LOCUS       NZ_LR135264             4408 bp    DNA     linear   CON 13-FEB-2024
DEFINITION  Enterococcus faecium isolate E4457 plasmid 7.
ACCESSION   NZ_LR135264
VERSION     NZ_LR135264.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMEA4884735
            Assembly: GCF_900639405.1
KEYWORDS    RefSeq.
SOURCE      Enterococcus faecium
  ORGANISM  Enterococcus faecium
            Bacteria; Bacillota; Bacilli; Lactobacillales; Enterococcaceae;
            Enterococcus.
REFERENCE   1  (bases 1 to 4408)
  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 03:06:36
            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)                     :: 2,952
            CDSs (total)                      :: 2,862
            Genes (coding)                    :: 2,745
            CDSs (with protein)               :: 2,745
            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)              :: 117
            CDSs (without protein)            :: 117
            Pseudo Genes (ambiguous residues) :: 0 of 117
            Pseudo Genes (frameshifted)       :: 63 of 117
            Pseudo Genes (incomplete)         :: 51 of 117
            Pseudo Genes (internal stop)      :: 27 of 117
            Pseudo Genes (multiple problems)  :: 20 of 117
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            LR135264.1.
            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..4408
                     /organism="Enterococcus faecium"
                     /mol_type="genomic DNA"
                     /isolate="E4457"
                     /db_xref="taxon:1352"
                     /plasmid="7"
     gene            <1..897
                     /locus_tag="EQB59_RS15385"
     CDS             <1..897
                     /locus_tag="EQB59_RS15385"
                     /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_127837494.1"
                     /translation="MNLFFSIVSRMRDVGDKKVQFTFEQLKDLSNYKATANVRFIDDLE
                     TTYDKLMDLRFGRRSADGLQRERFVLFNQFKIDGKADIPFAEIQVHEKALPLLNNLEEW
                     VRYSLQQFNELESSYSKTMFRLLKQYRTKGFAYFSKEDFHELLDIPKSYNQGTIDQRVF
                     NPIRQELTAIFKGLTIKKKYGKGRGKPVIGYQFTFKPEIKKADDFNKHAPTKEEQNRAL
                     ELANRQTQHEKETTSLQERIKEQKRKLELLQQLEELEKQQKNRENETDKQKLDNNSDIP
                     LELRKDLLDNLQNLFKD"
                     /name="replication initiation protein"
     gene            907..1377
                     /locus_tag="EQB59_RS15390"
     CDS             907..1377
                     /locus_tag="EQB59_RS15390"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_002305828.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="HTH domain-containing protein"
                     /protein_id="WP_002322957.1"
                     /translation="MTDKSIKEFAEELGVSKQAIRKYFDKLPTKLTPKLIGGKYVISAK
                     AQEFIKNSINQINEVDTEVDSLVDSILIAELKEKNKQIDHLQGVIEIQQKLLDQQQQLT
                     LQANQQIDKLQKRLQLVYTEETSENESTTLSEETESIEKQTKKKQKWWKLWK"
                     /name="HTH domain-containing protein"
     gene            1393..1563
                     /locus_tag="EQB59_RS15680"
     CDS             1393..1563
                     /locus_tag="EQB59_RS15680"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_002322958.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_002322958.1"
                     /translation="MTRKKLIFGSILLGILGFSPMLLSVINKGNKHGELKLNPNYYNSP
                     NEELFVKETDK"
                     /name="hypothetical protein"
     gene            1971..2426
                     /locus_tag="EQB59_RS15395"
     CDS             1971..2426
                     /locus_tag="EQB59_RS15395"
                     /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"
     gene            2426..2995
                     /locus_tag="EQB59_RS15400"
     CDS             2426..2995
                     /locus_tag="EQB59_RS15400"
                     /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            3014..3178
                     /locus_tag="EQB59_RS15685"
     CDS             3014..3178
                     /locus_tag="EQB59_RS15685"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_002334262.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_002334262.1"
                     /translation="MKLTKLTISLVIIAGIILYFVLPANQFFLYFGIPTILIVNGVRIF
                     EQRKKCSST"
                     /name="hypothetical protein"
     Typing          2..897
                     /name="rep_cluster_1093"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 atgaatttgt tcttctctat cgtatcaaga atgcgtgatg taggtgataa aaaagtacaa
       61 tttacattcg agcaattaaa agatttaagc aattataaag caactgcaaa tgttcgattc
      121 atagatgatt tagaaacaac gtatgacaaa ttaatggatt tacgttttgg tagaagaagt
      181 gctgacggtt tgcaacgtga acgttttgtt ttatttaatc aatttaaaat cgacggaaaa
      241 gctgatattc cttttgctga aatacaagtt catgaaaaag ccttaccctt acttaataat
      301 cttgaagaat gggtgcgcta ttctctccaa caattcaatg aattagaaag cagttattca
      361 aaaacaatgt ttcgattact aaaacaatac agaaccaaag gtttcgctta tttttcaaaa
      421 gaagactttc atgaattact tgatattcct aaaagttaca accaaggtac gatcgatcaa
      481 cgtgtgttca atccaatacg acaagaacta accgcaatct ttaaaggttt aacaatcaaa
      541 aagaaatacg gaaaaggccg tgggaagcct gtcattggct accaattcac atttaaacca
      601 gaaatcaaaa aagcagacga ctttaacaaa catgcaccaa ccaaagaaga acaaaatcgg
      661 gctttagaac tagctaatcg acaaactcaa cacgaaaaag aaactacttc attacaagaa
      721 agaattaagg aacaaaagcg aaaattagaa cttttacaac agttagaaga gttagaaaaa
      781 caacaaaaaa atagagaaaa cgaaacggat aaacaaaagt tagacaacaa ttccgatatt
      841 cctctagaac taagaaaaga cttacttgat aatcttcaaa acttatttaa agactaagga
      901 gtattcatga cagataaatc aataaaagaa tttgcagaag aactaggtgt cagcaaacaa
      961 gccattagaa agtattttga taaactgcca accaagttga cacctaagtt gataggtgga
     1021 aaatacgtaa tatcagcaaa agctcaagag tttataaaaa atagtatcaa ccaaataaat
     1081 gaagttgata ctgaagttga cagtttagtt gatagtattt taattgcaga attaaaagaa
     1141 aaaaacaaac aaattgatca tttacaaggg gtcatagaaa tacaacaaaa attactcgac
     1201 cagcaacaac aactcacctt gcaggcaaat caacaaatcg acaaactaca aaaacggtta
     1261 caattagttt atacggaaga aacttcagaa aatgaatcaa ctactctttc tgaagaaaca
     1321 gaatcgatag aaaaacaaac aaagaagaag caaaaatggt ggaaactatg gaaataactg
     1381 gaggaaacat tcatgacaag aaaaaagctc atatttggtt ctattttact aggaattcta
     1441 ggcttcagtc cgatgttatt gtcagtgatc aataaaggaa ataaacatgg tgaattgaaa
     1501 ttgaatccaa attattacaa cagtcctaac gaagagttat ttgtaaaaga aacggataaa
     1561 taataaaaaa agactgctct aacgagcagc ccaaaatgag attatcctag tttagcaaca
     1621 taaaccattt attagatgaa aatgagatac aaacaaagcg tatcaaatcc tctcaaaaat
     1681 aacaagtctt taaaaaatga cagataaaaa tgcacaaaga attagatata gataaccgcg
     1741 aaaaatcaag ccttaaaaag agctttttac ctagaccaat ccaaaatcac aaagtgagcc
     1801 tctgtatcgg ttgatacaag ggctacttgg catagtcgac attatgtcta ctaaccttta
     1861 atataacagc ttttataaaa taaaccctct tgacaacatt aaatttcctg attattctaa
     1921 ttatataaag aaagcgtttt cttaagtatc ttatattcga ggtgattttg atgaaaaaac
     1981 agttatttaa aaccttttta ttatctactt ctattttaac ttttggttct gctattactc
     2041 ctagcggagc ggtattcgct aatgagaaca acatttctga tatagccact tattctgatg
     2101 atgagtacta ctatgtgtta gacgaaccag ttattcaaac aaggacttgg tctaaacctc
     2161 aaagctggtc aattgctaaa ggaagccgta cttatttagg tatagaaact catagtcgag
     2221 gtacaaagtt atctgtcagt gcaaatgtat ttgggatgaa aatcgaaata gccagaaaca
     2281 cttctgcaag tggaaaattt aaaaaatatc gtcaaaatgc aagaataact gtaacctaca
     2341 gagtttatcg taaggtagat aataaatata ttcgtactca aacttctaca gcaaatacac
     2401 aatatattga ttatattcct gcctaatgac aataaaatgg ataattagta ttgcttactt
     2461 ggttttgacc tttgctatcc catcattagg agtaccgtca aatatatatt ttttatttga
     2521 acatagtgat atattttttt tagtgctaat aattatacta tttcattcta ccttcattcg
     2581 tgaattcaaa gaagtaaatc taaaaaaact ctttaaatat agtttttttt cattctctgt
     2641 tttattccta atcaatattc taaatacatc tttttcagaa ggtataaatc ctaatgaagt
     2701 aaatggttct ctccttttat tctttttaaa tgctgctact tatggagctt ttttagaaga
     2761 aggaattttt cgattttgta tgattgatcc tcaagcaaac aaaaaacaac aatatatttc
     2821 aatactaatt tcttcttttc tgttttctat tgttcatggg ggaggcctaa gtattttctt
     2881 tattggtatt attttaagtt ttgtttatat acaaacaaaa aatatatggt attccatagt
     2941 tgctcatgga ttttataata caatcggcat attaatctat ttgatatcta tataagataa
     3001 ggtggcatac tttatgaaat taacaaaact tactataagt ttggtaatta ttgctggtat
     3061 tattttatat tttgtattac ctgctaatca attttttctt tactttggaa tacctacgat
     3121 tttaatagta aatggcgtaa gaatatttga acaacgaaaa aaatgtagct ctacctgatc
     3181 gttgcaaagc aacaatttca ccgaaggtga aacaagcgaa actttacaaa aagtggctag
     3241 catttgctag ccttttttgt attgtggagc gtgggttttg aggggggatt caagggggag
     3301 cttgcgcccc tttgacaagc ggttatttgc accaaatacg taggtatttg gctagcaaat
     3361 atagagcttg ccaaaccctt ttagtgagtt ttgtagagag tgaccttata ggcactctca
     3421 cattacgaac gatacgtccc tcggacgtac tgaaagggtg ggacttatga gcgaactaat
     3481 gcaaaatttg gctagcaaaa aagcgaaaaa atatatgcta ataatcgagc gaaatgaaca
     3541 ctttttcaag tgagcgaatc cgccatgaca aagctgaaac agtttatttc agctttgtca
     3601 tggcgtgtgc cgactttttt aaaagtctag gcacacgagc aaatatcttt atcaagctct
     3661 aatttgcgtt ttaaggcgtt tcaaatgtct aagtatataa atatataaga atagagttaa
     3721 gagtgcttaa atcgaatttt agagggaatt cagacaattt tagggttgtt agggcttgcc
     3781 ctgaccgcct gtaaggcgct ttaagaacaa gataagggat ttatactaag actgtcttaa
     3841 aacgtctcaa acgaaggctc atagcttctc aaagagttcc ttatgaacag ttttagcaaa
     3901 ggagccggag gcgactgcgc agtataatgt gagagcagag cgatcacacc tttttaagca
     3961 actataggga gtaagattcc cagtttagaa aaatgcgcga atctgtttgg agaaaaaaga
     4021 agtggttttt taggcgggaa attttgtccc cctcttttat aatctctttt taaacctctt
     4081 tttaaacctc tttaccgtcg gctgtatcct tactctccca agggaatgac gcttttatct
     4141 acatcgtttt gtctgtttat ctacatcgtt ttgtctgttt atctacatcg ttttgtctgt
     4201 ttatctacat cgttttgtct gtttgtacat tgaattagta catcgacgat gttaatataa
     4261 gatgtagata aacagacatt ttgtatttca taacgtctgt atctcttgtg cgagtaagaa
     4321 aggagctatt ttaaatatgt ctaatgaaat cgtaaagtat catcatgaat taaatacaat
     4381 tccgttgcga aaatttacac cagtcgaa
//
