LOCUS       NZ_CP104459             5065 bp    DNA     linear   CON 04-OCT-2023
DEFINITION  Raoultella ornithinolytica strain MQB_Silv_108 plasmid
            pMQB_Silv108.3, complete sequence.
ACCESSION   NZ_CP104459
VERSION     NZ_CP104459.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN30696136
            Assembly: GCF_025349945.1
KEYWORDS    RefSeq.
SOURCE      Raoultella ornithinolytica
  ORGANISM  Raoultella ornithinolytica
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Klebsiella/Raoultella group; Raoultella.
REFERENCE   1  (bases 1 to 5065)
  AUTHORS   Quintela-Baluja,M.
  TITLE     Multidrug resistance Raoultella ornithinolytica Strain MQB_Silv_108
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 5065)
  AUTHORS   Quintela-Baluja,M.
  TITLE     Direct Submission
  JOURNAL   Submitted (06-SEP-2022) Analytical Chemistry, Nutrition and Food
            Science. School of Veterinary Sciences, University of Santiago de
            Compostela, Carballo Calero, s/n, Lugo, Lugo 15704, Spain
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Date                     :: 2022
            Assembly Method                   :: Unicycler v. v0.5.0
            Assembly Name                     :: MQB_Silv_108
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 148.0x
            Sequencing Technology :: Illumina HiSeq; Oxford Nanopore MinION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 10/04/2023 05:03:48
            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)                     :: 6,209
            CDSs (total)                      :: 6,085
            Genes (coding)                    :: 5,945
            CDSs (with protein)               :: 5,945
            Genes (RNA)                       :: 124
            rRNAs                             :: 9, 8, 8 (5S, 16S, 23S)
            complete rRNAs                    :: 9, 8, 8 (5S, 16S, 23S)
            tRNAs                             :: 86
            ncRNAs                            :: 13
            Pseudo Genes (total)              :: 140
            CDSs (without protein)            :: 140
            Pseudo Genes (ambiguous residues) :: 0 of 140
            Pseudo Genes (frameshifted)       :: 44 of 140
            Pseudo Genes (incomplete)         :: 98 of 140
            Pseudo Genes (internal stop)      :: 26 of 140
            Pseudo Genes (multiple problems)  :: 25 of 140
            CRISPR Arrays                     :: 1
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP104459.1.
            Bacteria and source DNA available from marcos.quintela@rai.usc.es.
            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..5065
                     /organism="Raoultella ornithinolytica"
                     /mol_type="genomic DNA"
                     /strain="MQB_Silv_108"
                     /isolation_source="wastewater"
                     /db_xref="taxon:54291"
                     /plasmid="pMQB_Silv108.3"
                     /geo_loc_name="Spain"
                     /collection_date="2015"
                     /collected_by="MQB"
     gene            <1..392
                     /locus_tag="N2J37_RS30890"
                     /old_locus_tag="N2J37_30890"
     CDS             <1..392
                     /locus_tag="N2J37_RS30890"
                     /old_locus_tag="N2J37_30890"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_006674366.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=3
                     /transl_table=11
                     /product="protein MobB"
                     /protein_id="WP_260990892.1"
                     /translation="LETSISAELQSSAQSISNAIREQNGRLTGMLRKSVSTAMAWIFIC
                     FALLIGIMGGIIWFQGTIITSRLSEMDSYSQQLASLKAKSGAGVTIYSDEKNRNTYLAV
                     LPKQAHGVETYTSQAGNTVVKYTAK"
                     /name="protein MobB"
     gene            453..686
                     /locus_tag="N2J37_RS30895"
                     /old_locus_tag="N2J37_30895"
     CDS             453..686
                     /locus_tag="N2J37_RS30895"
                     /old_locus_tag="N2J37_30895"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_016946053.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MbeD family mobilization/exclusion protein"
                     /protein_id="WP_114474872.1"
                     /translation="MTEMEKQLLSALESLQAGYEQQQQAWQDSYSSLQHMFEATSQALT
                     HSDRVCQHLSSQVDSLRAQVESLSRNVSRLMR"
                     /name="MbeD family mobilization/exclusion protein"
     gene            842..1174
                     /locus_tag="N2J37_RS30900"
                     /old_locus_tag="N2J37_30900"
     CDS             842..1174
                     /locus_tag="N2J37_RS30900"
                     /old_locus_tag="N2J37_30900"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_015873600.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="type II toxin-antitoxin system RelE/ParE family
                     toxin"
                     /protein_id="WP_001715142.1"
                     /translation="MSHTIEFIETPMFTRQIKQIATDEELRELQKTLIESPDKGDLIQK
                     TGGLRKVRMATGNQGKSGSARVIYFLATAEVIYLVMAYPKSTKDSLTDAEKAALKTLTQ
                     QLKDEV"
                     /name="type II toxin-antitoxin system RelE/ParE family
                     toxin"
     gene            1176..1460
                     /gene="nadS"
                     /locus_tag="N2J37_RS30905"
                     /old_locus_tag="N2J37_30905"
     CDS             1176..1460
                     /gene="nadS"
                     /locus_tag="N2J37_RS30905"
                     /old_locus_tag="N2J37_30905"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000007431.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="NadS family protein"
                     /protein_id="WP_001697687.1"
                     /translation="MSFFDELKASLEEAVEIKNGVREPARVTRYELADVKAIRAQLNVS
                     QSEMAKVLGTSLDTIKSWETGRRNPTGLAAKVLATIQANPKFFQELAAH"
                     /name="nadS"
     gene            1654..2556
                     /locus_tag="N2J37_RS30910"
                     /old_locus_tag="N2J37_30910"
     CDS             1654..2556
                     /locus_tag="N2J37_RS30910"
                     /old_locus_tag="N2J37_30910"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001517860.1"
                     /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_139565497.1"
                     /translation="MHNAALTLFNDRLPHKPYFSDDLHFGVRIAGKERAILAKYIQFNQ
                     PHAMFWLGFDVDRAGAAIDWSDRNAPAPTLTITNPDNGHAHLLYALKTSIRTAPDGKIK
                     PLRYAAAVENALRKKLEADAGYSGLICKNPNHGHWKIAVWQPELYTLDWLADFLDLNAA
                     NDKEIVADYGLGRNCTLFDRTRKWAYRAIRQGWPEYDQWLQACYERASAYNLQFAAPLD
                     DNEVNGIAKSIAKWTSIKITESSFKEYVEKTHTSDIQSLRGKKSKGGGRPFNPESLTSK
                     KPWLSMGISRSTYYRQLKR"
                     /name="replication initiation protein"
     gene            2559..3734
                     /locus_tag="N2J37_RS30915"
                     /old_locus_tag="N2J37_30915"
     CDS             2559..3734
                     /locus_tag="N2J37_RS30915"
                     /old_locus_tag="N2J37_30915"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_011217640.1"
                     /GO_function="GO:0005525 - GTP binding [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="GTPase"
                     /protein_id="WP_114447050.1"
                     /translation="MASSYEDFLGDSYDYNSQTFDADKAKQEAEEKKERFNIILFGATG
                     VGKSSLVNAVFGEEIVKSGVGKPVTQHLSKIKVPKKGMVLWDTKGIESKDYEETINQLK
                     KEIKSSFDNYSHLDDVPHLGWMCIDASGARVEPRDIELIGILKEYDIPIVIVFTKTLED
                     DTDEFVREAINEIDSHHGSYVSGNYVCVNSRERKIGKFTVPVSGLDELVDSSFKCLPEA
                     KRGAKQALKKAQMVKMGERLEAMKSGARNIVHGASAAAGAVGASPIPGSDAPLIAAVQS
                     GMIYKINSEFELDTSTSTTTSVVAGILGITAVAQVGKAVVSNALKFIPGVGSLIGGAIS
                     AATAVALTQAVGHAYIQVLVSYYNKETGIVELPESTTSILSVFKEHFSFKK"
                     /name="GTPase"
     gene            3968..4294
                     /locus_tag="N2J37_RS30920"
                     /old_locus_tag="N2J37_30920"
     CDS             3968..4294
                     /locus_tag="N2J37_RS30920"
                     /old_locus_tag="N2J37_30920"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_006674374.1"
                     /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_114505637.1"
                     /translation="MEKRTKEIKIRLTETEHQRLLDRCDRAHLAEWLRQLGLGEHTSRR
                     RRVPEVAPELLRQVSGIGNNLNQIARRLNQTDSLTPSERASLLVVLTSLDRQLGDLLEQ
                     NRDR"
                     /name="MobC family plasmid mobilization relaxosome protein"
     gene            4503..>4925
                     /locus_tag="N2J37_RS30925"
                     /old_locus_tag="N2J37_30925"
                     /pseudo=""
     CDS             4503..>4925
                     /locus_tag="N2J37_RS30925"
                     /old_locus_tag="N2J37_30925"
                     /inference="COORDINATES: protein motif:HMM:NF015397.3"
                     /note="incomplete; partial in the middle of a contig;
                     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            4972..>5065
                     /locus_tag="N2J37_RS30930"
                     /old_locus_tag="N2J37_30930"
     CDS             4972..>5065
                     /locus_tag="N2J37_RS30930"
                     /old_locus_tag="N2J37_30930"
                     /inference="COORDINATES: protein motif:HMM:NF016710.3"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MbeB family mobilization protein"
                     /protein_id="WP_260990893.1"
                     /translation="MSEILNLAKGFEEKSKQQAQDTEQSVKREFA"
                     /name="MbeB family mobilization protein"
     Typing          complement(4103..4294)
                     /name="Col(Ye4449)"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="80.412"
                     /coverage="99.0"
                     /evalue="6.72e-33"
     Typing          9..778
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="86.873"
                     /coverage="96.0"
                     /evalue="6.17e-116"
     Typing          4285..5003
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="98.333"
                     /coverage="96.0"
                     /evalue="3.02e-155"
ORIGIN
        1 ggctggagac gtctatcagc gcggaactgc aatcaagcgc gcagagcatc agcaacgcta
       61 tccgcgagca gaacggcagg ctgacgggca tgctcaggaa gtcagtctca acagcaatgg
      121 cgtggatatt catctgcttc gccctgctga tcggcatcat gggcgggata atctggtttc
      181 agggcacgat catcacctca cgcctgagcg agatggacag ctacagccag cagctggcga
      241 gcctgaaagc gaaaagcggc gcgggcgtga cgatttacag cgacgaaaag aaccggaaca
      301 cctacctggc ggtgctgccg aagcaggcgc acggcgtgga aacctacacc tcgcaggccg
      361 ggaataccgt ggtgaaatac acggcgaaat aacctcatca gagcgccctg aaacgccaca
      421 gcatgttttt aacaccgagg atgaccaaaa ccatgaccga gatggaaaaa cagcttctga
      481 gcgccttaga gagcttacag gcaggctacg agcaacagca gcaggcgtgg caggacagct
      541 acagcagttt gcagcacatg ttcgaggcta cctcacaggc gctgacgcac agcgaccggg
      601 tgtgtcagca cttgagcagt caggtggaca gcttgcgcgc gcaggtcgag agcttgagca
      661 ggaacgtcag ccgcttgatg cgctgattgc gcagcatgac cgcgcccgtg cggaaaagct
      721 gcgcgagcaa cagccggagc cgcagaaaaa gccgacccgg tactatggcc cctcgatgtg
      781 acctcttttc cggaatcaga attaagtgta ctatgtactc cgttaaatac aggagacaac
      841 cgtgagtcac acgattgaat ttatcgagac cccgatgttt acccgtcaga taaaacagat
      901 cgccacggat gaagagctca gggagctgca aaagacgctg attgagtcgc cggacaaagg
      961 cgatctcatc cagaaaaccg gcgggctgcg aaaagtcaga atggcgacgg gcaaccaggg
     1021 aaaaagcggc agcgcgaggg tgatttattt tctggccacc gccgaggtga tttatctggt
     1081 gatggcctac ccgaaaagca ccaaagacag cctgacggac gcggagaaag ccgcgctgaa
     1141 gacgctgacc caacaactga aagacgaggt gtgacatgag tttttttgac gagctgaaag
     1201 catcgctgga agaagccgtt gaaatcaaaa acggcgtcag agagcctgcc cgcgtcaccc
     1261 gttacgagct ggcagacgtg aaggctatca gggcacaact gaacgtttca cagagtgaga
     1321 tggcgaaagt gctgggaacc agcctcgaca ccataaaaag ctgggaaacc ggacgccgta
     1381 atccgaccgg actggcggcg aaggtgctgg caaccatcca ggcgaacccg aaattcttcc
     1441 aggagctggc ggcgcactaa gccgttgtga cagaaggatt cgacaggcga ggccgttcgc
     1501 gtgtaattta acggcaacag aaaaaacaaa gccccggcat catgctcaaa tcttggcgga
     1561 tccgcatgat aaccagggcc aggtacgaaa ccttgaaagg atattagcac atgaaacgtg
     1621 ccagacaaca gcccgccata agcgcagggc gcattgcata acgccgcact cacactcttc
     1681 aacgaccgct taccgcacaa gccgtacttt tcggacgatc tgcattttgg tgtacggatt
     1741 gccggtaagg aacgcgccat tctggcgaaa tacatccagt ttaatcagcc tcacgccatg
     1801 ttctggctgg gattcgacgt cgatcgcgcc ggtgccgcca tcgactggag cgatcgcaac
     1861 gcccccgcgc ctacgttgac catcaccaac cccgacaacg gacatgcgca cctgctgtac
     1921 gcgttgaaaa cctcgatacg caccgcaccg gacggaaaaa taaagccatt gcgctacgcc
     1981 gccgccgttg agaacgcgct acgcaaaaaa ttagaggctg acgcggggta ttcggggcta
     2041 atctgcaaaa atccgaacca cggccactgg aaaattgccg tatggcaacc tgaactttac
     2101 acgctggact ggctggctga ctttctcgac ctgaatgcgg cgaacgacaa agaaatcgtt
     2161 gctgactacg gtttaggccg taactgcacc ctgttcgaca gaacccgcaa gtgggcatac
     2221 cgcgctatcc gtcagggctg gcctgagtat gaccagtggc ttcaagcctg ctacgaacgc
     2281 gccagtgcct ataacctgca atttgcagca ccactggatg ataatgaggt gaacggtatt
     2341 gctaaaagca ttgctaagtg gacgagtata aaaataacag aatcatcttt taaagagtat
     2401 gtagaaaaaa cacatacatc cgatatccag tctttacggg gtaaaaagag taaaggtggt
     2461 ggacgacctt ttaatcctga gtccttaaca tcaaaaaaac catggctaag catggggata
     2521 agtagaagca cgtattatcg acaattaaag aggtaactat ggctagttct tatgaagact
     2581 ttttaggcga ttcttatgac tacaactcac aaactttcga tgctgacaaa gcaaaacagg
     2641 aagcagaaga aaaaaaagaa agatttaata ttatattgtt cggtgccact ggcgttggga
     2701 aaagctcctt agttaatgct gtttttgggg aggaaatagt caagtctgga gtgggtaaac
     2761 cagttactca gcatctgagt aaaattaaag ttcccaaaaa aggaatggta ttatgggaca
     2821 ctaaagggat tgaatctaaa gattatgaag aaacaataaa tcaattaaaa aaagaaatta
     2881 aatctagctt tgataactac tcacacttgg atgatgttcc tcaccttggt tggatgtgca
     2941 ttgatgcttc tggcgccaga gttgaaccaa gagatataga gcttatcggg atattaaaag
     3001 aatatgacat acctattgta attgtattca ctaaaactct tgaagatgac actgatgaat
     3061 ttgttcgcga ggctatcaat gaaattgata gccatcatgg aagttatgtt tctggtaact
     3121 atgtttgtgt taattcaaga gaaagaaaaa tagggaagtt tactgttcca gtaagtggtt
     3181 tggatgagtt agttgactcg agttttaaat gtcttccaga agctaagaga ggtgcaaagc
     3241 aagccttaaa aaaggctcaa atggttaaga tgggagaacg gcttgaagcc atgaaaagtg
     3301 gcgcgagaaa catcgttcat ggagcgtcag cagcagctgg agctgtcgga gcttctccta
     3361 ttccggggtc tgatgcgccg ttaattgcag ctgtacaaag tggaatgata tataaaataa
     3421 actctgagtt tgaattggac acatctacat caacaactac atctgttgta gcaggcattc
     3481 ttggtattac agctgttgct caagtaggta aggctgttgt ttctaatgcg ttaaaattta
     3541 ttcctggtgt aggttccctt attggtggtg ccatttctgc agctactgct gtagctctta
     3601 cccaagccgt aggtcatgct tacatccaag ttctggtttc ctactacaac aaagaaaccg
     3661 ggatcgtcga gttgccggaa agtaccactt caatactctc tgtctttaaa gagcattttt
     3721 ccttcaaaaa atagcgttga gacaataaca acctatatca gataacagcc ccgtataagc
     3781 ggggcttttt tttttgcagt cagcacagaa tctgacatac tgcattactc tttaagccag
     3841 tacacacagc gtcccctcta gcgaggtgcc accgtgactg gttcaggggg ctcgccgccc
     3901 cccgaaaccc ctggcatcca ctgcgaaaaa ttctcacggt ggtgcgaatt ttttctcagc
     3961 ggagcctatg gaaaagcgaa cgaaagagat caaaatccgt cttactgaaa ctgagcatca
     4021 gcgactgctt gatcgctgcg accgggctca tcttgcggag tggctgcgtc agcttggttt
     4081 gggagaacac acctcacgca ggcgccgtgt gccagaggtt gcgcccgaac tgctgcgaca
     4141 ggtcagcggg attggcaaca acctgaacca gatagcccgc cgcctgaacc agactgattc
     4201 cctgacgccg tctgaacgtg cctcgctgct tgtcgtactg accagccttg accggcagct
     4261 tggcgacctg ctggagcaga accgtgatcg ttaaaattca ctcacgcggt gcgggttccg
     4321 gcagtggtcc ggtggattac ctgctgggta aagaccggca gcgcgaacag gccagcgtac
     4381 tgcgcggcaa ccctgaacat gtgcgcgaac tgatcgacgg ctgcgacttt gcccgcgcct
     4441 acacctccgg cgtgctgtca ttccaggaac ctgacattgc agacgcggag aaatcgcgcc
     4501 tgatggatga atgggagcac acgctgctga ccggcctcga ccgcgaccag tacacctgcc
     4561 tgtgggtgga gcaccgcgac aagggacggc ttgagctgaa ttttgtcatc ccgaacatcg
     4621 aattgcagag cggcaaacgc ctgcaaccct actttgaccg cgctgaccgc ccccgtgtca
     4681 atgcctggca gaccctgacc aacgaccgac tggggctgcg cgacccgaac gacccgactt
     4741 accgccgccc gctgacgcag gccagtgatc tgccccgcga caaacagcag gcggcagaga
     4801 aaatcaccgc cggcctgatg aacctgatgc agcagggcgt gatccgcagc cggcaggacg
     4861 tggtgacgca gctggaaagc tacggcctga ccgtggcgcg ggaaactaaa agcagtatca
     4921 gcattgccga tccggacggc ggccgaaata tccggctgaa aggaatgatc tatgagcgag
     4981 attttaaatt tggcgaaggg cttcgaggag aaatcgaagc agcaggcgca ggataccgag
     5041 cagagcgtga agcgcgagtt cgcga
//
