LOCUS       NZ_CP104460             4665 bp    DNA     linear   CON 04-OCT-2023
DEFINITION  Raoultella ornithinolytica strain MQB_Silv_108 plasmid
            pMQB_Silv108.4, complete sequence.
ACCESSION   NZ_CP104460
VERSION     NZ_CP104460.1
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 4665)
  AUTHORS   Quintela-Baluja,M.
  TITLE     Multidrug resistance Raoultella ornithinolytica Strain MQB_Silv_108
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 4665)
  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
            CP104460.1.
            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..4665
                     /organism="Raoultella ornithinolytica"
                     /mol_type="genomic DNA"
                     /strain="MQB_Silv_108"
                     /isolation_source="wastewater"
                     /db_xref="taxon:54291"
                     /plasmid="pMQB_Silv108.4"
                     /geo_loc_name="Spain"
                     /collection_date="2015"
                     /collected_by="MQB"
     gene            605..928
                     /locus_tag="N2J37_RS30935"
                     /old_locus_tag="N2J37_30935"
     CDS             605..928
                     /locus_tag="N2J37_RS30935"
                     /old_locus_tag="N2J37_30935"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000957083.1"
                     /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_007772081.1"
                     /translation="MLTMWVTEDEHRRLLERCDGRQLAAWMRQTCLDEKPARSGKLPSI
                     SPALLRQLAGMGNNLNQIARRVNAGGGTGHDRVQIVAALMAIDAGLERLRHAVLEKGTD
                     DDR"
                     /name="MobC family plasmid mobilization relaxosome protein"
     gene            1137..>1571
                     /locus_tag="N2J37_RS30940"
                     /old_locus_tag="N2J37_30940"
                     /pseudo=""
     CDS             1137..>1571
                     /locus_tag="N2J37_RS30940"
                     /old_locus_tag="N2J37_30940"
                     /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            1606..2091
                     /locus_tag="N2J37_RS30945"
                     /old_locus_tag="N2J37_30945"
     CDS             1606..2091
                     /locus_tag="N2J37_RS30945"
                     /old_locus_tag="N2J37_30945"
                     /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_012565228.1"
                     /translation="MNSLLTLAKDLEQKSKAQQQNTGEMLKAAFSEHEKSVKAELNESA
                     KRISAAILDHDRKLSSAMSQRTKGMVRMVSQTWLTIVLVSALLIASSAGILWWQGQQIL
                     DNYTTIREQKSTQAMLSERNSGVQLSTCGEQRRRCVKVNPEAGRFGEDSSWMILAGK"
                     /name="MbeB family mobilization protein"
     gene            2095..2310
                     /locus_tag="N2J37_RS30950"
                     /old_locus_tag="N2J37_30950"
     CDS             2095..2310
                     /locus_tag="N2J37_RS30950"
                     /old_locus_tag="N2J37_30950"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000137422.1"
                     /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_012565230.1"
                     /translation="MTELEKQLLSALEQLQQDYSKRLDEWESAFAEWRTMSGLMLRENA
                     ALSERVTGLSRQVQSLSEQLRRLSSD"
                     /name="MbeD family mobilization/exclusion protein"
     gene            2656..4212
                     /locus_tag="N2J37_RS30955"
                     /old_locus_tag="N2J37_30955"
     CDS             2656..4212
                     /locus_tag="N2J37_RS30955"
                     /old_locus_tag="N2J37_30955"
                     /EC_number="2.7.7.65"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_015589620.1"
                     /GO_function="GO:0052621 - diguanylate cyclase activity
                     [Evidence IEA]; GO:0046872 - metal ion binding [Evidence
                     IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="sensor domain-containing diguanylate cyclase"
                     /protein_id="WP_032993376.1"
                     /translation="MRIKKPHLRPIVITLSVGGILLTSIFLIAVIMVFQRENIEKDLLY
                     ANSSYAMKMSDVMSGYIEMAQGELAYGAKKIKSTNDIDSLKDEADRLRLQSGMFNSVLV
                     VSNDAVVLATSPESLDLVGTRLNSSASKLAIEEKKPFISSPLKSVTGNLIILLSHPIYD
                     KGGNYIGYVGGSIYLKKHNLFGDVLSRHFFKNNTEISIVSDDGNVIFNNDKSAVDRPMV
                     MSDDLKSKLTASDRGEGAFFSSGHRYLLGYASMKNTAWNVLVYSRADSVTTILIAYAKS
                     VLVLLIIIIIVFSLISYFIASSISLPLEKLAISTNAKDIGASLVYIKAINAWYAEADRL
                     KKALFTYIKVMMERVDFLNEVALKDPLTGVNNRLGFLSKIQNHKRDSGYSVIVIDVDFF
                     KEINDSFGHGVGDEVLVSLAHIINSCCRSEDVVCRFGGEEFVVFLPNTSVVTAKCVAER
                     IRSVIESTVFPNNLRVTISAGVATQDDPLGRIDFLLKNADDALYQAKREGRNKVIVYSA
                     I"
                     /name="sensor domain-containing diguanylate cyclase"
     Typing          319..492
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="98.857"
                     /coverage="100.0"
                     /evalue="5.54e-83"
     Typing          complement(3..395)
                     /name="rep_cluster_2335"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="93.182"
                     /coverage="91.0"
                     /evalue="7.01e-162"
     Typing          4425..4643
                     /name="rep_cluster_2392"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="85.52"
                     /coverage="82.0"
                     /evalue="1.91e-54"
     Typing          606..922
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="93.396"
                     /coverage="99.0"
                     /evalue="1.81e-61"
     Typing          919..2414
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="91.182"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 aggcgtggaa tgagataaac gcggccataa cagcggaatg acaccggtaa accgaaaggc
       61 aggaacagga gagcgcacga gggagccacc agggggaaac gcctggtatc tttaagtcct
      121 gtcgggtttc gccaccactg atttgagcgt cagatttcgt gatgcttgtc aggggggcgg
      181 agcctatgga aaaacggctt cgccgcggcc ttctcgcttc cctgttacgt tccttcctgg
      241 catcttccag gaaatttccg ccccacctgt aagccggcac cgctcgccgc agccgaacga
      301 ccgagcgcag cgagtcagtg agcgaggaag cggaatatat cctgtatcac atattctgct
      361 gacgcgccgg tgccgccttt tttctcctgc cacatgaagc acttcactga caccctcatc
      421 cgtgccaaca tattaagcca gtatacactc cgctagcgct acgtgactgg ttcagggctg
      481 cgccccgaaa cccgccaaaa gcctgacgcg cctgcggctt gtccaacccc gtgccgaccg
      541 ggaaaggttt tcccgcccgt cccggcgtta tcaggagacc ggtttgtcag agaaacggaa
      601 caagatgctc accatgtggg tgacggagga cgagcaccgg cggctgcttg agcgctgtga
      661 cggcaggcag ctggcggcgt ggatgcggca gacctgcctg gacgaaaagc cggcacgttc
      721 cggaaagctc ccctcaatct cgccggcgct gctgcgccag cttgccggca tgggcaataa
      781 cctgaaccag atagcccgcc gtgttaacgc cggcggcggt accggccatg acagggtgca
      841 gattgttgcg gcgctgatgg ccatcgatgc cggacttgag cggctgcggc acgccgttct
      901 tgagaaagga acggacgatg atcgttaaat ttcatccacg cggtcgcggc ggtggcgccg
      961 ggccggtgga ctatctgctg ggtaaagacc ggcagcgtga aggcgccacc gtcctgcagg
     1021 ggaagccgga agaagtccgg gagctgattg acgcgtcgcc ttacgttaag aaatacacct
     1081 ccggggtact gtcgtttgcg gaagcggatt taccttccgg ccagcgggaa aagctgatgg
     1141 caagctttga gcgggttctg atgcccggac ttgataaaga ccagtacagc atcctgtggg
     1201 tggagcatcg tgacaagggg cggcttgagc tgaattttct gatcccgaac acggagctgc
     1261 tgaccggcag acggctccag ccgtattacg atcgcgccga ccgtccacgc atcgatgcct
     1321 ggcagaccat cgtgaacggc agactggggc tgcacgaccc gaacgcaccg gagaaccggc
     1381 gggcactggt cacaccgtct gcactgccta aagcgaagca ggaggctgca gaagcgatta
     1441 cacgcggtct gcttgctctt gcctcatccg gggagctgaa aacccgtcag gatgtcactg
     1501 aggcgctgga aagcgcaggt tttgaggtgg tccgcaccac aaaaagcagt atcagcattg
     1561 ccgacccgga cggggggcga aacatccgac tgaagggagc catttatgaa cagtctttta
     1621 acgctggcga aggacttaga gcagaaatcg aaagcgcagc agcagaatac cggcgagatg
     1681 ctgaaagccg cattcagcga gcacgagaaa tctgtaaaag cggaactgaa cgaaagcgcg
     1741 aagagaatca gcgccgccat cctcgaccac gaccggaaac tgtcctcagc catgagccag
     1801 cgcacgaaag gcatggtgcg catggtcagc cagacgtggc tgaccatcgt cctggtctcc
     1861 gcgctgctga tcgcctcgag cgcgggcatt ctgtggtggc aggggcagca gatactcgac
     1921 aactacacga ccatccggga gcagaagagc acgcaggcca tgctgtcaga gaggaacagc
     1981 ggcgtgcagc tctcgacctg cggcgagcag agacgccgct gcgtgaaggt gaacccggaa
     2041 gcgggacggt tcggagagga ttcgagctgg atgatactgg cggggaaata gcacatgacg
     2101 gagctggaaa aacagttgct gagcgcatta gagcagctac agcaggacta ctcgaaaagg
     2161 ctggacgagt gggagagcgc cttcgcggaa tggcggacga tgtctggtct tatgctacgg
     2221 gagaacgcag cgctgagcga gcgcgtcacg ggcttgagca ggcaggtgca gagtttgagc
     2281 gagcagctgc gccggttgtc gagcgactga atgccgtcga gctgcaccgg gagcaggagc
     2341 gcgtggtgca gcatcagaaa gcgctggagc tggagcgatc tcagcgacag cggacgtata
     2401 acagcccttc actgtgataa cctgataaaa cggggctttc ggcggacatc tgcgctgaaa
     2461 gccggagcca ttcacccgac tgcatagcca tgcagccggg tgaaatttat ctggcgcaga
     2521 atgcgcggtt tagcggagag tttgctgccg gttttaccgg gctgacgccg catttgttcc
     2581 gaacccgtcc ggggcggtgc tgataaggga tgttatggta aatgcggcat tttttattat
     2641 atggagtgta tttttatgag aattaaaaag cctcaccttc gtccgatagt cataaccttg
     2701 tccgttggtg ggattttgtt aacttctatt tttctgattg ccgttattat ggtttttcag
     2761 cgcgaaaata tagaaaaaga tttgctttat gctaattcat cgtacgctat gaaaatgtca
     2821 gatgtaatga gtggttatat tgaaatggct caaggtgaat tagcatatgg agcaaaaaaa
     2881 ataaaatcaa ctaatgatat tgactcactt aaagatgagg cggataggtt aagattgcag
     2941 tctggtatgt ttaattcagt tcttgttgtt agtaatgatg ctgttgttct ggcgacttcg
     3001 ccagaatctc ttgatttagt tggtacccgc ttgaattcaa gtgccagcaa attggcgatt
     3061 gaggaaaaga aaccattcat atcttcaccg ttaaaatcag ttactgggaa tttgattatt
     3121 ttgttgtcac atcctattta tgataagggt ggcaattaca tagggtatgt cggtgggtct
     3181 atatatctaa aaaaacataa tttatttggc gatgttttga gcaggcattt tttcaagaac
     3241 aacactgaaa ttagcattgt tagtgatgat gggaatgtga tctttaataa cgataaaagt
     3301 gctgttgatc ggcctatggt tatgtctgat gatttgaaat caaagttaac tgcgtctgat
     3361 agaggtgagg gggcattttt ttcttcgggg catagatatc ttcttggtta tgctagtatg
     3421 aaaaatactg cttggaatgt gttggtttat agtcgtgctg acagtgtgac tactattctt
     3481 attgcttatg ctaaaagtgt acttgttctg ctaattataa taattattgt gttttcactt
     3541 atttcatatt tcattgcctc cagtatttca cttcctttag aaaagcttgc tatatctacc
     3601 aatgctaaag atatcggagc ttcgctagtt tatattaaag ctatcaatgc ttggtatgcc
     3661 gaagctgata ggcttaaaaa ggcgcttttt acgtatatta aggtaatgat ggaaagagtt
     3721 gattttctaa atgaggtggc gcttaaagat ccccttaccg gcgtgaacaa tagattgggg
     3781 tttttaagta aaatacagaa tcataagcgg gattcagggt attcagttat tgtaattgat
     3841 gttgattttt ttaaagagat aaatgacagt ttcgggcatg gggtcggaga tgaggtgctt
     3901 gtttctttgg ctcatattat taattcctgt tgccgtagtg aagatgttgt ttgtcggttt
     3961 ggtggcgaag agtttgttgt tttcctgccg aatacatctg tggtaacagc taagtgtgtt
     4021 gcggagcgta ttaggagtgt tattgaaagt actgtcttcc ctaataactt gcgggtcacc
     4081 atatctgctg gtgtggcaac acaagatgat cctcttggta ggatcgattt tttgctgaaa
     4141 aatgctgacg atgctcttta tcaagccaaa agggaggggc gtaataaagt gattgtatat
     4201 agcgctattt gagttttttg atgatgcttt acgcgctagt gtgtcgtttt ttttgtggcg
     4261 aagagtgggc aagaagcgga tcctcttgtt atcccttcga tgtcgtcgta atctcatacc
     4321 ctgtaaacaa aaaaaccacc gctaccaacg gtggttcgtt tgccggaatt cagagctacc
     4381 aactctttct tccgaaggta actggctttc acggagcgca ggtaccaaaa ctgtccttcc
     4441 agtgtagccg cagtcaggcc accacttcaa gaactctgta gaacactcta ctactccgct
     4501 ccgtgaatcc tcttactaat ggctaccgcc actggcgatt tttcgtgtct gttccgggtt
     4561 ggactcaaga tgatagttac cgggacaacg tggtagtcgg gctgaacggg gggttcgtgc
     4621 atacagtcca gcttggagcg aactgccttc ccggaaccga gtgtc
//
