LOCUS       NZ_CP058137             5665 bp    DNA     circular CON 03-APR-2024
DEFINITION  Klebsiella quasipneumoniae strain RHBSTW-00138 plasmid
            pRHBSTW-00138_7, complete sequence.
ACCESSION   NZ_CP058137
VERSION     NZ_CP058137.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN15148509
            Assembly: GCF_013624775.1
KEYWORDS    RefSeq.
SOURCE      Klebsiella quasipneumoniae
  ORGANISM  Klebsiella quasipneumoniae
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Klebsiella/Raoultella group; Klebsiella.
REFERENCE   1  (bases 1 to 5665)
  AUTHORS   AbuOun,M., Jones,H., Stubberfield,E., Gilson,D., Shaw,L.P.,
            Hubbard,A.T.M., Chau,K.K., Sebra,R., Peto,T.E.A., Crook,D.W.,
            Read,D.S., Gweon,H.S., Walker,A.S., Stoesser,N., Smith,R.P.,
            Anjum,M.F. and On Behalf Of The Rehab,Consortium.
  TITLE     A genomic epidemiological study shows that prevalence of
            antimicrobial resistance in Enterobacterales is associated with the
            livestock host, as well as antimicrobial usage
  JOURNAL   Microb Genom 7 (10) (2021)
   PUBMED   34609275
REFERENCE   2  (bases 1 to 5665)
  AUTHORS   Shaw,L.P.
  TITLE     Direct Submission
  JOURNAL   Submitted (12-JUN-2020) Nuffield Department of Medicine, University
            of Oxford, John Radcliffe Hospital, Oxford OX3 9DU, United Kingdom
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: Unicycler v. v0.4.7
            Assembly Name                     :: WTP1 T1-00138
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 76.0293412188064x
            Sequencing Technology :: Hybrid: Illumina and PACBIO_SMRT
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_013624775.1-RS_2024_04_03
            Annotation Date                   :: 04/03/2024 04:50:16
            Annotation Pipeline :: NCBI Prokaryotic Genome Annotation Pipeline
            (PGAP)
            Annotation Method :: Best-placed reference protein set; GeneMarkS-2+
            Annotation Software revision      :: 6.7
            Features Annotated                :: Gene; CDS; rRNA; tRNA; ncRNA
            Genes (total)                     :: 5,635
            CDSs (total)                      :: 5,511
            Genes (coding)                    :: 5,336
            CDSs (with protein)               :: 5,336
            Genes (RNA)                       :: 124
            rRNAs                             :: 9, 8, 8 (5S, 16S, 23S)
            complete rRNAs                    :: 9, 8, 8 (5S, 16S, 23S)
            tRNAs                             :: 88
            ncRNAs                            :: 11
            Pseudo Genes (total)              :: 175
            CDSs (without protein)            :: 175
            Pseudo Genes (ambiguous residues) :: 0 of 175
            Pseudo Genes (frameshifted)       :: 53 of 175
            Pseudo Genes (incomplete)         :: 117 of 175
            Pseudo Genes (internal stop)      :: 27 of 175
            Pseudo Genes (multiple problems)  :: 19 of 175
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP058137.1.
            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..5665
                     /organism="Klebsiella quasipneumoniae"
                     /mol_type="genomic DNA"
                     /strain="RHBSTW-00138"
                     /isolation_source="Wastewater influent sample"
                     /db_xref="taxon:1463165"
                     /plasmid="pRHBSTW-00138_7"
                     /geo_loc_name="United Kingdom"
                     /collection_date="2017"
     gene            join(5617..5665,1..449)
                     /locus_tag="HV092_RS27885"
                     /old_locus_tag="HV092_27890"
     CDS             join(5617..5665,1..449)
                     /locus_tag="HV092_RS27885"
                     /old_locus_tag="HV092_27890"
                     /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="MbeB family mobilization protein"
                     /protein_id="WP_015328238.1"
                     /translation="MSSLLTASRDFEEKSKAQQQLTEERLKAAFSKHENVVKSELNASA
                     KRINDAISAHEQGMNAAMQSNRLSVLRMVGRTWLTITMVSGLLFASLSGVLWYQGNRIA
                     ANLAEIRQQRDTLSKLHMQTWGVTYLENRNGRFLVLPEGMKAETGRTVDNKTRNAVKLV
                     RE"
                     /name="MbeB family mobilization protein"
     gene            456..671
                     /locus_tag="HV092_RS27890"
                     /old_locus_tag="HV092_27895"
     CDS             456..671
                     /locus_tag="HV092_RS27890"
                     /old_locus_tag="HV092_27895"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_015328239.1"
                     /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_015328239.1"
                     /translation="MTELEKQLLSALEQLQQDYSRRLDEWESAFEEWRKMSGLMQRENA
                     ALSERVSGLSRQVQSLSEQLRRLSTG"
                     /name="MbeD family mobilization/exclusion protein"
     gene            1177..1548
                     /locus_tag="HV092_RS27895"
                     /old_locus_tag="HV092_27900"
     CDS             1177..1548
                     /locus_tag="HV092_RS27895"
                     /old_locus_tag="HV092_27900"
                     /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_021314598.1"
                     /translation="MSKKNDLNLSESTLESLREYVDDFGMTVDDVVLKLINENKSLKES
                     LGQDFVLSGEKEAHHFKDYVIHKLPKGKILVTHNGLKASNMKKILIEAGRELGMDENEL
                     NPDFTTYEIGRFLFKHLHA"
                     /name="hypothetical protein"
     gene            complement(1958..2716)
                     /locus_tag="HV092_RS27900"
                     /old_locus_tag="HV092_27905"
     CDS             complement(1958..2716)
                     /locus_tag="HV092_RS27900"
                     /old_locus_tag="HV092_27905"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_013558434.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="PmeII family type II restriction endonuclease"
                     /protein_id="WP_065782962.1"
                     /translation="MIESRIISDFIESCIDEEFHQKKQEKIRAIKLSDITKRKNPYLFK
                     AKGLTSASDLIKSIMDATVSSGEETVFGNFMEKIAIFTCSQAFGGRKSSAVGIDLEFET
                     ESTKYLISIKSGPNWGNSSQKKKMQDNFIKAKKVLGTSGGINSKSITCIEGCCYGYDAR
                     PEKGTHIKLCGQDFWTFISNGNNELYSDIIEPIGKLADEKNKELIELTNAKLNLFTAEF
                     ISEYCNSDGSINWALFVARNSGSKSDYHSN"
                     /name="PmeII family type II restriction endonuclease"
     gene            complement(2709..3503)
                     /locus_tag="HV092_RS27905"
                     /old_locus_tag="HV092_27910"
     CDS             complement(2709..3503)
                     /locus_tag="HV092_RS27905"
                     /old_locus_tag="HV092_27910"
                     /EC_number="2.1.1.-"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_015164793.1"
                     /GO_function="GO:0003677 - DNA binding [Evidence IEA];
                     GO:0008170 - N-methyltransferase activity [Evidence IEA]"
                     /GO_process="GO:0009307 - DNA restriction-modification
                     system [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="site-specific DNA-methyltransferase"
                     /protein_id="WP_227818858.1"
                     /translation="MLQSDSIDLIVTSPPYADQRKKTYGGVSADKYVEWFTPIAKELLR
                     VTKSSGSFVLNIKERAINGERHTYVIELILMMRKLGWLWTEEYIWHKKNSYPGKWPNRF
                     RDSWERCIHFTKSKKFNMYQEEVMVPMGDWKNSRLKNMSDTDKKRDESKVGSGFGKKIE
                     NWVTRDLAYPTNVLHMATECGNRSHSAAFPESLPEWFIKLFTTEGDTVLDPFSGSGTTL
                     KVAKAMKRNAVGIEILDEYCEITANRVGLKKSSQKKYRYTND"
                     /name="site-specific DNA-methyltransferase"
     gene            complement(3855..3983)
                     /locus_tag="HV092_RS28475"
     CDS             complement(3855..3983)
                     /locus_tag="HV092_RS28475"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001505258.1"
                     /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_074440740.1"
                     /translation="MHEPPVQSDRCALSGNYRLESNPERHDKTPLAAANSKRVYKR"
                     /name="replication initiation protein"
     gene            4598..4939
                     /locus_tag="HV092_RS27910"
                     /old_locus_tag="HV092_27915"
     CDS             4598..4939
                     /locus_tag="HV092_RS27910"
                     /old_locus_tag="HV092_27915"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_006122514.1"
                     /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_071599364.1"
                     /translation="MADKRNKMLTMWVTEDEHRRLLERCDGKQLAAWMRQTCLDEKPTR
                     AGRLPSISPALLRQLAGMGNNLNQIARKVNAGGAGHDRVQIVAALMAIDAGLERLRHAV
                     LEKGPDDDC"
                     /name="MobC family plasmid mobilization relaxosome protein"
     Typing          4338..4513
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="81.667"
                     /coverage="100.0"
                     /evalue="2.75e-31"
     Typing          complement(3882..4386)
                     /name="ColRNAI_rep_cluster_1987"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="90.551"
                     /coverage="97.0"
                     /evalue="0.0"
     Typing          3..787
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="99.0"
                     /evalue="6.54e-162"
     Typing          4930..5663
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="99.0"
                     /evalue="8.809999999999996e-159"
ORIGIN
        1 cacagcagca gcttaccgaa gagaggctga aagccgcatt cagcaagcac gagaacgttg
       61 tcaaatcgga actgaacgca agcgcgaaga gaatcaacga cgccatcagc gcccacgaac
      121 aggggatgaa cgcggcgatg cagtcgaacc ggctgagcgt gctgcgaatg gtcgggcgga
      181 cgtggctgac catcaccatg gtgtcagggc tgctgttcgc cagcctgagc ggggtgctgt
      241 ggtaccaggg gaaccggata gcggcgaacc tggcggaaat caggcagcag agagatacgc
      301 tgtcgaaact gcacatgcag acgtggggcg tgacctatct ggagaaccgc aacggacggt
      361 ttctggtgct gccggagggg atgaaagccg aaacgggccg gacggtggac aacaagacgc
      421 ggaacgcggt gaagctggta cgggagtaga gcagaatgac ggaactggaa aaacaattgc
      481 tgagcgcgtt agagcagcta cagcaggact actcgagaag gctggacgag tgggagagcg
      541 ccttcgagga atggcggaag atgtctggtc ttatgcaacg ggagaacgcg gcgctgagcg
      601 agcgcgtgtc gggcttgagc aggcaggtgc agagtttgag cgagcagctg cgccggttat
      661 cgacaggctg aatgagattg agcaacagcg atacgggcaa acaacggaaa aggaaccaga
      721 gaagacagca gatctggtac cggaacggca acgcacatta tctcatggtg acagggagta
      781 tggagactga taaacgcccg tctcaggtgg cctgagcgtg acggggatca tggccatttt
      841 ctgcgatttc agcacacaga gagtcttttt taaccgaaat caccggctat gcagtgatgt
      901 gaataagtga tgcatatgcg taaaataaat caggtgcgtt tctggtggtt ttcggtgtac
      961 ttgccaccac cttttgcccg tcagccatca gaaacgccct gagtgcctcc ggcgcggtgc
     1021 gggtaagaga tgttatggta aatccagcgg tgtagctgtt ctttttgaac cagcgatcag
     1081 tgacttctat gttatttgtt caatactaaa aagcggtgta ctataccact tatgttgtgt
     1141 tttttctttt ctgacaacta gcatggtggt gactacatga gtaaaaaaaa cgatttaaac
     1201 cttagtgaat caacgttaga aagcctcagg gagtatgtcg atgacttcgg tatgactgtt
     1261 gatgatgttg ttctgaagtt aattaatgag aataagtcat tgaaggaatc acttggacaa
     1321 gactttgtgt tatctggcga aaaggaagcg caccacttta aagattatgt gattcataaa
     1381 ctgcccaaag gaaaaattct ggttacccat aatgggctta aggccagcaa catgaagaag
     1441 atattgattg aggcggggag ggagctaggc atggatgaaa atgaactcaa tccagatttc
     1501 acaacctatg agatagggcg ttttttgttt aagcacctac atgcgtaaca atcctgcagg
     1561 cctgaagggc aggcatcgaa cttcgctgcc cggatgttat ggtaaatatg agtatttaat
     1621 ctgatgcaaa aaaaaccgcc taaaaggcgg ctttttgcta aggtgtgttg gttattggtg
     1681 tcagtctttg tgcgacagcc ccaccattag cactcacatg tgtgactatg ttgttgtcgg
     1741 ttcgagtgtg tagctgtacg aagatatcaa agcctgaact tgcatgaaca tcacagatgt
     1801 aggcttcagt attgggtgcc cagattgcac tggtatcctc tctacggagt cttacaccaa
     1861 agttgttaga tgcatgattc tggcaaccat ttactatgca tgctggcatg gagtgtcctt
     1921 gtttttgttg aggcatttcc ccatttatac tcttctgtta gttgctatga tagtctgatt
     1981 ttgaacctga gtttcttgct acaaataaag cccaatttat tgaaccatca ctattacaat
     2041 attctgaaat aaactcagcc gtaaaaagat ttagtttggc atttgttagt tctatcagtt
     2101 ccttgttttt ttcgtctgca agcttaccaa taggctcaat tatatcacta tataattcgt
     2161 tgtttccgtt agatataaat gtccagaagt cttggccgca tagttttatg tgggttccct
     2221 tttcaggtct ggcgtcataa ccataacaac acccctcgat gcaagttatt gattttgaat
     2281 taattccacc ggatgtgcct aggacttttt tggctttaat gaagttgtct tgcattttct
     2341 ttttttgtga tgagttaccc cagtttgggc cggatttgat gcttattaga tattttgtgc
     2401 tttcagtttc gaactcaaga tctattccta ccgcactgga ttttcttcca ccaaatgctt
     2461 gggaacatgt gaagattgca atcttttcca tgaaattgcc aaaaacggtc tcctctccag
     2521 aggataccgt tgcatccatt attgacttta ttaagtcact tgctgatgtt agccccttcg
     2581 ccttaaataa atatgggttt tttctttttg ttatatctga taattttatc gcccttattt
     2641 tttcttgttt tttttgatgg aactcttcat caatgcaaga ttctataaaa tctgaaataa
     2701 tccgtgattc aatcatttgt ataccggtat tttttttgag acgatttttt caaacctact
     2761 ctatttgccg ttatctcgca atattcatct aatatttcaa tacctacagc gttccttttc
     2821 attgctttcg caacttttaa tgtggttcca gaaccggaaa atggatccag aacggtgtca
     2881 ccttctgtgg tgaaaagttt gatgaaccat tcaggtaggc tttcaggaaa agctgcgctg
     2941 tgactgcggt ttccacactc tgtagccatg tgtagcacgt tggttgggta tgctagatcc
     3001 ctggtgaccc agttttctat ttttttaccg aaaccactcc ctactttcga ttcatctctt
     3061 ttcttatctg tatcactcat gtttttaagt cgtgagtttt tccaatcccc cataggcacc
     3121 attacttcct cttggtacat gttgaatttt ttacttttcg taaagtggat gcatctttcc
     3181 caagagtctc taaagcgatt tggccatttc ccagggtaac tatttttttt atgccatatg
     3241 tattcctctg tccataacca gcctaatttt cgcatcatta aaattagctc tattacatac
     3301 gtatggcgct cgccattaat cgccctttcc tttatgttta gaacaaatga gcctgatgat
     3361 tttgtcactc tcagtagttc tttggctatc ggggtgaacc actcaacata tttgtctgca
     3421 cttactccgc cataggtttt tttcctttgg tctgcgtaag gtggtgatgt aacgatcaga
     3481 tctattgaat cgctttgaag catctttaaa gcgattaaac aatcatcatt gattagttct
     3541 atcgtctgtt ttttttcttt aacttcttgt ttcattagca tttcttttgt cgcattctgt
     3601 gttcattatc aggatattac ctccttttgt tttggaggtc cagtcttgct gatggttgtt
     3661 gacctaagta taagatgcga cgtaatatcc tcgtctgaaa cgaaaaaacc gcctggggag
     3721 gcggtttttt cgagggttca gtaagttggg gaacttctga accgtggtaa cagggtgtac
     3781 aagaccgctg aaaccaaatt ctgtcctttc agtttagccg tagttgggct gagagttcaa
     3841 gaactctgca tcagttatct cttgtacacc ctcttactgt tggctgctgc cagtggcgtt
     3901 ttgtcgtgtc tttccgggtt ggactcaaga cgatagttac cggataaggc gcagcggtcg
     3961 gactgaacgg ggggttcgtg catacagtcc agcttggagc gaactgccta cccggaactg
     4021 agtgtcaggc gtggaatgag aaaccgcggc cataacagcg gaatgacacc ggtaaaccga
     4081 aaggcaggaa caggagagcg cacgagggag ccatcagggg gaaacgcctg gtatctttat
     4141 agtcctgtcg ggtttcgcca ccactgattt gagcgtcaga ttctgtgatg ctcgtcaggg
     4201 gggcggagcc tatggaaaaa cggcaacgcc gcatcctttt cgtgcccttt tctgactcta
     4261 gctccatctc tttatctcgt cactcgtgag caggtaacgc ccgccgcagc ctcacggcag
     4321 gagcgtcagc gaccgagtga gcgaggaggc gtcatatccc cggcactacc attatctgcc
     4381 ttacgcacct tcgctgcatg tcatccctgc catatatagc actttcgctg atacccatac
     4441 cgatgccacc atagtaagcc agtatacact ccgctagcgc tacgtgactg gttcagggct
     4501 gcgccccgaa accccactga cgcgcctgcg gcttgtccaa ccccgcgccg accgggaaag
     4561 gctttcccgt ccgtcacggc gttatcagga ggcgattctg gcagataaac gcaacaagat
     4621 gctcacgatg tgggtgacgg aagacgaaca ccggcggttg cttgagcggt gcgacggaaa
     4681 acaactggcg gcgtggatgc gccagacctg ccttgatgag aaaccgacac gcgccggcag
     4741 gcttccctcg atttcgcccg cgctgctgcg tcagcttgcc ggcatgggca ataacctgaa
     4801 ccagatcgcc cggaaagtga acgccggtgg tgccggtcat gaccgggtgc agatcgtggc
     4861 agcgctgatg gcgatcgatg ccggtctgga acggttgcgg catgccgtac tggaaaaagg
     4921 gccggacgat gattgttaaa ttccatcccc ggggtcgcgg cgggggcgcc ggtcctgtgg
     4981 attatcttct gggtaaagac cggcagcgtg aaggtgccag cgtcctgcag gggaagccgg
     5041 aagaagtccg ggagctgatt gatgcgtcgc cgtatgtgaa aaaatatacc tccggggtgc
     5101 tgtcattcgc ggaggcggac ctgccgccgg gtcagcgtga aaaactgatg gccagctttg
     5161 agcgggttct gatgcccgga ctcgataaag accagtacag cattctgtgg gtggaacacg
     5221 cagacaaggg tcgtcttgag ctgaattttc tgatccccaa taccgaatta ctgacgggga
     5281 aacgcctcca gccgtattac gatcgtgccg accggccgcg catcgatgcg tggcagacag
     5341 tggtcaacgg caggctgggg ctacatgatc cgaacgaccc ggagaaccgg cgggcgctgg
     5401 tcacgccttc aggactgcca gaaacgaagc aggaagccgc agagacgatt acacggggtt
     5461 tgctgatgtt agcctcatca ggagagctga aaacgcgtga tgacgtcaca ggggcgctca
     5521 cagcggccgg ttttgaggtg gtcagaacca caaaaaacag tatcagcatt gccgacccgg
     5581 acggggggcg aaatatccga ctgaggggag ccatttatga gcagtctttt aacggcctcg
     5641 agggacttcg aggagaaatc gaaag
//
