LOCUS       CP124588                4397 bp    DNA     circular BCT 13-APR-2024
DEFINITION  Macrococcus sp. NRL/St 13/116 plasmid pMP13116_3, complete sequence.
ACCESSION   CP124588
VERSION     CP124588.1
DBLINK      BioProject: PRJNA952914
            BioSample: SAMN33945090
KEYWORDS    .
SOURCE      Macrococcus sp. NRL/St 13/116
  ORGANISM  Macrococcus sp. NRL/St 13/116
            Bacteria; Bacillota; Bacilli; Bacillales; Staphylococcaceae;
            Macrococcus.
REFERENCE   1  (bases 1 to 4397)
  AUTHORS   Maslanova,I., Svec,P., Sedlacek,I., Novakova,D., Keller,J.E.,
            Schwendener,S., Finstrlova,A., Botka,T., Kovarovic,V., Petras,P.,
            Perreten,V. and Pantucek,R.
  TITLE     Macrococci isolated from food, foodproducing animals, and human
            clinical materials
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 4397)
  AUTHORS   Kovarovic,V., Botka,T., Maslanova,I. and Pantucek,R.
  TITLE     Direct Submission
  JOURNAL   Submitted (26-APR-2023) Department of Experimental Biology, Masaryk
            University, Faculty of Science, Kotlarska 2, Brno 611 37, Czech
            Republic
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Date                     :: 2022
            Assembly Method                   :: Trycycler v. v0.5.2
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 228x
            Sequencing Technology :: Ilumina, Oxford Nanopore MiniION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI
            Annotation Date                   :: 05/03/2023 11:04:24
            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)                     :: 2,201
            CDSs (total)                      :: 2,122
            Genes (coding)                    :: 2,110
            CDSs (with protein)               :: 2,110
            Genes (RNA)                       :: 79
            rRNAs                             :: 6, 5, 5 (5S, 16S, 23S)
            complete rRNAs                    :: 6, 5, 5 (5S, 16S, 23S)
            tRNAs                             :: 59
            ncRNAs                            :: 4
            Pseudo Genes (total)              :: 12
            CDSs (without protein)            :: 12
            Pseudo Genes (ambiguous residues) :: 0 of 12
            Pseudo Genes (frameshifted)       :: 2 of 12
            Pseudo Genes (incomplete)         :: 11 of 12
            Pseudo Genes (internal stop)      :: 1 of 12
            Pseudo Genes (multiple problems)  :: 1 of 12
            ##Genome-Annotation-Data-END##
            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..4397
                     /organism="Macrococcus sp. NRL/St 13/116"
                     /mol_type="genomic DNA"
                     /strain="NRL/St 13/116"
                     /isolation_source="Swab from nose slime of 72 years old man
                     (dg. chronic periodontitis)"
                     /db_xref="taxon:3039390"
                     /plasmid="pMP13116_3"
                     /geo_loc_name="Czech Republic: Pribram"
                     /lat_lon="49.6866089 N 13.9982422 E"
                     /collection_date="2013"
                     /collected_by="Dr. P. Jezek"
     gene            1..945
                     /locus_tag="QA540_10970"
     CDS             1..945
                     /locus_tag="QA540_10970"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_011167206.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology. GO_function:
                     GO:0003677 - DNA binding [Evidence IEA]; GO_function:
                     GO:0003916 - DNA topoisomerase activity [Evidence IEA];
                     GO_process: GO:0006270 - DNA replication initiation
                     [Evidence IEA]"
                     /codon_start=1
                     /transl_table=11
                     /product="replication initiation factor domain-containing
                     protein"
                     /protein_id="WZE69928.1"
                     /translation="MSKKAEEIQAKQSLEKENSNFSKTGYSNSRLNRHIMYTPEPKLHF
                     DAMTIVGNLNKNNAHKLSEFMSIAPQIRLWDILQTKFKAKALQEKVYIEYDKVKADAWD
                     RRNMRVEFNPNKLTHEEMLWLKQNIIDYMEDDGFTRLDLAFDFEDDLSDYYAMTDKSVK
                     KTIFYGRNGKPETKYFGVRDSDRFIRIYNKKQERKDNADIEVMSEHLWRVEIELKRDMV
                     DYWNDCFNDLHILKPDWSSLEKVKDQAMIYMLIHEESTWGKLERRTKNKYREMLKSISE
                     IDLTDLMKLTLKENEKQLQKQIEFWQREFRFWE"
                     /name="replication initiation factor domain-containing
                     protein"
     gene            953..1801
                     /gene="str"
                     /locus_tag="QA540_10975"
     ARG             954..1798
                     /name="str"
                     /gene="str"
                     /gene_name="streptomycin adenylyltransferase Str"
                     /tool="amrfinderplus"
                     /drug_class="AMINOGLYCOSIDE"
                     /identity="100.0"
                     /coverage="100.0"
     gene            2071..2469
                     /gene="mobC"
                     /locus_tag="QA540_10980"
     CDS             2071..2469
                     /gene="mobC"
                     /locus_tag="QA540_10980"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_002489523.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="plasmid mobilization relaxosome protein MobC"
                     /protein_id="WZE69930.1"
                     /translation="MNEHKDNLASDLSVGGNRKPNRKEPKQISFRVSEQEYSKLKQSAE
                     TLNMTVPNFVKKKAQGSRLVSPKLDKETRQSIAKDLSHLGSNVNQIAKWFNQNKDKATH
                     LPEEKYHDLEKQFDDVKKELHKIWQQLN"
                     /name="mobC"
     gene            2451..3095
                     /locus_tag="QA540_10985"
                     /pseudo=""
     CDS             2451..3095
                     /locus_tag="QA540_10985"
                     /inference="COORDINATES: protein motif:HMM:NF015397.2"
                     /note="incomplete; partial on complete genome; missing
                     C-terminus; 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            3208..3837
                     /locus_tag="QA540_10990"
     CDS             3208..3837
                     /locus_tag="QA540_10990"
                     /inference="COORDINATES: protein motif:HMM:NF015839.2"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="DUF334 domain-containing protein"
                     /protein_id="WZE69927.1"
                     /translation="MQTRSKLTGTQSQKIQKTLENEELQELKKQNKLVIKYISEMKEQQ
                     DLREKELQAIKSSLKKTTEDFQGRGKKVHNDFVRLLQKNLNRVNAEDIEIEVRKDVYGV
                     REEIHSMLREVKQSHEHYQKRQKQLFTGIGAMLLVFMLFALIMTIGRDFMGFLHVDVLQ
                     NAIASKIKASEGFISVLWYIAYGLPYILAIGLFIWLYEWIRARFHD"
                     /name="DUF334 domain-containing protein"
     Typing          complement(1866..2100)
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="80.0"
                     /coverage="100.0"
                     /evalue="1.4099999999999999e-40"
     Typing          2..945
                     /name="rep_cluster_1118"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="0.0"
     Typing          2452..3410
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 atgagtaaaa aagcagaaga aattcaggca aaacaaagtt tggaaaagga aaactcaaat
       61 ttttctaaaa ccggatactc taatagccgg ttaaaccgac atattatgta cacccccgaa
      121 ccaaaattac actttgatgc tatgacaatt gttgggaatc ttaataagaa caatgctcac
      181 aaactgtctg aatttatgag tattgcgcca caaattagac tttgggatat attacaaacc
      241 aaatttaaag ctaaggctct acaagaaaaa gtttacatcg aatatgataa agtaaaagca
      301 gatgcgtggg atagacgtaa tatgcgtgtt gaatttaatc ctaataaact tacgcatgaa
      361 gaaatgcttt ggttaaaaca aaacatcatt gactacatgg aagatgatgg ttttacaaga
      421 ttagatttgg cttttgattt tgaagacgat ttgagcgatt attatgcgat gactgataaa
      481 tcagttaaga aaactatttt ttatggtcgt aacggtaaac cagaaacaaa atattttggt
      541 gttcgtgaca gtgatagatt tattagaatt tataataaaa aacaagaacg taaggataat
      601 gcagacattg aagttatgtc tgaacactta tggcgtgtag aaattgaatt aaaaagagat
      661 atggttgatt attggaacga ttgttttaat gatttacata ttttgaaacc agattggtct
      721 agtttagaaa aagtaaaaga ccaagcaatg atttatatgc taattcatga agaaagtaca
      781 tggggtaaat tagaaagacg tacaaaaaat aaatacagag aaatgttaaa aagtatttca
      841 gaaattgatt taacggactt aatgaaattg actttaaaag agaatgaaaa acaattgcaa
      901 aagcagattg aattttggca gcgtgaattt agattttggg agtgaaaaaa caatgaggac
      961 tgaaaaagaa attttaaatt tagtttctga atttgcttat caacgaagca atgtaaaaat
     1021 tattgctctc gagggttcaa gaactaatga aaatataaaa aaagataagt ttcaagatta
     1081 tgattttgct tttttcgtat cagatattga gtatttcaca catgaagaaa gttggttaag
     1141 tttatttgga gaattattgt ttatacagaa accagaagat atggaattat tcccacctga
     1201 tttagattat ggttacagtt atataatgta ttttaaagat ggcataaaaa tggatattac
     1261 attaattaat ttaaaagatt taaatcgtta ttttagtgat tctgatggtc ttgtaaaaat
     1321 tttagttgat aaagataatt tagtaactca agaaattgtt ccagatgact caaattattg
     1381 gttaaaaaaa ccaacagaac gagaatttta tgattgctgt aatgagtttt ggagtgtctc
     1441 aacgtatgta gcaaagggtg tttttagaag agaaatatta tttgctttag atcatttcaa
     1501 taatatttta cgtcctgaat tattaagaat gatttcttgg tatattggct ttaatagggg
     1561 ttttgatttt agtttaggaa agaattataa gtttataaac aaatatttaa ctgataaaga
     1621 attcaatatg cttttagcta cttttgagat gaatggatat agaaagacat accaatcttt
     1681 taagctttgt tgtgaattat ttaaatatta ttcaaataaa gtaagttgtt taggaaatta
     1741 taactatcca aattacgaaa aaaatattga gaattttatt cgtaataatt atgagaatta
     1801 attttattag caaccacatt tttggttgct tttgttttga ttttgaattt ggttttgaac
     1861 tatgagtggc tagcattttg ccactcattt tttgcgttag caaaaacata aagggtctgg
     1921 gattaatccc agcaagccgg tatattcaga acgaagtggc tagaatatac gacgcttgcc
     1981 aaaccactat attacttgag aaaatataga ttatattata agctatattt atgaaaagga
     2041 atatttttcg tcagaaaggt ggtgggactt gtgaacgaac ataaagataa tttggctagc
     2101 gatttgtctg ttgggggaaa ccgtaaaccc aaccgcaaag agccaaaaca aattagtttc
     2161 agagtgagtg aacaggaata ttcaaagttg aaacagtcgg cagaaacttt gaatatgaca
     2221 gtgcctaatt tcgttaagaa aaaggcacaa ggcagtcgat tagtgtcgcc aaaattagac
     2281 aaagaaacgc gacaatcgat tgccaaagat ttaagtcatt tgggtagtaa tgtgaatcag
     2341 attgctaagt ggtttaatca aaataaagat aaggctacac atttaccaga agagaaatat
     2401 catgatttag aaaagcaatt tgatgatgtg aaaaaggagt tgcataagat atggcaacaa
     2461 ctaaattagg caatacgaag tcggcaagtc gtgccattaa ttacgcagaa gaacgtgcag
     2521 aagaaaaaag cggcttaaat tgtgatgttg attatgctaa atcatatttt aagcaaacta
     2581 gggcgttata tggcaaagag aatggtgttc aagcacatac agtcattcaa tcttttaagc
     2641 ctggcgaagt aacagctaaa gagtgtaatg agataggttt agaattagct aaaaaaattg
     2701 caccagatta tcaagttgca gtttatacac atacagacaa agaccattat cacaatcaca
     2761 ttattattaa ttcagtaaat ttagaaacag gcaacaagta tcagtcaaac aaagaacaac
     2821 gtgattttat aaaaaaggcg aatgatcagt tatgtgaaga acgtggttta tctgtgccag
     2881 aaaagtcatc agaaatcaga tatacgttgg cagaacagaa catgatagat aaagataaaa
     2941 ggtcatggaa aaatgatata agaatggcag ttgaagaaac aaaggataac gcagtagact
     3001 ttgaagaatt taatactttg ctaaaagaaa aaggtgttga aatcacgaga gtaacgaaaa
     3061 acaacgtaac gtatagacac attgaagaag ataaaaaagt acgtgggaat aagttgggcg
     3121 attcttatga caaaggagtg attgaaaatg gctttgcaat cgagaaattc agacgagaac
     3181 gagaagaaga acgagaatac gatgaatatg cagacacgtt cgaagttgac tgggacgcag
     3241 tcgcagaaaa ttcagaagac cttagaaaac gaagaattgc aagaactgaa gaaacaaaac
     3301 aagctagtaa taaaatatat atcagagatg aaagaacaac aggacttgag agaaaaggaa
     3361 ttgcaggcaa tcaagtcgag tttgaaaaag acgacggagg actttcaagg tagaggtaaa
     3421 aaagtccata atgattttgt tcgtttgtta caaaagaatt taaatcgagt gaatgcagaa
     3481 gatattgaga tagaggttcg aaaagatgtt tatggagttc gagaagaaat tcattcgatg
     3541 ttgcgtgaag ttaaacaatc acatgaacat tatcaaaaaa gacaaaagca attatttact
     3601 ggtattggtg caatgttatt agtgtttatg ctttttgctt tgattatgac gattggcaga
     3661 gattttatgg gctttttaca tgtagatgta ttacagaatg ccatagcaag caaaataaag
     3721 gcttctgagg gctttatttc agttttatgg tacattgctt atggtttacc ttatatactc
     3781 gctatagggc tatttatttg gttgtatgag tggataagag caagattcca tgattaaaca
     3841 aagtatgatc aggcttttat gccgagaaaa tttatttata ttgagaagta cccttaacta
     3901 aacttgcaga cgaatgtcgg catagcgtga gctattagcc cgaccattcg acaagttttg
     3961 ggtttgttaa gggtacagag gctcaatgta aataaagcaa ttggaataaa gcaacaaagg
     4021 gggttgaaga aaatgagtaa gaagaaaaag attaatttag caatatcaat tgctcaagta
     4081 gtagtgcagg cgttaatact ttataacact tatcagcaat ataaatattc taaaaaatat
     4141 tcagcctaat aaaaaaagac ttagtctgaa tagaccaagc cttttgttag tgttatatta
     4201 atatgcaaat aaaaaaacaa aaaaagaagt cgctcactcc ctgaccaaag tttgtgaatg
     4261 cgacttacct taaagaaaaa cagttggtgt ttttttctta atttttgtat atctagatat
     4321 taaacgatat tggtttattc ttcaagatat atattcgggt gagcgacttc ttaaacaaaa
     4381 taaggagtcg atttttt
//
