LOCUS       NZ_OX291727             4095 bp    DNA     circular CON 03-SEP-2023
DEFINITION  Serratia marcescens strain SJC1058 plasmid 4, complete sequence.
ACCESSION   NZ_OX291727
VERSION     NZ_OX291727.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMEA13201026
            Assembly: GCF_946411905.1
KEYWORDS    RefSeq.
SOURCE      Serratia marcescens
  ORGANISM  Serratia marcescens
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Yersiniaceae; Serratia.
REFERENCE   1
  CONSRTM   Pathogen Informatics
  TITLE     Direct Submission
  JOURNAL   Submitted (11-AUG-2022) WELLCOME SANGER INSTITUTE, Pathogen
            Informatics, Wellcome Sanger Institute, CB10 1SA, United Kingdom
COMMENT     ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 09/02/2023 08:08:11
            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)                     :: 5,389
            CDSs (total)                      :: 5,260
            Genes (coding)                    :: 5,180
            CDSs (with protein)               :: 5,180
            Genes (RNA)                       :: 129
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 89
            ncRNAs                            :: 18
            Pseudo Genes (total)              :: 81
            CDSs (without protein)            :: 80
            Pseudo Genes (ambiguous residues) :: 0 of 81
            Pseudo Genes (frameshifted)       :: 32 of 81
            Pseudo Genes (incomplete)         :: 51 of 81
            Pseudo Genes (internal stop)      :: 13 of 81
            Pseudo Genes (multiple problems)  :: 12 of 81
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            OX291727.1.
            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..4095
                     /organism="Serratia marcescens"
                     /mol_type="genomic DNA"
                     /strain="SJC1058"
                     /serovar="NA"
                     /isolation_source="Bloodstream"
                     /db_xref="taxon:615"
                     /plasmid="4"
     gene            complement(join(3756..4095,1..860))
                     /gene="mobQ"
                     /locus_tag="N4J70_RS26880"
     CDS             complement(join(3756..4095,1..860))
                     /gene="mobQ"
                     /locus_tag="N4J70_RS26880"
                     /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="MobQ family relaxase"
                     /protein_id="WP_259694932.1"
                     /translation="MALYRLEMQNVSRANGVSSVAKAAYRHRSVMIDKRTGEIHGEKSA
                     NRDDLVYAEILAPDNTPDFLIKSSNDLWGFVEQTEKRKDARTAKEFKITLAKELSNEQN
                     IALMKDFLLNHFVDKGIICDFVLHNDKDNKNPHAHVMITTREITPDGFGKKVREWDEEK
                     TLQQWRKDWAKVQNRHLKNAGLKSRVSHRTLEAQKNIMIDLAKKAEDAKDFDKSILYLA
                     KAIELDRPPMQNLSRKKWRTKEGQEQRKRDQAIRDKAREDARAFRLLRGVAVVDVASFV
                     VHPLEKKEHSKNNDFSVKKSWWRSTVNFIKNIKAKFSTKKDIKNDVHASDDLMTDPVTG
                     LIITKQKWQEMSDRASQKAPEAAISYKVRQSDGEELKTSQNALQSDLDSVAVRRRRPKI
                     "
                     /name="mobQ"
     gene            1155..1550
                     /locus_tag="N4J70_RS26885"
                     /old_locus_tag="SAMEA13201026_05348"
     CDS             1155..1550
                     /locus_tag="N4J70_RS26885"
                     /old_locus_tag="SAMEA13201026_05348"
                     /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_128542756.1"
                     /translation="MDKKEIEKRLLIFISEIDIEDIKNDFINDEVNEDVFNRCLKLYYA
                     IDDAIYNNKKSLFEALIYLINKDRENKDHDETIITDYDLVYLTLNNYINIYELKRLFLL
                     QKNINDFDFKSMISEIEKIKREVENGK"
                     /name="hypothetical protein"
     gene            1540..1818
                     /gene="traD"
                     /locus_tag="N4J70_RS26890"
                     /old_locus_tag="SAMEA13201026_05349"
     CDS             1540..1818
                     /gene="traD"
                     /locus_tag="N4J70_RS26890"
                     /old_locus_tag="SAMEA13201026_05349"
                     /inference="COORDINATES: protein motif:HMM:NF018152.3"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="conjugal transfer protein TraD"
                     /protein_id="WP_064184314.1"
                     /translation="MGSKKTLEQRMALAQDRLSKLKKEASEKERKAREHIKFKAGGEVT
                     RVFGLDYDEAVLLGFLAIYDKLKPEQKAQIKIDGENIIKSRLENADK"
                     /name="traD"
     gene            1951..2226
                     /locus_tag="N4J70_RS26895"
                     /old_locus_tag="SAMEA13201026_05350"
     CDS             1951..2226
                     /locus_tag="N4J70_RS26895"
                     /old_locus_tag="SAMEA13201026_05350"
                     /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_250249574.1"
                     /translation="MSQKKEQKTAEKPTAGPLRKHRSRTEKIDDLKKQISDLRKAEREE
                     RQRARNEILLAVGKAVYEKAGKPKNIYGLQQYVESEEFKVDFKNDF"
                     /name="hypothetical protein"
     gene            complement(2242..2514)
                     /locus_tag="N4J70_RS26900"
     CDS             complement(2242..2514)
                     /locus_tag="N4J70_RS26900"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000125721.1"
                     /GO_function="GO:0003677 - DNA binding [Evidence IEA];
                     GO:0003700 - DNA-binding transcription factor activity
                     [Evidence IEA]; GO:0016987 - sigma factor activity
                     [Evidence IEA]"
                     /GO_process="GO:0006352 - DNA-templated transcription
                     initiation [Evidence IEA]; GO:0006355 - regulation of
                     DNA-templated transcription [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="sigma factor-like helix-turn-helix DNA-binding
                     protein"
                     /protein_id="WP_072159717.1"
                     /translation="MAALEQTKRKKPAKYFAEKMGVSVRTVKRYIAQPRKDYESEAENR
                     RKTAYTLHHEKGLKWREVAEKMNTTEHAVKALAKRYKQIDQIERG"
                     /name="sigma factor-like helix-turn-helix DNA-binding
                     protein"
     gene            complement(2519..3376)
                     /locus_tag="N4J70_RS26905"
                     /old_locus_tag="SAMEA13201026_05351"
     CDS             complement(2519..3376)
                     /locus_tag="N4J70_RS26905"
                     /old_locus_tag="SAMEA13201026_05351"
                     /inference="COORDINATES: protein motif:HMM:NF015076.3"
                     /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_259694931.1"
                     /translation="MILQKEYSRSDFINQIISRPFCTDDFKRDGIYRTNKRRALNSVYI
                     EHNNDSFINSIVFDIDSDTAAIAWQDADIPKPNFITQNPANGHAHLFYALSSPVCITEN
                     ARRKPQKLLKGVIEGLTERLGADPCYTGKITKNPLNPRWRTFWNEQPRFELNYLCEFID
                     TNKRVKKEVRKSIVAEGRNTALFDSLRFYAYSIIFKYQKNDDFCGFMSALEEEAEHIND
                     SFEDQLGFKEINHTIRSISSWVWGTFDSDTFSEIQSNRAKKAKGKIKSKTKNKLSRILM
                     INEE"
                     /name="replication initiation protein"
     Typing          complement(4..770)
                     /name="MOBQ"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="89.062"
                     /coverage="92.0"
                     /evalue="3.98e-115"
     Typing          complement(3793..4094)
                     /name="MOBQ"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="84.158"
                     /coverage="92.0"
                     /evalue="8.95e-45"
ORIGIN
        1 ttctccaaag gatgaaccac gaatgaagca acatcaacaa ctgcaacacc cctcaacaac
       61 ctgaaagccc ttgcatcttc tcttgccttg tctctgatcg cttggtcacg tttgcgttgc
      121 tcctgacctt cttttgtcct ccatttttta cgtgataggt tctgcatcgg tggtcgatct
      181 agttcaatag cttttgctag atataaaata gacttgtcaa aatcttttgc atcttctgct
      241 tttttagcta aatcgatcat tatatttttt tgtgcttcca atgttctatg actaacacga
      301 gattttaagc ctgcattttt taaatgccta ttttgaactt ttgcccaatc tttacgccat
      361 tgttgaagcg ttttttcttc atcccattca cgtacctttt ttccgaaccc atcgggcgtt
      421 atttctcttg ttgtaatcat aacgtgtgca tgtgggtttt tattatcttt atcattatgt
      481 aaaacaaagt cacatataat gcctttatca acgaaatgat ttaataaaaa atctttcatt
      541 aatgcgatgt tttgttcatt cgataattct tttgctaaag taattttgaa ttctttcgcc
      601 gttctagcat ccttcctctt ctctgtttgt tcgacaaaac cccataaatc gttactcgat
      661 ttaatgagaa aatctggcgt gttatctggt gctaatattt cagcataaac cagatcatca
      721 cggttagctg atttctcgcc gtgtatttct ccggttcgtt tatctatcat gacggaacga
      781 tgacgataag ccgcctttgc aactgagctg acaccatttg cacggcttac gttctgcatt
      841 tctaatctat ataaagccat ctaatacctc acatataaga acccctattt ttgttttggg
      901 tttgggtttt agtttttcgt aagaaaaaca ggttttagcc gtcggcagac cccggcattg
      961 tttacaatgc gtaaccgggc attccttagc ttttattttt cgctaacgct caaactaaaa
     1021 gaggaatgaa aaccaaacta gcttttcttt cactgatata tataaattaa ctctgattaa
     1081 attaaagtca aatttgacaa tatttaaaag ttacgatatt gaataaaaaa caagcattat
     1141 agattggtgg taaaatggat aaaaaagaaa tagaaaaaag gctattgatt tttataagcg
     1201 agatcgatat tgaagatatt aaaaacgatt tcattaatga cgaagttaat gaagatgttt
     1261 ttaataggtg tttaaagctg tattacgcta tcgatgatgc aatctataac aataaaaaat
     1321 cattgtttga agcgttgata tatttgataa ataaagatcg tgaaaataaa gaccatgatg
     1381 aaacaattat aactgattat gatcttgttt atttaacact aaataattac ataaatatct
     1441 atgagctgaa aaggttgttc ttattacaaa aaaatatcaa tgattttgat tttaaaagta
     1501 tgatttcaga gatagaaaaa attaaaagag aggttgaaaa tgggaagtaa aaaaacgtta
     1561 gaacaaagaa tggcacttgc acaagataga ttatctaaac ttaaaaaaga agcgtcagag
     1621 aaagaaagaa aagctagaga gcatataaaa tttaaagccg gaggagaagt tactagagtc
     1681 ttcggattag attatgatga agccgttttg ctgggttttc tagctatcta tgacaagctg
     1741 aaacctgagc aaaaagcaca gataaaaatt gatggtgaaa acatcataaa atcacgtcta
     1801 gaaaacgctg acaagtgaca gatttccaat ctgacacttg gaagggttga acaagcaaga
     1861 acccgccgct ggcggggctt gtgcgttagt attcacgata gcccggcttt gtggtatgtt
     1921 taaaaaacat atcatccggg agagtaaaaa atgtctcaaa aaaaagagca aaaaacagca
     1981 gaaaaaccaa ctgcagggcc acttcgtaaa cacagatcta gaactgaaaa aatagacgat
     2041 ttgaagaaac agattagtga cctgagaaaa gcagaaagag aagaacgcca aagggctaga
     2101 aatgaaatat tattggctgt tggtaaagct gtttacgaaa aagcagggaa accgaaaaat
     2161 atatatggct tgcagcaata tgtagaatca gaagaattta aagtggattt taaaaacgat
     2221 ttctaaccat gaaggggcat cctagcccct ttcgatttgg tctatttgtt tatatctttt
     2281 ggctaatgct ttaactgcat gttctgttgt attcattttt tcagctactt cacgccattt
     2341 taaacctttt tcatgatgta atgtataagc tgtttttctt ctgttttcag cttctgattc
     2401 ataatctttt cttggttgtg caatatatct tttaactgtt ctaacactaa cgcccatttt
     2461 ttcagcgaaa tatttcgcag gtttttttct ttttgtttgt tctaatgctg ccatttttct
     2521 actcctcatt aatcattaaa attctagata gtttattttt tgtttttgat tttatttttc
     2581 ctttagcttt ctttgctctg ttgctttgta tttcgctgaa agtatcacta tcaaaagtcc
     2641 cccacaccca agaagaaatg cttcttattg tgtgatttat ttctttaaag cctagttgat
     2701 cttcaaatga atcatttatg tgttcagctt cttcttctaa tgctgacatg aaaccgcaaa
     2761 aatcgtcatt tttttgatat ttaaaaatta tgctgtaagc gtaaaaacgc agactatcaa
     2821 ataacgctgt atttcttccc tctgcaacta ttgattttct tacttctttt tttactcttt
     2881 tatttgtatc tatgaactca catagatagt tcaattcaaa tcttggttgt tcgttccaaa
     2941 atgtacgcca tctcggattg agagggtttt ttgttatctt gcccgtataa catggatctg
     3001 cacctaacct ttccgtgagt ccttctataa cgccttttaa taacttttgc ggctttcttc
     3061 tggcgttttc tgttatacaa acgggagacg ataaagcata aaacaaatga gcgtgaccat
     3121 tagccggatt ttgagttata aagttaggtt tcggtatatc tgcatcttgc catgcaatag
     3181 cagctgtatc gctgtcaata tcaaacacaa tagagttaat aaagctatcg ttgttgtgtt
     3241 caatataaac gctgtttaaa gctcgtcttt tgtttgttct ataaataccg tctcttttga
     3301 agtcgtcagt gcagaaaggt cttgatataa tttgatttat gaaatcactt ctgctatatt
     3361 ctttttgtag tatcattttt taatacaatc cttttattgt agatccctga ttttctcctg
     3421 tcgccaaaca ttcggaaatc agggattttt gtttttatat tttatattac tgttctaaca
     3481 gaacctttca tggtgtcaag agtgtcaccc aaaaaaagtg tcaagaggga cgattagcca
     3541 tatcaggtaa taatgggttt ggggggtatt tttgcgaagc acaggccgaa ggcttcaaat
     3601 cattacaagt taagctatag cctgaaccca taaggccgga ggctatgagc gaagccctgt
     3661 aatcttatgc aggatctggc tgtgctggtt agctgagaac cgcaccggct ctatggtata
     3721 tgcacatcac ttcctgaaac tcgaccaccc tgcagctaga tcttcggtct gcgtcttcta
     3781 actgcaacac tgtctaaatc gctctgtaac gcattctgag acgtttttag ctcttccccg
     3841 tccgattgcc ttaccttgta cgaaatcgca gcttctggtg ctttctgtga agctctgtca
     3901 ctcatctctt gccatttttg cttcgtaata atcaaaccag tcactggatc agtcattaaa
     3961 tcgtctgatg catgtacatc gtttttaata tcttttttag ttgagaactt agctttaata
     4021 ttttttataa aattaacagt agaacgccac cacgattttt taactgaaaa atcattattt
     4081 tttgaatgct ctttt
//
