LOCUS       NZ_LR135390             6083 bp    DNA     linear   CON 13-FEB-2024
DEFINITION  Enterococcus faecium isolate E7933 plasmid 7.
ACCESSION   NZ_LR135390
VERSION     NZ_LR135390.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMEA4885473
            Assembly: GCF_900639545.1
KEYWORDS    RefSeq.
SOURCE      Enterococcus faecium
  ORGANISM  Enterococcus faecium
            Bacteria; Bacillota; Bacilli; Lactobacillales; Enterococcaceae;
            Enterococcus.
REFERENCE   1  (bases 1 to 6083)
  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 02:50:50
            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)                     :: 3,344
            CDSs (total)                      :: 3,251
            Genes (coding)                    :: 3,135
            CDSs (with protein)               :: 3,135
            Genes (RNA)                       :: 93
            rRNAs                             :: 6, 6, 6 (5S, 16S, 23S)
            complete rRNAs                    :: 6, 6, 6 (5S, 16S, 23S)
            tRNAs                             :: 71
            ncRNAs                            :: 4
            Pseudo Genes (total)              :: 116
            CDSs (without protein)            :: 116
            Pseudo Genes (ambiguous residues) :: 0 of 116
            Pseudo Genes (frameshifted)       :: 39 of 116
            Pseudo Genes (incomplete)         :: 75 of 116
            Pseudo Genes (internal stop)      :: 20 of 116
            Pseudo Genes (multiple problems)  :: 14 of 116
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            LR135390.1.
            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..6083
                     /organism="Enterococcus faecium"
                     /mol_type="genomic DNA"
                     /isolate="E7933"
                     /db_xref="taxon:1352"
                     /plasmid="7"
     gene            1..945
                     /locus_tag="EQB43_RS17360"
     CDS             1..945
                     /locus_tag="EQB43_RS17360"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_002303559.1"
                     /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_002303559.1"
                     /translation="MANEIVKYHHELNTIPLRKFTPVEMNLFFSIVSRMREKGDKTVRF
                     TFDQLKDLSNYKATANVRFVEDLKATYEKILSLRFGRRSESGLSYDMFVMFTEFKINGD
                     VENPYVDIRIYEKALPLLNNLDEWVRYSLQQFNELQSGYAKTMFRLLKQYRTKGFAYFS
                     KEDFLELLDIPKSYKQPDIDKRVIKPIRQELTAIFKGLTIKKKYGKGRGKPVIGYQFTF
                     KPEIKKADDFNKHAPTKEDQNKALALADKQKEYEEPATTINEKIKQKKRELELLQQIKQ
                     LEKEKKALEKQTESALSEKEKKSLLSDLDNLFQ"
                     /name="replication initiation protein"
     gene            966..1499
                     /locus_tag="EQB43_RS17365"
     CDS             966..1499
                     /locus_tag="EQB43_RS17365"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_002292473.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="DUF536 domain-containing protein"
                     /protein_id="WP_002363576.1"
                     /translation="MQPQETFTIKELSDLFKMSRQAISKHIQKLDSSMIAKNERGYKVV
                     LRSGVLQLARNLDNQRLLDKLHKHEQNNDKNAYIPNKNVVANKLLDQLREENEFLREQL
                     ALKEQNNSHIQKLLDQQQQLTLQANQQIEKLQEQLQLTYTEESSENSSTTLSEATETMD
                     EQTKNWKKWWQLWK"
                     /name="DUF536 domain-containing protein"
     gene            1481..1684
                     /locus_tag="EQB43_RS17370"
     CDS             1481..1684
                     /locus_tag="EQB43_RS17370"
                     /inference="COORDINATES: ab initio prediction:GeneMarkS-2+"
                     /note="Derived by automated computational analysis using
                     gene prediction method: GeneMarkS-2+."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_127897260.1"
                     /translation="MAAMEMKKEILMTKKHLLFGSILLGILSFSPMLLSVANKGNKKGE
                     LKLNPNYYNSQNEEVFVEKLDK"
                     /name="hypothetical protein"
     gene            2064..2288
                     /locus_tag="EQB43_RS17375"
     CDS             2064..2288
                     /locus_tag="EQB43_RS17375"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_002363584.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="class II bacteriocin"
                     /protein_id="WP_002363584.1"
                     /translation="MKKKVLKHCVILGILGTCLAGIGTGIKVDAATYYGNGLYCNKEKC
                     WVDWNQAKGEIGKIIVNGWVNHGPWAPRR"
                     /name="class II bacteriocin"
     gene            2308..2595
                     /locus_tag="EQB43_RS17380"
     CDS             2308..2595
                     /locus_tag="EQB43_RS17380"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_002363589.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="bacteriocin immunity protein"
                     /protein_id="WP_002363589.1"
                     /translation="MDFTKEEKLLNAISKVYNEATIDDYPDLKEKLFLYSKEISEGKSV
                     GEVSMKLSSFLGRYILKHKFGLPKSLIELQEIVSKESQVYRGWASIGIWS"
                     /name="bacteriocin immunity protein"
     gene            3036..3416
                     /locus_tag="EQB43_RS17390"
     CDS             3036..3416
                     /locus_tag="EQB43_RS17390"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_002348702.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MobC family plasmid mobilization relaxosome
                     protein"
                     /protein_id="WP_047936909.1"
                     /translation="MSEQNQNLASDHSKKYTYRSEPKQISFRVSESEFAKLKQSAEALQ
                     MSVPAFVKAKAQNARLVTPKVAPDIAQAIARDLAKAGGNINQIAKWCNTHQHDVAPGDA
                     QRLSENLKIMQKELQKIWQQLK"
                     /name="MobC family plasmid mobilization relaxosome protein"
     gene            3398..4311
                     /locus_tag="EQB43_RS17395"
                     /pseudo=""
     CDS             3398..4311
                     /locus_tag="EQB43_RS17395"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_002340563.1"
                     /note="frameshifted; Derived by automated computational
                     analysis using gene prediction method: Protein Homology."
                     /pseudo=""
                     /codon_start=1
                     /transl_table=11
                     /product="relaxase/mobilization nuclease domain-containing
                     protein"
                     /name="relaxase/mobilization nuclease domain-containing
                     protein"
     gene            4271..4549
                     /locus_tag="EQB43_RS17945"
     CDS             4271..4549
                     /locus_tag="EQB43_RS17945"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_002351557.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_060810720.1"
                     /translation="MKEEQTTNKNYRSKTLKDIENEIKKQRAFLAPYTQERIQTTIDLQ
                     VKKLHQELLDQRNKEQKKAFIQRSMDFLAPLCCLVMTLFAFWLVWGG"
                     /name="hypothetical protein"
     gene            4551..5240
                     /locus_tag="EQB43_RS17405"
     CDS             4551..5240
                     /locus_tag="EQB43_RS17405"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_002298772.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_060810722.1"
                     /translation="MAFYLPYLLIFVSISGSIWLIYKIFQTRYSLKGSKIRFKRFFLIG
                     CIFSLIIVSSGLFGVLEGNKRVSRSILLGNVTQKYESARDKKKKEQALAQKIEEFTACY
                     EDMNDIFVNQEKRLTDKNMEKLTRLYQNLPEKQQKEVQDNYERTKKDVQYFKDTQTEEA
                     CYNLFSDTIPFSTSEQERKERQQSVTYERYKALLQQATNIQNPTKKETALNYLKSVKEW
                     LDQQQQN"
                     /name="hypothetical protein"
     BGC             1..6083
                     /name="RiPP-like"
                     /gene="RiPP-like"
                     /tool="antismash"
     Typing          2..945
                     /name="rep_cluster_1197"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="99.894"
                     /coverage="100.0"
                     /evalue="0.0"
     Typing          3635..4308
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="99.556"
                     /coverage="100.0"
                     /evalue="2.4e-174"
ORIGIN
        1 atggctaatg agattgtaaa ataccaccat gaattaaata caattccttt aagaaaattt
       61 acaccggttg aaatgaattt gtttttttcc atcgtgtcta gaatgcgtga aaaaggggat
      121 aagacagttc gttttacgtt tgaccaacta aaagatttaa gtaactacaa agcaactgca
      181 aatgtacgat ttgtagaaga tttaaaagca acttatgaaa aaatcttatc tttacgcttt
      241 ggtcgtagaa gtgagtctgg gctttcttac gatatgtttg taatgtttac agaatttaaa
      301 atcaacgggg acgtagaaaa tccttacgta gatatacgaa tttacgaaaa agcactgcct
      361 ttgttaaata atttagacga gtgggtacgc tattctttac aacaattcaa cgagctacaa
      421 agtggctatg caaagactat gtttcgtctg ttaaagcaat acagaaccaa aggtttcgca
      481 tatttctcca aagaagactt tcttgaatta ttagatattc ctaaaagtta taagcaacct
      541 gatatagata aacgagttat aaaacctata cgtcaagaac taactgcaat tttcaaagga
      601 ctaacaatca aaaagaaata cggaaaagga cggggaaaac ctgttattgg ctatcaattt
      661 acgttcaaac ctgagatcaa aaaagcagac gactttaaca aacatgcacc aaccaaagaa
      721 gaccaaaata aagcattggc tttagctgat aaacaaaaag aatacgaaga acccgctaca
      781 acaattaacg aaaaaatcaa acagaagaaa cgagaacttg aactcctcca acaaatcaaa
      841 caactagaaa aagagaaaaa agctcttgaa aaacaaacag agtccgcact ttcggaaaaa
      901 gagaaaaaaa gtttattatc tgatttagat aatttattcc agtagcaacc taggaggcaa
      961 ccagtatgca accacaagaa acctttacaa taaaggaatt gtcagatctt tttaagatga
     1021 gtaggcaagc aatatcgaaa catatccaaa aattagattc ttccatgata gctaaaaatg
     1081 agcgtggtta taaggttgta ttgcgttctg gagtattgca acttgctcgc aacttagaca
     1141 atcaaaggtt gctagataag ttgcataaac atgaacaaaa caacgataaa aatgcttata
     1201 taccaaacaa aaacgtggtt gcaaacaagt tgctagatca gttgcgtgaa gaaaatgaat
     1261 ttttacgaga acaacttgcc ctcaaagagc aaaataattc tcatatacaa aaactactcg
     1321 accagcaaca acaactcacc ctgcaagcca accaacaaat cgaaaaactt caggagcaac
     1381 tgcagttgac ttatacggaa gagtcttcag agaatagttc aacgactctt tctgaagcaa
     1441 cagaaacaat ggacgaacaa acaaagaatt ggaaaaaatg gtggcagcta tggaaatgaa
     1501 gaaggaaata cttatgacaa aaaaacactt gctattcggt tctatcctac taggaatatt
     1561 aagctttagc ccaatgttat tatcagtggc caacaaagga aataaaaaag gggaactaaa
     1621 actcaatcct aattactaca acagtcaaaa tgaggaagta tttgtagaaa aacttgataa
     1681 ataagaaaag actgctcgta cgagcagtct ttctgaaaga gattatccta ttattaacct
     1741 tagaaaagaa taataaatga atatgagata tgtaaaaagc ataacaaaca caaacaaaaa
     1801 taacaagtat ttaaaaaatg accgatcaat attcacaaaa tcagcgcctg gatcccttgg
     1861 tacaggcgtt acttggtagt atgtacatta tgtctactag ctgtttaaat aactgatctt
     1921 ataattttat ttaaacgatt atgaattcaa aactactttt tatgacgtta atcattgtta
     1981 tataataaaa tgttatataa taaaattact aagattattt aatataacaa gcaattttaa
     2041 aaaaacgaaa aggaaaaaca atcatgaaaa agaaagtatt aaaacattgt gttattctag
     2101 gaatattagg aacttgtcta gctggcatcg gtacaggaat aaaagttgat gcagctactt
     2161 actatggaaa tggtctttat tgtaacaaag aaaaatgttg ggtagattgg aatcaagcta
     2221 aaggagaaat tggaaaaatt attgttaatg gttgggttaa tcatggtcca tgggcaccta
     2281 gaaggtagtg gtagggaggt tattataatg gattttacta aagaagaaaa acttttaaat
     2341 gcaattagta aagtatacaa tgaagcaact atagatgact atcctgactt aaaagaaaag
     2401 ctctttcttt attctaaaga aatcagtgag ggaaaaagtg ttggtgaagt tagtatgaaa
     2461 ttaagtagtt ttcttggaag atatatttta aaacataaat ttggattacc taaatcttta
     2521 atagaattac aagaaattgt tagtaaggaa tctcaagtat atagaggatg ggcttctatt
     2581 ggtatttgga gttaattctt tggaataaaa tgaaaatggg actgaagaat caattctgat
     2641 tcatcagtcc cataaattat agagccgaaa aattatcata tttatagatt tattaatagt
     2701 aaatggcata agaatctttg aacaacgaaa aaaatgtagc tctacctaat tattgatttg
     2761 caacaatttc accgaaggtg aaacaagcga aactttacaa aaagtggcta gcatttgcta
     2821 gtcttttttg tattgtggag agtggggggg agggggattc aagggggagc ttgcgcccct
     2881 ttgacaagcg gttatttgca ccaaatacgt aggtatttgg ctagcaaata tagagcttgc
     2941 caaacccttt tagtgagctt tactcattgt acctttttag gtacaatggt attgcgaacg
     3001 atacgtccgt aggacgtact gaaagggtgg gacttatgag cgaacaaaat caaaatttgg
     3061 ctagcgatca ttctaaaaaa tatacctatc gatccgagcc aaaacaaatc agttttcgag
     3121 tgagcgaatc tgaatttgca aagctgaagc agtcagctga agctttgcaa atgagtgtgc
     3181 cggctttcgt aaaagccaag gcacaaaacg cgcgtctggt gacaccgaaa gtggcgccag
     3241 acattgccca ggcaatcgcg cgcgatttag ccaaagctgg agggaatatc aatcaaattg
     3301 ctaagtggtg taatacacac caacacgacg ttgctcctgg agacgcccaa cgcttatccg
     3361 aaaacctaaa aatcatgcaa aaggagctac aaaagatatg gcaacagtta aagtaagccg
     3421 aaccacttct tgtagtcgtg caattaatta cgctgaacca cgagcaacca ttaaaacagg
     3481 aataaactgt gacgtcgatt atgccaaaag tgaaatgaaa caaattcgca tgctgtatgg
     3541 aaaagacgac cgtgtacagg cacacttatt gattcaatct tttcgaccag gagaaattac
     3601 cgctgaaaaa gctaatcaac taggggcaga gtatgcaaaa aaatagcccc cgatcaccaa
     3661 atagctattt acacacatac agacaaagac catattcata atcacattgt cattaactcc
     3721 gttaatctgg agactggaaa aaaatttcaa gctcatggtc aagcatttct aaacaaatgt
     3781 tatgacctaa atgacgagat ttgtcttgca cataacttac caatcactga gcgaggaaag
     3841 aaaccagaaa aacgaaccat gtctgaaata aaattaaaag aaaaaaatga acctgtttgg
     3901 aaagacgaaa ttcggattgc gatcgatcaa acaatgaaaa acaaaaaaac cagaacctat
     3961 gaccaatttt gtaattccct caaaacattg gggattcatt gcttcaatcg cgggaaaaat
     4021 ttcacttacg aattgatcca caaaaagaaa aaagtacgat ccaacagact aggaaaggac
     4081 tacgaaaagg agacgatttt acatgagctg gacagacgag aacgaaccta taaccaacag
     4141 cgaaccaacg agctacgaag agctcgagct agcattcgcg aaactgcaga agaagtacga
     4201 agagaacaac gaactcttac gcctgaacaa ccggaaatta gaccggctcg aagaaaccat
     4261 gaacaacacg ttgaaagagg aacagaccac caacaagaat tatcgctcta aaacgttaaa
     4321 agacatagaa aacgaaataa agaaacaacg tgcttttctt gctccctaca cacaagaaag
     4381 gatacaaact acgattgatt tacaagttaa aaaactccat caagagctat tagatcagcg
     4441 aaataaagaa caaaaaaagg cgttcattca acgatcaatg gattttcttg cccccttatg
     4501 ttgcttagtc atgacactgt tcgcattttg gttagtatgg ggaggctaaa atggcatttt
     4561 atttacccta tctactcatt tttgttagta tttcaggaag tatttggctc atctataaaa
     4621 tttttcaaac aagatattca ttaaaaggct ctaaaattcg atttaagcga tttttcttga
     4681 ttggctgtat attttccttg ataatcgttt caagcggctt attcggcgtt ttagagggaa
     4741 ataagcgcgt ttctagaagt attttattag gaaatgtcac tcaaaagtat gaatcagcac
     4801 gtgataaaaa gaaaaaagag caagcattag cacaaaaaat tgaagaattt accgcttgtt
     4861 atgaagacat gaacgatatt tttgtgaatc aagaaaaacg tttgacggat aaaaacatgg
     4921 aaaaactcac tcgtctttat caaaacttgc cagaaaaaca gcaaaaagag gttcaagaca
     4981 actatgagcg aaccaaaaaa gacgtgcaat attttaaaga tacgcagaca gaagaagctt
     5041 gttataattt attcagtgat acaatccctt tttcaactag tgaacaggaa cgaaaagaac
     5101 ggcaacaatc agttacctac gaacgttata aagcactgct tcagcaagca acgaacatac
     5161 aaaatccaac gaaaaaagaa acggcattaa attatctaaa aagtgtcaag gaatggttag
     5221 atcagcaaca gcaaaattga atttgatcgg caatcatgtt aaactaaaca tgcaaatgat
     5281 caaacattag atacacgaaa gccccagaga ggtcggattc tctggggctt tttttcaggt
     5341 tgatgtcgcc tttattgatt ttacttcttg tttcggttat tcaaccaata actgaataaa
     5401 gagacacaaa cttctataag aagggggcaa atgaacaatt caaacattag atacacctcc
     5461 ttccagtcgc aagactgtcg gataggcgac aagttattat atcttaaaaa attaaacttg
     5521 tgtggtgttt ttaagtatcg cttattttag ggttgttagg gcttgccctg accgcctgta
     5581 aggcgcttta aagctagata aggattttta tccaagactg tcttaaaacg gcttagataa
     5641 gcattcagaa ccgctcaaag gcctctttac caacatgttt ttagcaaagg agcctttagg
     5701 cgactgcgca gtacaatgtg agagcgtagc gatcacacct ttttggcgac cgtaggaagc
     5761 aaggttttgg attggcagtt ttgaaaaatg cgcgaacctg tttaaagaaa aaagaagtgg
     5821 tttttaggcg ggaaaattag cccccctctt tttatatctc tttttaaacc tctttttaaa
     5881 cctctttacc gtaagctgtg tccttactct accaatggat acagaatgtt atgaaggaca
     5941 ttttgtctgt ttatgaagga cattttgtct gtttatgaag gacattttgt ctgtttatga
     6001 aggacatttt gtctgtttga acgtcaaata tgaatgtctt gacatttaaa aaatgtcatt
     6061 cataattgga ttgaggtgat tat
//
