LOCUS       NZ_CP085900             6326 bp    DNA     circular CON 23-DEC-2023
DEFINITION  Enterococcus faecium strain SC1762 plasmid p6, complete sequence.
ACCESSION   NZ_CP085900
VERSION     NZ_CP085900.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN22627481
            Assembly: GCF_020736585.1
KEYWORDS    RefSeq.
SOURCE      Enterococcus faecium
  ORGANISM  Enterococcus faecium
            Bacteria; Bacillota; Bacilli; Lactobacillales; Enterococcaceae;
            Enterococcus.
REFERENCE   1  (bases 1 to 6326)
  AUTHORS   Zeng,W.
  TITLE     Acquisition of daptomycin resistance by Enterococcus faecium confers
            collateral sensitivity to glycopeptides
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 6326)
  AUTHORS   Zeng,W.
  TITLE     Direct Submission
  JOURNAL   Submitted (27-OCT-2021) Laboratory Medicine, College of Life
            Sciences, Wenzhou Medical University, Wenzhou Medical University,
            Wenzhou, Zhejiang 325000, China
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: unicycler v. v0.4.8
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 200.0x
            Sequencing Technology             :: Oxford Nanopore
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 12/23/2023 20:51:41
            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)                     :: 3,307
            CDSs (total)                      :: 3,216
            Genes (coding)                    :: 3,059
            CDSs (with protein)               :: 3,059
            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)              :: 157
            CDSs (without protein)            :: 157
            Pseudo Genes (ambiguous residues) :: 0 of 157
            Pseudo Genes (frameshifted)       :: 63 of 157
            Pseudo Genes (incomplete)         :: 95 of 157
            Pseudo Genes (internal stop)      :: 38 of 157
            Pseudo Genes (multiple problems)  :: 30 of 157
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP085900.1.
            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..6326
                     /organism="Enterococcus faecium"
                     /mol_type="genomic DNA"
                     /strain="SC1762"
                     /host="Homo sapiens"
                     /db_xref="taxon:1352"
                     /plasmid="p6"
                     /geo_loc_name="China:wenzhou"
                     /collection_date="2018"
     gene            complement(join(5981..6326,1..35))
                     /locus_tag="LK894_RS16290"
                     /old_locus_tag="LK894_16305"
     CDS             complement(join(5981..6326,1..35))
                     /locus_tag="LK894_RS16290"
                     /old_locus_tag="LK894_16305"
                     /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_002292464.1"
                     /translation="MSEQNQNLASDPSKKYTYRSEPKQISFRVSESEFAKLKQSAEALQ
                     MSVPAFVKAKAQNARLVTPKVAPDIAQAIARDLAKAGGNINQIAKWCNTHQHDVAPGDA
                     QRLSENLKIMQKELQKIWQQLK"
                     /name="MobC family plasmid mobilization relaxosome protein"
     gene            complement(357..560)
                     /locus_tag="LK894_RS16295"
                     /old_locus_tag="LK894_16310"
     CDS             complement(357..560)
                     /locus_tag="LK894_RS16295"
                     /old_locus_tag="LK894_16310"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_002307460.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_002321382.1"
                     /translation="MFLISKSLKSLKTFTKKNPQIATIRIFIFAIAVAIIVNMLSGGQL
                     YKSGLFLVLILVVLDIIKSKKK"
                     /name="hypothetical protein"
     gene            complement(572..1105)
                     /locus_tag="LK894_RS16300"
                     /old_locus_tag="LK894_16315"
     CDS             complement(572..1105)
                     /locus_tag="LK894_RS16300"
                     /old_locus_tag="LK894_16315"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_002334266.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_002334266.1"
                     /translation="MKKFTLGVALLTIGAVVLPSTTIVYASENSQVVSLNENNATENVV
                     IEYTEDGMVVTKYEDGYSAEDFANSSDIMTRAAVARWGKKEYTNIAVTTGVAANAINAA
                     FWAGGKASTSMFGIPGWAIGALLTGASWTKKGASPGNAVAKEWDKNGNGWIGFYYQRGY
                     DAAGRVVATRYSTL"
                     /name="hypothetical protein"
     gene            complement(1566..1736)
                     /locus_tag="LK894_RS16305"
                     /old_locus_tag="LK894_16320"
     CDS             complement(1566..1736)
                     /locus_tag="LK894_RS16305"
                     /old_locus_tag="LK894_16320"
                     /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            complement(1752..2285)
                     /locus_tag="LK894_RS16310"
                     /old_locus_tag="LK894_16325"
     CDS             complement(1752..2285)
                     /locus_tag="LK894_RS16310"
                     /old_locus_tag="LK894_16325"
                     /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_104853326.1"
                     /translation="MQPQETFTIKELSELFKISRQALSKHIQKLDSSMIAKNERGYKVV
                     LRSGVLQLARNLGNQRLLDKLHEHEQNSDKNAYIPTKNVVANELLEQLREENKFLREQL
                     QEKDTQIKQMQKLLDQQQQLTLQANQQIDKLQKRLQLVYTEETSENESTTLSEETESIE
                     KQTKKKQKWWKLWK"
                     /name="DUF536 domain-containing protein"
     gene            complement(2305..3255)
                     /locus_tag="LK894_RS16315"
                     /old_locus_tag="LK894_16330"
     CDS             complement(2305..3255)
                     /locus_tag="LK894_RS16315"
                     /old_locus_tag="LK894_16330"
                     /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_065305730.1"
                     /translation="MANEIVKYHHELNTIPLRKFTPVEMNLFFSIVSRMREKGDKTVRL
                     TFDQLKDLSNYKATANNRFINDLEMTYDKLMDLRFGKRSANGLDIDRFVMFSEFKIRGT
                     AKDPYVDIQVYEKALPLLNNLDEWVRYSLQQFNELQSSYAKTMFRLLKQYRTKGFVYFS
                     KEDFHELLDIPKSYWNNQANVDNRVIKPIRQELTAIFKGLSIKKKYGKGRGKPVIGYQF
                     TFKPEIKKADDFNKHAPTKEEQNKALALADKQKEYEEPTTTINEKIKQKKQELELLQQI
                     KQLEKEKEALEKQTESALSEKEKKNLLSDLDHLFR"
                     /name="replication initiation protein"
     gene            complement(4132..4821)
                     /locus_tag="LK894_RS16320"
                     /old_locus_tag="LK894_16335"
     CDS             complement(4132..4821)
                     /locus_tag="LK894_RS16320"
                     /old_locus_tag="LK894_16335"
                     /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_065305728.1"
                     /translation="MAFYLPYLLIFVSISGSIWLSCKIYQTRHSLKGSKIRFKRFLLLG
                     CIFSLIIISSGLFGVLEGNKRISGSILLENVTQKYEVARDKKKKEQALTQKIEKFTACY
                     EDMSDIFVKQEKRLTDKNMETLTQLYRNLPEKQQKEYQEKYEQVKKDVQYVKDTQTEEA
                     CYDLFSDTIPFSTSEQERKERQQSVTYERYEILLQQATNMQNPTKKETALNYLKSVKEW
                     LDQQQQN"
                     /name="hypothetical protein"
     gene            complement(5061..5999)
                     /locus_tag="LK894_RS16325"
                     /old_locus_tag="LK894_16340"
     CDS             complement(5061..5999)
                     /locus_tag="LK894_RS16325"
                     /old_locus_tag="LK894_16340"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_002340563.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="relaxase/mobilization nuclease domain-containing
                     protein"
                     /protein_id="WP_065305727.1"
                     /translation="MATVKVSRTTSCSRAINYAEPRATVKTGINCDIDYAKSEMKQIRM
                     LYGKDDHVQAHLLIQSFRPGEITAEKANQLGKEYAEKIAPEHQIAIYTHTDKDHIHNHI
                     VINSVNLETGKKFQAHGQAFLDKCYDINDEICLTHGLSITERGKKEEKRTMSEIKLKEK
                     NEPVWKDEIRFAIDQTMKNPKTRTYDQFCDSLKIFGIHCFNRGKNFTYELIKKKKKVRS
                     NKLGKDYEKETILHELDRREQTYYRERERAYHRQQADELRRARESIRKIAGEVRREQRT
                     LTSEQPEIRPTQRNHEQHIERGTDHQQELSL"
                     /name="relaxase/mobilization nuclease domain-containing
                     protein"
     Typing          complement(2306..3254)
                     /name="rep_cluster_1197"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="84.183"
                     /coverage="99.0"
                     /evalue="0.0"
     Typing          complement(5065..5999)
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="90.705"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 ggatcgctag ccaaattttg attttgttcg ctcataagtc ccaccctttc agtacgtcct
       61 acggacgtat cgttcgcaat atcattgtac ctaaaaaggt acaatgagta aagctcacta
      121 aaagggtttg gcaagctcta tatttgctag ccaaatacct ccgtatttgg tgcaaataac
      181 cgcttgtcaa aggagcgcaa gctccccctt gaatccccct caaaatccac gctccacaat
      241 acaaaaaaag gctagcattt gctagccact ttttgtaaag tttcgcttat ttcaccgaag
      301 gtgaaattgt tgctttgtaa tattcaaaca accctattct tctaaaatgt atcgatttat
      361 ttttttttag actttattat gtctaagaca actaagatta acactaaaaa taaaccagat
      421 ttgtataatt gccctccgct tagcatatta acaattatag caacagctat agcaaatata
      481 aaaatacgaa tagtagctat ttgcggattc tttttagtaa atgtttttaa tgattttaat
      541 gatttagata tcaaaaacat cactccttaa cttataacgt tgaatatcta gtagctacaa
      601 ctcttccagc tgcatcatat cccctttggt aataaaatcc aatccagcca ttaccatttt
      661 tgtcccattc ttttgcaact gcattccctg gagaagcacc ttttttagtc caacttgcac
      721 ctgttaacaa agcaccaatt gcccaacctg ggataccaaa catagaagtg ctagctttcc
      781 ctcctgccca aaaggcagca ttaatagcat tagcagctac tccagtggtt acagcaatat
      841 ttgtatattc ctttttgccc catcttgcaa ctgcagctct tgtcatgata tctgaagaat
      901 ttgcaaaatc ttccgcacta taaccatcct catatttagt tacgaccata ccatcttcag
      961 tgtactcaat aactacattt tcagtagcat tgttttcgtt taatgatacc acttgggaat
     1021 tttctgaagc ataaactata gtagttgacg gtaaaacaac tgccccaata gttaacaaag
     1081 ctacccctaa agtaaatttt ttcatagaat ttcctcctga tacagaaaaa tatatagaaa
     1141 acgttttctt tgtgaaaatc ataaaacaaa aggtataggc ttgtcaatat tttatttagt
     1201 aaagataatt tatatttttg ataatgtggt atagttagaa tgcattagga aaatatgtta
     1261 tattaaattc ttgttgacat aatgtcgact atgccaagta gcccctctac caatggatag
     1321 agacgctcac tttgtgattt ttaattggtc tagctaaaag caactttcta aagcttgatt
     1381 tttcgcggtt atctatatct aattctttgt gcatttttat ctgtcatttt ttaaagactt
     1441 gttatttttg agaggatttg atatgctttt tttatctttc ttatagttct tcattttgta
     1501 atatttttat gttgatgaat aggataatct cattttgggc tgctcgttag agcagtcttt
     1561 ttttattatt tatccgtttc ttttacaaat aactcttcgt taggactgtt gtaataattt
     1621 ggattcaatt tcaattcacc atgtttattt cctttattga tcactgacaa taacatcgga
     1681 ctgaagccta gaattcctag taaaatagaa ccaaatatga gcttttttct tgtcatgaat
     1741 gtttcctcca gttatttcca tagtttccac catttttgct tcttctttgt ttgtttttct
     1801 atcgattctg tttcttcaga aagagtagtt gattcatttt ctgaagtttc ttccgtataa
     1861 actaattgta accgtttttg tagtttgtcg atttgttgat ttgcctgcaa ggtgagttgt
     1921 tgttgctggt cgagtaactt ttgcatttgt tttatttgag tatctttttc ttggagttgt
     1981 tcacgtaaaa atttattttc ttcacgcaac tgttctagca actcatttgc aaccacgttt
     2041 ttggttggta tataagcatt tttatcgctg ttttgttcat gttcatgcaa cttatctagc
     2101 aacctttggt tgcctaaatt gcgagcaagt tgcaatactc cagaacgcaa tacaacctta
     2161 taaccacgct catttttagc tatcatggaa gagtctaatt tttggatatg ttttgatagt
     2221 gcttgcctac ttatcttaaa aagttctgac aattccttta ttgtaaaggt ttcttgtggt
     2281 tgcatattgg ttgcctcctg gttgctaccg gaataaatga tctaaatcag ataataaatt
     2341 ttttttctct ttttccgaaa gtgcagactc tgtttgtttt tcaagagctt ctttctcttt
     2401 ttctagttgt ttgatttgtt ggaggagttc aagttcttgt ttcttctgtt tgattttttc
     2461 gttaattgtt gtagtaggct cttcgtattc tttttgttta tcagctaaag ccaatgcttt
     2521 attttgttct tctttggttg gtgcatgttt gttaaaatcg tctgcttttt tgatttctgg
     2581 tttaaacgta aattgatagc caatgacagg ttttcctcgc ccttttccgt atttcttttt
     2641 aattgataat cctttgaaga ttgcggttaa ttcctgacgt ataggcttta taacacgatt
     2701 atcaacgttt gcttggttgt tccagtaact ttttggaata tctaatagtt catgaaaatc
     2761 ctctttagaa aaataaacaa aacctttagt tcgatattgt tttagtaatc gaaacatagt
     2821 ttttgcatag ctactttgta attcgttaaa ttgttggagt gaatagcgaa cccactcatc
     2881 tagattgttt agtaaaggta aagctttttc gtaaacttgt atatctacat atggatcttt
     2941 agcagttcca cgtattttaa actcactaaa cataacgaat ctatctatat ctagcccatt
     3001 agcactcctt ttgccaaaac gtaaatccat taatttatca taagtcattt ctaaatcatt
     3061 gatgaaacga ttattagcag ttgctttgta attactcaaa tcttttagct ggtcaaaagt
     3121 aagacgaacg gttttatcgc ctttttcgcg cattctagac acaatagaga aaaatagatt
     3181 catttcaact ggtgtaaatt tccgcaacgg aatggtattt aattcatgat ggtatttcac
     3241 gatttcattt gccaaatcta ttcctcctta ctctcccaaa ggatacagac gttataaaca
     3301 acgttttgtc tgtgataata catattataa catacgtgag tataaaaaaa gagtttaaaa
     3361 gcagacaaaa tgtagtttaa aagcagacaa aatgtagttt aaaagcagac aaaatgtagt
     3421 ttaaaagcag acaaaatgta gtttaaaaaa cgatgaatcc cttgagagag taagaacata
     3481 accgacagta aagaaggtta aaaagaggtt taaaaagaga tataaaaaga ggggggcaaa
     3541 atttcccgcc aaaaaaatca ctattttttt cctaaaacag gttcgcgcat ttttttaaac
     3601 tgccaatctt gctccctacg gtcgctaaaa aggtgtgatc gctatgctct cacattgtac
     3661 tgcgcagtcg cctaaaggct cctttgccaa aaccgttctt caaagagaac cttgtggggc
     3721 tctgatagct cgtctaaacc gttttgagac agttctaggg gaaaaccctt atctagttcc
     3781 taaagcacct tacaggcggt cagggcaagc cctaacaacc ctaaaataag ggatacttaa
     3841 aaacaccaca cagatttaat tttttaagat ataataactt gtcgcctatc cgacagtctt
     3901 gcgactggaa ggaggtgtat cttatgatta cccactttat ttgcgccctt cttgttgagc
     3961 ttctaaactc tttatttagt tattggctga ataaccgaaa caagaagtaa aatcaactaa
     4021 ggcgatatca gctcacaaaa aaagtcctag agaatccgac ttctctagga ctttcgtgta
     4081 tcttatgatt acctatttgc atatttagtt taacatgagt ttcaatcaaa ttcaattttg
     4141 ctgttgctga tctaaccatt ccttgacact ttttagatag tttaaggcgg tttctttttt
     4201 tgtcggattt tgcatgttag ttgcttgttg aagcaagatt tcatagcgtt catatgtgac
     4261 tgattgttgt cgttcttttc gttcttgttc gctagttgaa aaagggattg tatcactgaa
     4321 taagtcataa cacgcttctt ccgtttgcgt atctttcaca tattgcacgt ctttttttac
     4381 ttgttcatat ttttcttggt actctttttg ctgtttttct ggcaaattcc gataaagttg
     4441 agtgagtgtt tccatatttt tatccgtcaa acgcttttct tgcttcacaa aaatatcact
     4501 catgtcctca taacaagcgg taaatttttc tattttttgc gttaatgctt gctctttttt
     4561 ctttttatca cgtgctactt catacttttg agtgacattt tctaataaaa tacttcctga
     4621 aatgcgctta ttgccctcta aaacgccgaa taagccgctt gaaatgatta ttaaggaaaa
     4681 tatacatccg agcaataaaa accgcttaaa tcgaatttta gagcctttca atgaatgtct
     4741 tgtttgataa attttacagc tgagccaaat acttcctgaa atactaacaa aaatgagtag
     4801 atagggtaaa taaaatgcca ttttagcctc cccatactaa ccaaaatgcg aacagtgtca
     4861 ggactaagca acataagggg gcaagaaaat ccattgatcg ttgaatgagc gccttttttt
     4921 gttctttatt tcgctgatct aatagctctt gatggagttt tttaacttgt aaatcaatcg
     4981 tagtttgtat cctttcttgt gtgtagggag caagaaaagc acgttgtttc tttatttcgt
     5041 tttctacgtc tcgtaacgtt ttagagcgat aattcttgtt ggtggtctgt tcctctttca
     5101 atgtgttgtt catgatttct ttgagtcggt ctaatttctg gttgttcaga cgtaagagtt
     5161 cgttgttctc ttcgtacttc tccagcaatt ttccgaatgc tttctcgagc tcttcgaagc
     5221 tcgtcggctt gctgtctatg ataggctcgt tctcgttctc gataataggt ttgttctcgt
     5281 ctgtccagct catgtaaaat tgtctccttt tcatagtcct ttcctaattt gttggatcgt
     5341 acttttttct tttttttgat taattcgtaa gtaaaatttt tcccacgatt gaagcaatga
     5401 atcccaaata ttttgaggga atcacaaaat tggtcatagg ttctggtttt tggatttttc
     5461 atggtttgat caatggcaaa gcgaatctcg tctttccaaa caggttcatt tttttctttt
     5521 agtttgattt cagacatagt tcgtttttct tctttttttc ctcgttcagt gatacttaaa
     5581 ccatgagtca aacaaatttc gtcgttgata tcgtaacact tatctaggaa tgcttgacca
     5641 tgtgcttgaa acttttttcc tgtttctaaa ttgaccgaat taatgacaat gtgattgtgg
     5701 atatggtctt tgtccgtgtg cgtataaatc gcgatttggt gttctggtgc gattttttca
     5761 gcgtattctt ttcctagctg gttggctttt tcggcggtaa tttctcctgg tcgaaaggac
     5821 tgaatcaata agtgtgcttg tacatgatcg tcttttccgt aaagcatacg tatttgtttc
     5881 atttcacttt tggcataatc aatgtcacag tttattcctg ttttgacggt tgctcgtggt
     5941 tctgcgtaat tgattgctcg gctacaggaa gtggttcgac ttactttaac tgttgccata
     6001 tcttttgtag ctccttttgc atgattttta ggttttcgga taagcgttgg gcgtcgccag
     6061 gagcaacgtc gtgttggtgt gtattgcacc acttggcaat ttgattgata ttccctccag
     6121 ctttggctaa atcgcgcgcg attgcctggg caatgtctgg cgccactttc ggtgtcacca
     6181 gacgcgcgtt ttgtgccttg gctttcacga aagccggcac actcatttgc aaagcttcag
     6241 ctgactgctt cagctttgca aattcggatt cgctcactcg aaaactgatt tgttttggct
     6301 cggatcgata ggtatatttt ttagaa
//
