LOCUS       NZ_LR135251             5088 bp    DNA     linear   CON 13-FEB-2024
DEFINITION  Enterococcus faecium isolate E6988 plasmid 9.
ACCESSION   NZ_LR135251
VERSION     NZ_LR135251.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMEA4884873
            Assembly: GCF_900639415.1
KEYWORDS    RefSeq.
SOURCE      Enterococcus faecium
  ORGANISM  Enterococcus faecium
            Bacteria; Bacillota; Bacilli; Lactobacillales; Enterococcaceae;
            Enterococcus.
REFERENCE   1  (bases 1 to 5088)
  AUTHORS   Arredondo-Alonso,S.
  TITLE     Direct Submission
  JOURNAL   Submitted (21-DEC-2018) UNIVERSITY MEDICAL CENTER UTRECHT,
            Heidelberglaan 100, 3584 CX Utrecht, Netherlands
COMMENT     ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 02/13/2024 03:25:32
            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)                     :: 3,264
            CDSs (total)                      :: 3,173
            Genes (coding)                    :: 3,043
            CDSs (with protein)               :: 3,043
            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)              :: 130
            CDSs (without protein)            :: 130
            Pseudo Genes (ambiguous residues) :: 0 of 130
            Pseudo Genes (frameshifted)       :: 55 of 130
            Pseudo Genes (incomplete)         :: 79 of 130
            Pseudo Genes (internal stop)      :: 29 of 130
            Pseudo Genes (multiple problems)  :: 26 of 130
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            LR135251.1.
            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..5088
                     /organism="Enterococcus faecium"
                     /mol_type="genomic DNA"
                     /isolate="E6988"
                     /db_xref="taxon:1352"
                     /plasmid="9"
     gene            complement(529..945)
                     /locus_tag="EQB64_RS16930"
     CDS             complement(529..945)
                     /locus_tag="EQB64_RS16930"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001232859.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_060806983.1"
                     /translation="MRKTSVQKHVTLYPSHVDVLDSIIEKNPDVNNYSEAIRFLCMSYE
                     PDTNTITTSNQAKLNAMGKEISIMTEIMAEFADLYLKDTGVLIGTNSKVYQEVKEKIEN
                     QLNPSRRNQPKNRQKETNQTFTSGNFDPTNFLKR"
                     /name="hypothetical protein"
     gene            complement(947..1228)
                     /locus_tag="EQB64_RS16935"
     CDS             complement(947..1228)
                     /locus_tag="EQB64_RS16935"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000353845.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_002347613.1"
                     /translation="MDILVRNINPKIIARIDKRCQELTTKTGKKWSRNKYLKVLIESDF
                     DRQLMNYKKDQFDLLLEKFIAIQTENTNILNDYVHTNNQLIETLIGGI"
                     /name="hypothetical protein"
     gene            complement(1675..2643)
                     /locus_tag="EQB64_RS16940"
     CDS             complement(1675..2643)
                     /locus_tag="EQB64_RS16940"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_002347614.1"
                     /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_002347614.1"
                     /translation="MSNEIVKYHHELNTIPLRKFTPVEMNLFFSIVSRMRDVGDKKVQF
                     TFEQLKDLSNYKATANVRFIDDLETTYDKLMDLRFGRRSADGLQRERFVLFNQFKIDGK
                     SDIPFAEIQVHEKALPLLNNLEEWVRYSLQQFNELESSYSKTMFRLLKQYRTKGFAYFS
                     KEDFHELLDIPKSYNQGTIDQRVFNPIRQELTAIFKGLTIKKKYGKGRGKPVIGYQFTF
                     KPEIKKSDDFNKHAPTKEEQNKALELANQQVQSEKAPTSLQEKIKEQKRKLELLQQLEK
                     LEREQNTQNKENNAQKSEINSDIPSELKKDLLDNLQNLFKD"
                     /name="replication initiation protein"
     gene            complement(3810..3965)
                     /locus_tag="EQB64_RS17235"
     CDS             complement(3810..3965)
                     /locus_tag="EQB64_RS17235"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_016631617.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_162846310.1"
                     /translation="MKLTKLTISLVIIAGIILYFVLPANQFFLYFGIPTILIVNGVRIF
                     EQRKKM"
                     /name="hypothetical protein"
     gene            complement(3984..4553)
                     /locus_tag="EQB64_RS16950"
     CDS             complement(3984..4553)
                     /locus_tag="EQB64_RS16950"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_002322960.1"
                     /GO_function="GO:0004222 - metalloendopeptidase activity
                     [Evidence IEA]"
                     /GO_process="GO:0071586 - CAAX-box protein processing
                     [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="type II CAAX endopeptidase family protein"
                     /protein_id="WP_002322960.1"
                     /translation="MTIKWIISIAYLVLTFAIPSLGVPSNIYFLFEHSDIFFLVLIIIL
                     FHSTFIREFKEVNLKKLFKYSFFSFSVLFLINILNTSFSEGINPNEVNGSLLLFFLNAA
                     TYGAFLEEGIFRFCMIDPQANKKQQYISILISSFLFSIVHGGGLSIFFIGIILSFVYIQ
                     TKNIWYSIVAHGFYNTIGILIYLISI"
                     /name="type II CAAX endopeptidase family protein"
     gene            complement(4553..5008)
                     /locus_tag="EQB64_RS16955"
     CDS             complement(4553..5008)
                     /locus_tag="EQB64_RS16955"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_002334263.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="LMxysn_1693 family intestinal colonization
                     protein"
                     /protein_id="WP_002322959.1"
                     /translation="MKKQLFKTFLLSTSILTFGSAITPSGAVFANENNISDIATYSDDE
                     YYYVLDEPVIQTRTWSKPQSWSIAKGSRTYLGIETHSRGTKLSVSANVFGMKIEIARNT
                     SASGKFKKYRQNARITVTYRVYRKVDNKYIRTQTSTANTQYIDYIPA"
                     /name="LMxysn_1693 family intestinal colonization protein"
     Typing          complement(1680..2643)
                     /name="rep_cluster_1093"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="93.679"
                     /coverage="99.0"
                     /evalue="0.0"
ORIGIN
        1 agagggttta ttttataaaa gctgttatat taaaggttag tagacataat gtatatacta
       61 ccaagttgcc cctctaccaa tggatagaga cgctaacttt gtgatttcta attggtctag
      121 cttaaacact tcagccaatg cttgatttta tgcacttttc ttttttcatt tctttgtgca
      181 ttttgaccgg tcatttttta gagatttgtt atttttgtga gcatttgata tgctcttttt
      241 atacctcaat ctcttctttt ctaatgttaa tgaataggat aatctcattt ttagctgctc
      301 gtgagagcag tctttttttg tttcagggta cgtcctattc tttggatttc cgcgctatta
      361 aataaccgat acttggggat tggggtagcg ccccaaaata caaaaagaag aagttgcata
      421 agcggatttt tctttttttt cgcaagttgg taccaacttg caaatcttgc tggaagactg
      481 atccctaaaa agaaatcgag gaattttttt agggatcggt ttcttttttt atctttttag
      541 aaagtttgtt gggtcaaaat ttccagaagt aaaggtttga ttggtttctt tttgacgatt
      601 tttgggttga tttcgtcggg aaggattgag ttgattttca attttttctt tcacttcttg
      661 atacacttta gaatttgtac cgataagaac accagtatct tttagatata aatcagcaaa
      721 ttctgccatg atttctgtca tgatagaaat ttcttttccc atggcattga gttttgcttg
      781 gttactggtt gtgattgtat tggtatcagg ttcataactc atacataaaa aacgaatggc
      841 ttctgaataa ttgttgacgt ctggattttt ttcgatgatg gaatctaaaa cgtcaacgtg
      901 actgggataa agggttacgt gtttttgaac agaagttttt ctcatgttat attcctccga
      961 taagtgtttc aatgagttgg ttgtttgtgt gaacatagtc attcagtatg ttcgtatttt
     1021 ctgtttgaat ggcaataaat ttttcgagta ataaatcgaa ttgatctttt ttgtaattca
     1081 taagttgacg gtcaaaatca ctttcgatta gaacttttag atatttattt cgactccatt
     1141 ttttgcccgt tttggttgtg agttcctgac aacgtttatc tattcttgca ataattttgg
     1201 gattgatatt tcgaactaaa atgtccatgg aaattttcct ttcgtatcag cgtataattt
     1261 atgtatatca tacaaatata gtatttgtat agctattttt cgccaaaaca ctatacatag
     1321 cctagccaca atggcaaaaa agtgatagca aatttttttc tgagaaacgt gataggcaca
     1381 gcctatctag caccttttgt aagaaagtga taccacgttt ccttatgctc tttcaaaatt
     1441 cagaaaaatc agctgtaaaa cgagtgcagt ccgagtaaga ttcaacgaaa aaacggggat
     1501 tggggcgcca ccaaaatatc gcaacatggg tccatgttgc tctgctcgca aaagcaaaaa
     1561 gaagaataaa accagcaatt taaattaata aaaattgctg gttttattgc cagaattgcc
     1621 accatttttt ctccgtcttt gattgttttt tctgtcataa aatctaaaaa cccctcaatc
     1681 tttgaataag ttttgaagat tgtctaataa gtcttttttt agttctgaag gaatatcgga
     1741 atttatctct gatttttgtg cattattttc tttattttgg gtattttgtt ctctttctaa
     1801 cttttctaac tgttgtaaaa gttccaattt tcgcttttgt tctttgattt tttcttgtaa
     1861 tgaagtaggt gctttttcag attgaacttg ttggttagct agttctaatg ctttgttttg
     1921 ttcttctttt gttggggcat gtttgttaaa gtcgtctgat ttttttatct caggtttaaa
     1981 tgtaaattga tagccaatga caggctttcc ccgtcctttt ccgtatttct ttttgattgt
     2041 taaaccttta aagattgcag ttagttcttg tcgtattgga ttgaacacac gttgatcaat
     2101 cgtaccttgg ttgtaacttt taggaatatc aagtaattca tgaaagtctt cttttgaaaa
     2161 ataagcgaaa cctttggttc tgtattgttt tagtaatcga aacattgttt ttgaataact
     2221 gctttctaat tcattgaatt gttggagaga atagcgcacc cattcttcaa gattattaag
     2281 taagggtaag gctttttcat gaacttgtat ttcagcaaaa ggaatatcag attttccgtc
     2341 gattttaaat tgattaaata aaacaaaacg ttcacgttgc aaaccgtcag cacttcttct
     2401 accaaaacgt aaatccatta atttgtcata cgttgtttct aaatcatcta tgaatcgaac
     2461 atttgcagtt gctttataat tgcttaaatc ttttaattgc tcgaatgtaa attgtacttt
     2521 tttatcacct acatcacgca ttcttgatac gatagaaaag aacaaattca tttcgactgg
     2581 tgtaaatttt cgcaacggaa ttgtatttaa ttcatgatga tactttacga tttcattaga
     2641 catatttaaa atagctcctt tcttactcgc acaagagata cacgttatga aatacaaaat
     2701 gcctatttat ctacatctta tattaacatc gtcgatgtac taattcaatg tacaaacaga
     2761 caaaacgatg tagataaaca gacaaaacga tgtagataaa cagacaaaac gatgtagata
     2821 aacagacaaa acgatgtaga taaaagcgtc attcccttgg gagagtaagg atatagccga
     2881 cggtaaagag gtttaaaaag aggtttaaaa agagattata aaagaggggg acaaaatttc
     2941 ccgcctaaaa aaccacttct tttttctcca aacagattcg cgcatttttc tcaactggga
     3001 atcttactcc ctacagtcgc ttaaaaaggt gtgatcgctc tgctctcaca ttatactgcg
     3061 cagtcgcttc cggctccttt gctaaaaata ttcataagga actctttgag aagctatgag
     3121 ccttcgtttg agacgtttta agacagtctt agtataaatc ccttatcttg ttcttaaagc
     3181 gccttacagg cggtcagggc aagccctaac aaccctaaag ttgtctgaat gccctctaaa
     3241 attcgattta agcactctta aacctattct tatatattta tatacttaga cgtttcaaac
     3301 gtcttaaaac gcaaattaga gcttgataaa gatatttgct cgtgtgccga cttttttaaa
     3361 agtctaggca cacgccatga caaagctgaa ataaactgct tcagctttgt catggcggat
     3421 tcgctcactt gaaaaagtgt tcatttcgct cgattattag catatatttt ttaacttttt
     3481 ttgctagcca aattttgcat tagttcgctc ataaatccca ccctttcagt acgtcctacg
     3541 gacgtatcgt tcgtaatgtg aaagtacctt taaaggtact ttctacaaaa ctcactaaag
     3601 ggtttggcaa gctctatatt tgctagccaa atacctacgt atttggtgca aataaccgct
     3661 tgtcaaaggg gcgcaagctc ccccttgaat cccccctcaa aacccacgct ccacaataca
     3721 aaaaaggcta gcaaatgcta gccacttttt gtaaagtttc gcttgtttca ccttcggtga
     3781 aattgttgct ttgcaacgat caggtagagc tacatttttt ttcgttgttc aaatattctt
     3841 acgccattta ctattaaaat cgtaggtatt ccaaagtaaa gaaaaaattg attagcaggt
     3901 aatacaaaat ataaaataat accagcaata attaccaaac ttatagtaag ttttgttaat
     3961 ttcatgaagt atgccacctt atcttatata gatatcaaat agattaatat gccgattgta
     4021 ttataaaatc catgagcaac tatggaatac catatatttt ttgtttgtat ataaacaaaa
     4081 cttaaaataa taccaataaa gaaaatactt aggcctcccc catgaacaat agaaaacaga
     4141 aaagaagaaa ttagtattga aatatattgt tgttttttgt ttgcttgagg atcaatcata
     4201 caaaatcgaa aaattccttc ttctaaaaaa gctccataag tagcagcatt taaaaagaat
     4261 aaaaggagag aaccatttac ttcattagga tttatacctt ctgaaaaaga tgtatttaga
     4321 atattgatta ggaataaaac agagaatgaa aaaaaactat atttaaagag tttttttaga
     4381 tttacttctt tgaattcacg aatgaaggta gaatgaaata gtataattat tagcactaaa
     4441 aaaaatatat cactatgttc aaataaaaaa tatatatttg acggtactcc taatgatggg
     4501 atagcaaagg tcaaaaccaa gtaagcaata ctaattatcc attttattgt cattaggcag
     4561 gaatataatc aatatattgt gtatttgctg tagaagtttg agtacgaata tatttattat
     4621 ctaccttacg ataaactctg taggttacag ttattcttgc attttgacga tattttttaa
     4681 attttccact tgcagaagtg tttctggcta tttcgatttt catcccaaat acatttgcac
     4741 tgacagataa ctttgtacct cgactatgag tttctatacc taaataagta cggcttcctt
     4801 tagcaattga ccagctttga ggtttagacc aagtccttgt ttgaataact ggttcgtcta
     4861 acacatagta gtactcatca tcagaataag tggctatatc agaaatgttg ttctcattag
     4921 cgaataccgc tccgctagga gtaatagcag aaccaaaagt taaaatagaa gtagataata
     4981 aaaaggtttt aaataactgt tttttcatca aaatcacctc gaatataaga tacttaagaa
     5041 aacgctttct ttatataatt agaataatca ggaaatttaa tgttgtca
//
