LOCUS       NZ_CP055514             4184 bp    DNA     circular CON 16-MAY-2024
DEFINITION  Klebsiella pneumoniae strain RHBSTW-00472 plasmid pRHBSTW-00472_6,
            complete sequence.
ACCESSION   NZ_CP055514
VERSION     NZ_CP055514.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN15148624
            Assembly: GCF_013611495.1
KEYWORDS    RefSeq.
SOURCE      Klebsiella pneumoniae
  ORGANISM  Klebsiella pneumoniae
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Klebsiella/Raoultella group; Klebsiella.
REFERENCE   1  (bases 1 to 4184)
  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 4184)
  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                     :: WTP5 T2-00472
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 104.623145233813x
            Sequencing Technology :: Hybrid: Illumina and OXFORD_NANOPORE
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_013611495.1-RS_2024_05_16
            Annotation Date                   :: 05/16/2024 03:23:14
            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)                     :: 6,090
            CDSs (total)                      :: 5,963
            Genes (coding)                    :: 5,757
            CDSs (with protein)               :: 5,757
            Genes (RNA)                       :: 127
            rRNAs                             :: 9, 8, 8 (5S, 16S, 23S)
            complete rRNAs                    :: 9, 8, 8 (5S, 16S, 23S)
            tRNAs                             :: 89
            ncRNAs                            :: 13
            Pseudo Genes (total)              :: 206
            CDSs (without protein)            :: 206
            Pseudo Genes (ambiguous residues) :: 0 of 206
            Pseudo Genes (frameshifted)       :: 75 of 206
            Pseudo Genes (incomplete)         :: 133 of 206
            Pseudo Genes (internal stop)      :: 33 of 206
            Pseudo Genes (multiple problems)  :: 27 of 206
            CRISPR Arrays                     :: 1
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP055514.1.
            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..4184
                     /organism="Klebsiella pneumoniae"
                     /mol_type="genomic DNA"
                     /strain="RHBSTW-00472"
                     /isolation_source="Wastewater effluent sample"
                     /db_xref="taxon:573"
                     /plasmid="pRHBSTW-00472_6"
                     /geo_loc_name="United Kingdom"
                     /collection_date="2017"
     gene            461..757
                     /locus_tag="HV207_RS30115"
                     /old_locus_tag="HV207_30125"
     CDS             461..757
                     /locus_tag="HV207_RS30115"
                     /old_locus_tag="HV207_30125"
                     /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_071010377.1"
                     /translation="MDRSEFEKLISDLESKLKRAVLRVGLKKIEVQVFLLFPLGESQLG
                     TIHVEAYRRTDILNRKKPQPIYKIKSDCFKDIERGFLKWVIDYKSTIDKVAIK"
                     /name="hypothetical protein"
     gene            754..1590
                     /locus_tag="HV207_RS30120"
                     /old_locus_tag="HV207_30130"
     CDS             754..1590
                     /locus_tag="HV207_RS30120"
                     /old_locus_tag="HV207_30130"
                     /inference="COORDINATES: protein motif:HMM:NF012307.4"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="reverse transcriptase domain-containing protein"
                     /protein_id="WP_064168836.1"
                     /translation="MSYLVKEVDSKDVFFFKKVLRKKNKSRVIYSVDDKSSSIYKDMEK
                     SISKRFICEMSKKENFLIKKVPYAYYPGRSANQNAKAHQPFDFTLSMDIRDHFTSITPK
                     MVDWLLTPRELYLCFIDGSLPQGLSTSPVISNIAMMEVDRAILSELSNVVSNGSEPING
                     FVYRIKNFRYTRYSDDLVVSFNLHEPSMHLHRRIFLYIEALISKTIRQFGFEPNNNKVK
                     MQNEKSGFRVITGVSVSREIIKPTRKTKRKLRSAIHNANIDNAIGLYNWIKLVSRT"
                     /name="reverse transcriptase domain-containing protein"
     gene            complement(2046..2189)
                     /locus_tag="HV207_RS30750"
     CDS             complement(2046..2189)
                     /locus_tag="HV207_RS30750"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001326446.1"
                     /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_074192474.1"
                     /translation="MHEPPVQSDRCAFSGNYHLESNPERHDKTPLAAATGNGFAEQRSV
                     EV"
                     /name="replication initiation protein"
     gene            2609..2800
                     /locus_tag="HV207_RS30125"
                     /old_locus_tag="HV207_30135"
     CDS             2609..2800
                     /locus_tag="HV207_RS30125"
                     /old_locus_tag="HV207_30135"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001041614.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="Rop family plasmid primer RNA-binding protein"
                     /protein_id="WP_064168835.1"
                     /translation="MTKQQKTALNMAKFIQDQSLLLLDRLNDLDLDHEADFCEKLHEDA
                     ERLYRSLSARLNEQQDGA"
                     /name="Rop family plasmid primer RNA-binding protein"
     gene            3272..3463
                     /locus_tag="HV207_RS30130"
                     /old_locus_tag="HV207_30140"
     CDS             3272..3463
                     /locus_tag="HV207_RS30130"
                     /old_locus_tag="HV207_30140"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000166328.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="Rop family plasmid primer RNA-binding protein"
                     /protein_id="WP_025714792.1"
                     /translation="MTKQQKTALNMAKFIQNQSLLLLEKLNELDLDAEADLCEKLHDDA
                     EHLFRTLSSRLDELLDGN"
                     /name="Rop family plasmid primer RNA-binding protein"
     gene            3463..3873
                     /locus_tag="HV207_RS30135"
                     /old_locus_tag="HV207_30145"
     CDS             3463..3873
                     /locus_tag="HV207_RS30135"
                     /old_locus_tag="HV207_30145"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:YP_005229777.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="helix-turn-helix domain-containing protein"
                     /protein_id="WP_025714791.1"
                     /translation="MARVSISEAARLVKVSRPTIYKMINSGKLSYTSVVKHGKSIKVID
                     TSELIRVFGSLDGVIDDVKSDAESTGINSVGLHDLQHRIALLEAENDGLKGAVKARDEH
                     IDSLRQAMQLLEHKHEPSSPPHSPWWKFWKKS"
                     /name="helix-turn-helix domain-containing protein"
     Typing          complement(2077..2561)
                     /name="ColRNAI_rep_cluster_1987"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="89.184"
                     /coverage="92.0"
                     /evalue="4.579999999999999e-168"
ORIGIN
        1 gctttggcgt ttttttgacc gtggtgactc tagagtcaag tcacgagtcg aatcgccggt
       61 gaatcgtgtg gtgagtcgtc cggcgtcttg ccataacgtg attgccggcc gtcgacgaac
      121 ccgattcctg aacgtgctga aaaccggttt tccggctgcg ccggcaacgc ttcacggcca
      181 cgcaataaat tgcgtccccg ttcaccgttt tcgggtaaga agaacatcgg aaacaggact
      241 taccccggct gaatggcgtg aatttccgcg ctatgcactt gcgcgcatac tcatgcatgc
      301 cgtaaaaaca gagcctgcgc gtttctggcg ggttttcggg tggtttgttg cctgttttgc
      361 cggtttcccg tcagaaacgg cctgagggcc tctgaggcgg tgcgcgcaat gtgaccttat
      421 gttaaattat cccaatatga ttttaggtta gggagggcgt atggatagat ctgaatttga
      481 aaaactaata tcagatctgg agtcaaaact gaaacgggca gtcctgaggg ttggcctgaa
      541 aaaaatagaa gttcaagtat tcctactatt cccactcggt gaatcgcaac taggtactat
      601 tcatgtcgaa gcatatagac gtacagatat actgaatcgt aaaaaaccac agccaatata
      661 taaaataaaa agtgattgtt tcaaggatat cgaaagggga tttttgaaat gggtcattga
      721 ttataaatcg actatcgata aggtggctat taaatgagtt atttagtaaa ggaggttgac
      781 tctaaggatg tgtttttctt caagaaggtt ttaaggaaga aaaacaaatc aagagtgata
      841 tattcggttg acgacaagtc ttcttctatt tataaagata tggaaaaatc aatatcaaaa
      901 agatttattt gtgagatgtc aaaaaaagaa aacttcctca taaaaaaagt accatatgcc
      961 tactatccgg gaaggtcggc taatcaaaac gcaaaagctc atcagccatt cgattttaca
     1021 ttatctatgg atatccgaga tcacttcaca tcgataacgc ctaagatggt agattggtta
     1081 cttaccccaa gggagttata cctatgtttt atagatggtt cattacctca ggggctctct
     1141 actagcccag taatttctaa tatagccatg atggaggttg atagagcgat attatctgaa
     1201 ttatcaaatg ttgtatctaa cggctccgaa ccaataaacg gttttgtata cagaataaaa
     1261 aacttccgat acacaaggta ttctgatgat ttagttgtaa gctttaattt gcacgagcca
     1321 tctatgcatt tacataggcg tatattttta tatatagagg ccctaataag taaaaccata
     1381 aggcagtttg gttttgaacc aaataacaat aaagttaaaa tgcaaaatga aaagtctggc
     1441 tttagagtta tcactggtgt atccgtctca agagaaatca taaagccaac aaggaaaaca
     1501 aaaagaaaac ttagatcagc aatacataac gccaacatag acaatgctat cgggctgtat
     1561 aactggatca aattagtgtc gagaacataa tgttctcgac gtgtgattac gttctagtca
     1621 atacattgcc ctgtgggcca tggtttagcg taagctaagt tactagatgt taggattatt
     1681 cagcggacga atcatctcgc tatatctctc ttgtggagcg gaacctctca gctaatcacc
     1741 tctaaaacct acgggtttta tcgaaaaaac gcaatagaaa ccttattgcc cccgtggtgg
     1801 gtatgtaaaa atcacgggga gcgggtcaga actacgccaa aactttgaat gatcgggtgg
     1861 caggctaaat gaaatcttga gattcattca gtctcgtcgt aatctcttgc tctgaaaacg
     1921 aaaaaaccgc cttggcgggc ggttttttcg aaggttcgag gagttggcgc tctttgaacc
     1981 gaggtaactg gctttcgcag agcacagaaa ccaaattagt tattacagtg tagctgtact
     2041 tcacctcaca cttcaacact tctttgttct gcgaatccgt taccagtggc tgctgccagt
     2101 ggcgttttgt cgtgcctctc cgggttggac tcaagatgat agttaccgga gaaggcgcag
     2161 cggtcggact gaacgggggg ttcgtgcata cagtccagct tggagcgaac tgcctacccg
     2221 gaactgagtg tcaggcgtgg aatgagacaa acgcggccat aacagcggaa tgacaccggt
     2281 aaaccgaaag gcaggaacag gagagcgcac gagggagcta ccagggggaa acgcctggga
     2341 tctttatagt cctgtcgggt ttcgccacca ctgatttgag cgtcagattt tgtgatgctt
     2401 gtcagggggg cggagcctat ggaaaaacgg caacgccgtg gcttttttcc gcttgtccct
     2461 ttcttcttcc ggattgtggg catgactctt ctgtctgtgt gccccgtccg ctcgccgcag
     2521 ccgaacggca ggagcgtagc gactgagtga gcgaggaagc ggaaaagaga caggttttac
     2581 actgagcact gacgctctga ggccccttat gacgaaacaa cagaaaactg ccctgaacat
     2641 ggctaaattc atccaggatc agtccctgct tcttctggac aggcttaatg acctggatct
     2701 ggatcatgag gctgatttct gcgagaaact ccatgaggat gcggaacgcc tttaccgaag
     2761 cctgtcagcg cgcctgaatg agcagcagga cggtgcgtaa tgtctccgtt ctaagtatta
     2821 ccggagtaat accggcatcg ccttaatttt cattgtgtta gcgcttaaca ttattacccc
     2881 ggtaataccc agaatccctg tattttttct tttttattta tttttcatga agttgcgatg
     2941 aaaatcgcag ctgcgttagg tgtatgacca ttttgaggtt gaaaaataat caatcatggc
     3001 gggtgattta cgcaggttaa gggtagatcg tgacaaaaaa agcgttcctc actgtatcgt
     3061 tcatgcctgc atgaacggat tatttttccg gactacaggt aaactacagg aagactacaa
     3121 aagttgatga cttaatcctg atttttagtg cgatgactac agataaacta caaaataact
     3181 acaggattac ctcagatccg ttctctgaac cattcgtaca tccgaccccc ttaccggttt
     3241 tacactgagc actgatgctc tgaggtccct tatgacgaaa caacagaaaa cagcgctgaa
     3301 catggctaaa ttcatccaga atcagtctct gctcctgctg gagaagctta acgagcttga
     3361 tctcgatgct gaggccgacc tttgtgagaa actccacgat gatgcggagc atcttttccg
     3421 tacactgtcc tcgagactgg atgaattact ggatggtaac tgatggccag agtgtctatt
     3481 agtgaagcag cacggcttgt taaggttagt cgccctacta tttacaagat gattaacagt
     3541 ggtaagttaa gttacacctc tgttgtaaag cacgggaaga gtattaaagt tattgataca
     3601 tcagagctta ttagggtgtt tggttctctt gatggtgtca tcgatgatgt aaaaagtgac
     3661 gcagaatcta caggtattaa cagcgttggt ttacatgatt tacaacatag aatcgcttta
     3721 cttgaagctg aaaacgatgg tcttaaaggg gctgttaagg ctcgagatga gcatattgat
     3781 tcccttcgtc aggctatgca gcttctggag cacaagcacg aaccttcttc accaccccat
     3841 tccccgtggt ggaaattctg gaaaaaatcc tgatcccgcc atgcttgagt tttcctctcc
     3901 ggccatcccg gggcgttcct gaaccttccc aaaaatcgcc agatccggga acactcctca
     3961 ccacgaaaaa tacccacaca ccacgcaaaa ttaaaatttt gcagataact ccttattatc
     4021 agttggttag gttttattaa attacgcagt attaccttct gtaaggtcaa tccaagtcgt
     4081 cggtgattcg tgtacgactt accgacgact cgtcatagag tcatcgacga ctcactccac
     4141 actatcagta acttatgacg acttgactct agagtcgaat cgtc
//
