacgctgaaa cccttgggag agtaaggcta aacagctatc
      481 gaccaatgac caatgaccaa taaggggggt gtcgtagtcc ccccctcctc cgcccaattc
      541 ataaacacca aaaccaaaaa acaaacctca gggctccgcc ccgaaccccg acctccttct
      601 accgaaatat atgcaggcgc cacgcttact atttcgttca gctatcggct tttgcaatct
      661 aacacgaccg tttcgctacc agtcgcctta caggctccat tctcgcttct cttacgtgtt
      721 ttaacgattg cgccgataac taaacgaaat agacgctaaa tcgcttaaaa cgcaaaatag
      781 acccttttta gagcattgat tttttctact agtcatttcg ataatataaa attgaccaca
      841 acacagaaaa cttatattat aagcttatgt cgtaagtccg acgtactcac gtaatataga
      901 cggacgttaa atggaaggag cataaatgag agtgataaaa tcagaaaaat tcactttggc
      961 cgaaattatg acgaccagcg aacttgcaca agaacttgat tacaaccaag cttacgtttt
     1021 gcgcttagcg aaagaacatc tgactgaagg aaaagaatat cgctctgccg gtagaagaaa
     1081 ctatcttttc agcccagaag cccttaaaaa actagaaaaa gtcataacca ccaaagaagg
     1141 tgagtaaatg cctaaagaaa caactatcaa cgttgaacaa ctagaaaaat tgctagaatc
     1201 atattccaat gattttatcg aattgaccgg cggaaaagtc gaagaaacca ccgacctctt
     1261 tgacctactt ctcacaaata ttctggaatt aaactctgaa gaacaaaaag agcataaggg
     1321 aaaactgata gcaccttcct acaggaaggc ggctaagtcg gctgtgccaa ctggttttct
     1381 tacaaaacaa ccttatattt tttgatatca caaaaaaatc cattttggac ctattttcgg
     1441 tcataatata gtacctactt ttggtcatag tttcgtccgt agttttggtc atagtgacta
     1501 agactttcac gcacaaaaaa agagctgaaa ttaacagctc ttatccttta tttatttttg
     1561 aatttacact tccaccatga cgattcgatt ttatatattg cccgataata taagctgaat
     1621 tatcacaaag aagcggaaac caatcatcaa atctttctga cattgcatag tcaattaaat
     1681 ctttgatttc agtgatattc ttagaatcaa caaacgacat catctctcta atcaactcat
     1741 atcgttctgc actcgttact gacaaataac tagcaatttc tgcaccacca tgagcgataa
     1801 tatcactttt agcatattga aatttttctg gattatccat atgagcaaaa tatcgcacca
     1861 taccttttgc attagcacat ttttgcgggt ttggagaccg aatcttttga gttatctcac
     1921 gtatttgatc atacgtcttt ttaccgctaa acattatcaa aacatgccaa tgaggctttt
     1981 tcaattcacc gtcaggattc acatctttat catgaagtgg actctcaacc caaggaacat
     2041 gtaactcatc taaaaactcc ctccaatttt caggagccga ttcaggatag actacaaacg
     2101 tccaattcct tgtgcgttca tctttagttt ttc
//
