LOCUS       NZ_CP056535             5783 bp    DNA     circular CON 20-MAY-2024
DEFINITION  Klebsiella pneumoniae strain RHBSTW-00433 plasmid pRHBSTW-00433_6,
            complete sequence.
ACCESSION   NZ_CP056535
VERSION     NZ_CP056535.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN15148610
            Assembly: GCF_013737695.1
KEYWORDS    RefSeq.
SOURCE      Klebsiella pneumoniae
  ORGANISM  Klebsiella pneumoniae
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Klebsiella/Raoultella group; Klebsiella.
REFERENCE   1  (bases 1 to 5783)
  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 5783)
  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                     :: WTP4 T2-00433
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 104.61164450012x
            Sequencing Technology :: Hybrid: Illumina and OXFORD_NANOPORE
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_013737695.1-RS_2024_05_20
            Annotation Date                   :: 05/20/2024 02:46:22
            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)                     :: 5,637
            CDSs (total)                      :: 5,511
            Genes (coding)                    :: 5,309
            CDSs (with protein)               :: 5,309
            Genes (RNA)                       :: 126
            rRNAs                             :: 9, 8, 8 (5S, 16S, 23S)
            complete rRNAs                    :: 9, 8, 8 (5S, 16S, 23S)
            tRNAs                             :: 88
            ncRNAs                            :: 13
            Pseudo Genes (total)              :: 203
            CDSs (without protein)            :: 202
            Pseudo Genes (ambiguous residues) :: 0 of 203
            Pseudo Genes (frameshifted)       :: 69 of 203
            Pseudo Genes (incomplete)         :: 143 of 203
            Pseudo Genes (internal stop)      :: 32 of 203
            Pseudo Genes (multiple problems)  :: 37 of 203
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP056535.1.
            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..5783
                     /organism="Klebsiella pneumoniae"
                     /mol_type="genomic DNA"
                     /strain="RHBSTW-00433"
                     /isolation_source="Freshwater sample from downstream of
                     wastewater treatment plant"
                     /db_xref="taxon:573"
                     /plasmid="pRHBSTW-00433_6"
                     /geo_loc_name="United Kingdom"
                     /collection_date="2017"
     gene            join(4808..5783,1..1367)
                     /locus_tag="HV193_RS27830"
                     /old_locus_tag="HV193_27850"
     CDS             join(4808..5783,1..1367)
                     /locus_tag="HV193_RS27830"
                     /old_locus_tag="HV193_27850"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_010904246.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="S-type pyocin domain-containing protein"
                     /protein_id="WP_181486822.1"
                     /translation="MGGGFNYNGEGATGTGLDRDPYVRDSNGNAIGVKSGYHAESYGTS
                     SPALGPNGAIQITAGVIAVPGDKPRPDGGSGGGNTVNTGPAGQLLVMNKGQLGYWETRS
                     TGAGNNEHNTSVFVAVGPSEAEKTASAEKALKEKQQAEAAAKDFAAKTAAASATAEKER
                     QQAIAAATAAGQHQSVSDARNSLNNATSDVSRLKSAADSALQEAKAKRKAAIDAVPVAT
                     QAENKYQELQQKIKGLKLKNGEYGTEKWEIIGSNKEHDHWGYRFYPSGITKAQVDVAQS
                     DAVNKRNQATSLASQATAAEQDSLKATAAYNAAETRRQAAQAALNSAEQAAAAERKRQE
                     AEAAAAAAAEKKRQADAVAKAAEEARAAAEKARLMQERQAAADKLKSTDIQSVRGIPST
                     ASPAASPISWAVASLGGISLDSVTAGKAWTQIAEVMAKLRGIAGASLVGPVVATAVGLF
                     WSRDVGIGSDVVPGRDISGLMPGDALSLPDLATLIKAADSKTGVSMPVRGRIIVREGDY
                     LESQFVRTPVAGSVPVVRATLDKATGYWGYTLPAIQGVPGQTILVSPSDAPGVNAPLGL
                     AGPVPLPETIIHTGGQTTVPQGGTVTVSPVIGEVDFRDLILVFPPESGLKPLYVMPVSP
                     YGDATEKGEHSGRPYNPDKAGGPVQNLNWRSAVINKAGIDKVKLHTGRFGESAANKVMI
                     DRLEKILSGQLQVTDTDKRFYTHELRELERYRALGVPDNVKPDDKGVTWNNTHTATLED
                     YKINEKTDPLYTKDAEEAEYKAELKNK"
                     /name="S-type pyocin domain-containing protein"
     gene            1378..1641
                     /locus_tag="HV193_RS27835"
                     /old_locus_tag="HV193_27855"
     CDS             1378..1641
                     /locus_tag="HV193_RS27835"
                     /old_locus_tag="HV193_27855"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_015377593.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_064148700.1"
                     /translation="MSNPIEDIIKNESVSDVLRYFGPGRDISKIDRMYVSYKFEVISEG
                     VLLSEYKKLFDNGELKYDSNKNVIKGPNWKEPAFVTQKKYGI"
                     /name="hypothetical protein"
     gene            1823..2080
                     /locus_tag="HV193_RS27840"
                     /old_locus_tag="HV193_27860"
     CDS             1823..2080
                     /locus_tag="HV193_RS27840"
                     /old_locus_tag="HV193_27860"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_015366249.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="bacteriocin immunity protein"
                     /protein_id="WP_010904244.1"
                     /translation="MANKTLADYTEQEFIEFIEKIKKADFATESEHDEAIYEFSQLTEH
                     PDGWDLIYHPQAGADNSPAGVVKTVKEWRAANGKPGFKKS"
                     /name="bacteriocin immunity protein"
     gene            2188..2343
                     /locus_tag="HV193_RS27845"
                     /old_locus_tag="HV193_27865"
     CDS             2188..2343
                     /locus_tag="HV193_RS27845"
                     /old_locus_tag="HV193_27865"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_008323621.1"
                     /GO_component="GO:0019867 - outer membrane [Evidence IEA]"
                     /GO_process="GO:0019835 - cytolysis [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="colicin release lysis protein"
                     /protein_id="WP_071561715.1"
                     /translation="MKKLLFLGVVTVSVVLAACQVNNVRDTGGGAVSPSSTVTGVTLDS
                     GTNGNP"
                     /name="colicin release lysis protein"
     gene            complement(2549..2663)
                     /locus_tag="HV193_RS27995"
                     /pseudo=""
     CDS             complement(2549..2663)
                     /locus_tag="HV193_RS27995"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_005761324.1"
                     /note="frameshifted; Derived by automated computational
                     analysis using gene prediction method: Protein Homology."
                     /pseudo=""
                     /codon_start=1
                     /transl_table=11
                     /product="replication initiation protein"
                     /name="replication initiation protein"
     gene            3079..3270
                     /locus_tag="HV193_RS27850"
                     /old_locus_tag="HV193_27870"
     CDS             3079..3270
                     /locus_tag="HV193_RS27850"
                     /old_locus_tag="HV193_27870"
                     /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_023302508.1"
                     /translation="MTKQQKTALNMAKFIQNQSLLLLEKLNELDLDVEADLCEKLHDDA
                     EHLFRTLSSRLDELQDGN"
                     /name="Rop family plasmid primer RNA-binding protein"
     gene            3270..3692
                     /locus_tag="HV193_RS27855"
                     /old_locus_tag="HV193_27875"
     CDS             3270..3692
                     /locus_tag="HV193_RS27855"
                     /old_locus_tag="HV193_27875"
                     /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_064148699.1"
                     /translation="MARVSISEAARLVKVSRPTIYKMINSGKLSYTSVVKHGKAIKVID
                     TSELIRVFGSLDGVIDTVKYDVKSDAESTGINSVGLHDLQHRIALLEAENDGLKGAVKA
                     RDEHIDSLRQAMQLLEHKHEPSSPPHSPWWKFWKKS"
                     /name="helix-turn-helix domain-containing protein"
     Typing          complement(2550..2958)
                     /name="ColRNAI_rep_cluster_1987"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="96.341"
                     /coverage="99.0"
                     /evalue="0.0"
ORIGIN
        1 attctgctga acaggctgct gctgctgaac gtaagcggca ggaagctgag gcggctgcag
       61 cagctgctgc tgagaaaaaa cgtcaggcag acgcagtagc aaaagcagca gaggaagcgc
      121 gtgcggcagc ggaaaaagcc aggctgatgc aggagcgtca ggcagcagca gataagctga
      181 aatccacaga tattcagtct gttcgcggga tcccgtctac ggcatcgcct gcagcgtcac
      241 ccatttcctg ggccgttgca tcacttggtg gtatatcgct ggatagtgtt actgcaggga
      301 aagcctggac gcagattgct gaggtgatgg ctaaactgcg aggtattgcc ggtgcgagtc
      361 ttgttggtcc cgtggtggca actgctgtag ggctgttttg gtcacgtgat gttggtattg
      421 gcagtgatgt ggtgcccgga cgtgacatca gcgggctgat gccgggtgat gcactgtcat
      481 tacctgatct ggccactttg attaaagctg ctgacagtaa aacgggtgtc agtatgccgg
      541 ttcgaggccg gattatcgtg cgtgaaggcg attatctgga gtctcagttc gttcgaacac
      601 ctgttgccgg tagtgttccg gttgttcggg ctactctgga taaagctact ggttactggg
      661 gatatacgtt gccggcgata cagggcgtgc ccggacagac aatactggta agtccgtcag
      721 atgcgccggg cgttaatgct cctctgggac ttgctgggcc ggttcctttg cctgaaacta
      781 ttatacatac cggtgggcaa actacggtcc ctcagggggg gactgtgaca gtatctcctg
      841 ttattggtga agttgatttt cgagatctta tccttgtttt ccctcctgag tcagggttaa
      901 agccgttata tgtgatgcca gttagccctt atggagatgc aacagaaaaa ggcgagcaca
      961 gcggaagacc ttataatccg gataaggcag gtggtcctgt acagaatctt aactggcgta
     1021 gtgcagtcat caacaaggcc gggattgata aggtgaagct acataccggt cgctttggtg
     1081 aatcagcagc aaacaaagta atgatcgacc gtctggagaa aatcctgagc ggtcagttac
     1141 aggtaactga tacggacaag cggttttaca cccatgaact cagagagctg gaacgttatc
     1201 gtgctttagg ggtccctgat aatgtgaagc cagatgataa aggtgttacg tggaataaca
     1261 ctcatacagc aacgctggaa gattataaaa ttaatgaaaa aactgatccg ctctatacaa
     1321 aggatgctga agaggcagag tataaagcag agctaaaaaa taaatgaggg ggagagaatg
     1381 agtaatccga ttgaagacat cattaaaaat gaatcggtaa gtgatgtgct tcgctacttt
     1441 ggtcctggtc gcgacatttc aaaaattgac cgtatgtatg tttcatataa gtttgaagtg
     1501 atctctgaag gcgttctttt atctgaatac aaaaagttat tcgacaatgg agaactaaag
     1561 tatgactcta ataaaaatgt tattaagggg cctaactgga aagagcctgc ttttgtaaca
     1621 caaaaaaaat acggcattta aagtgtgcat atgaagccct ttgaaaagag ggctttgatt
     1681 aaagctcaca tatgaaaagg gtttcttttt tgagtggtcg tggtttcgat gatactggca
     1741 gcatgtcagg tcaacaatat ctggggtaag ctgagtgcat taaaacctaa acgccatatt
     1801 gaaatccata atgggaactg aaatggctaa taaaactttg gctgactata cagagcagga
     1861 atttattgag tttatcgaaa aaattaaaaa agcagacttt gctactgagt ctgagcatga
     1921 tgaggccatt tatgagttca gccagttgac tgaacatcca gatggttggg atcttattta
     1981 tcatcctcaa gcaggagccg ataactctcc tgctggtgtt gtaaaaacag taaaagagtg
     2041 gcgagcagct aacggtaagc caggttttaa aaaatcgtga ttgaatgtgc gggttcaagt
     2101 gatgaatccg cacattttta actctggatt tgaataataa ttactaggta tccatttgct
     2161 tagaataata aaaataaaag gtgatatatg aaaaaattac ttttcctggg ggttgttacc
     2221 gtttctgtgg ttctggcggc atgtcaggtc aataatgttc gtgacaccgg aggtggggct
     2281 gtttcacctt catcgacggt gaccggagtc acgcttgata gcggtacgaa cggcaatccg
     2341 taaaggatct tcttgagatc ccatttggat cgtcgtaatc tcttgctctg taaacgaaaa
     2401 aaccgccttg gcgggcggtt tttcgaaggt tccaagagtt ggcgctcttt gaaccgaggt
     2461 aactggctta tgaggagcac agtaaccaaa acttgttctt tcagtttagc cttaaccggc
     2521 gcataacttc aagactaact cctctaaatc agttaccagt ggctgctgcc agtggtgctt
     2581 ttgcatgtct taccgggttg gactcaagat gatagttacc ggatcaaggc gcagcagtcg
     2641 gactgaacgg ggggttcgtg catacagtcc agcttggagc gaactgccta cccggaactg
     2701 agtgtcaggc gtggaatgag ataaacgcgg ccataacagc ggaatgacac cggtaaaccg
     2761 aatggcagga acaggagagc gcacgaggga gccatcaggg ggaaacgcct ggtatcttta
     2821 tagtcctgtc gggtttcgcc accactgatt tgagcgtcaa attctgtgat gcttgtcagg
     2881 ggggcggagc ctatggaaaa acggccgctg tgcggcctct ccttctcccc atcacgcgat
     2941 cgctcggttt tctcgagctt ttatacgcat gctcctgccg ctcgccgcag ccgaacggca
     3001 ggagcgtagc gactgagtga gcgaggaagc ggaaaagaga acatccctac actgagcact
     3061 gacgctctga ggcctcttat gacgaaacaa cagaaaacag cgctgaacat ggctaaattc
     3121 atccagaatc agtctctgct cctgctggag aagcttaacg agcttgatct cgatgtcgag
     3181 gccgaccttt gtgagaaact ccacgatgat gcggagcatc ttttccgtac actgtcctcg
     3241 agactggatg aattacagga tggtaactga tggccagagt gtctattagt gaagcggcac
     3301 ggcttgttaa ggttagtcgt cctacaattt acaagatgat taacagtggg aagttaagtt
     3361 acacctctgt tgtaaagcac gggaaggcta ttaaagttat tgatacttct gagcttatta
     3421 gagtgtttgg ttctcttgat ggtgtaatcg atactgtaaa atatgatgta aaaagtgacg
     3481 cagaatctac aggtattaac agcgttggtt tacatgattt acaacataga atcgctttac
     3541 ttgaagctga aaacgatggt cttaaagggg ctgttaaggc tcgagatgag catattgatt
     3601 cccttcgtca ggctatgcag cttctggagc acaagcacga accttcttca ccaccccatt
     3661 ccccgtggtg gaaattctgg aaaaaatcct gaccccatca tgcttcagtt ttcctctccg
     3721 gccattccgg ggagttcctg aaccttccaa aaaatcgcca gatctctgaa cgctcctcac
     3781 cactaaaaat acccacacac tacgcaaaat taaaattttg cagattcttt atttaaaaca
     3841 attggttaat gaaaaattaa tgtgcagtga tgtgttacaa agtgcagatc caagtcgtgg
     3901 acgactctat ggcgaatcgt ttacgaattg cccacgattc atatgtgaat cacgctttat
     3961 tatcatgttg ttatgatgaa tcgactcttg attcaattca tcaatttggg cgttttttgt
     4021 tcatggtgac tcttgattca attcacgatt cgaatcgccg gtgaatcgtg tggtgagtcg
     4081 tccggcgact tgccataacg tgattgccgg ccgtcgacga acccgattcc tgaacgtgct
     4141 gaaaaccggt tttccggctg cgccggcaac gcctcacggc cacgcaataa attgcgtccc
     4201 cgttcaccgt tttcggatca gaagaacgcc ggaaacagga cttaccctgg ctgaatggcg
     4261 tgaatttccg cgctatgcac ttgcgcgcat actcatgcat gccgtaaaaa cagagcctgc
     4321 gcgtttctgg cgggttttcg ggtggtttgt tgcctgtttt accggtttcc cgtcagaaac
     4381 gccatgaggc cgttttagcg gtgcgtacaa ttaagggatt atggtaaatg ggggcgctcg
     4441 ggtggcggaa taccctctac accaagactt tttgtacagg tctctgtccg tcagtcacac
     4501 cctttttaag agcacatatc gttaattttt tttctctgcc gagccgcgtc ctgtctgggt
     4561 tttgtcattt ctattacgct taacttaatg aaaattcaaa agataattgt atctctccgc
     4621 gtgttgacag agttctcatg tcaggagtag tattcaagta ctgtatataa acacatgtat
     4681 ttatatacag tacttggtgt ggcagagaac taataacagc ctccggatac aggttcgaag
     4741 gcgataaacc gcacaccaga ttctgacaag caggaaaacg ataaaaataa caacaaagga
     4801 gagagttatg ggtggtggat ttaactataa cggggaaggt gctactggca ccggattgga
     4861 tcgtgatcca tatgttcgcg acagcaatgg taatgctatt ggtgttaaat caggctatca
     4921 cgcggagtcc tatgggacct caagtccagc cttagggcct aatggcgcta ttcagattac
     4981 tgctggggtt attgctgtgc ctggagataa gccccgacct gacggtggta gtggtggtgg
     5041 gaatactgtt aacaccggac cggcaggaca gctcctggtg atgaataaag gtcagcttgg
     5101 atactgggaa actcgttcta cgggcgcggg taacaatgag cataatacga gtgtatttgt
     5161 tgccgtaggt ccttctgagg cagaaaaaac tgcttctgca gagaaggcgt taaaggaaaa
     5221 acagcaggca gaagcagcag caaaagactt tgcggctaaa actgctgccg catcagccac
     5281 ggcggaaaaa gaacgccagc aggcaattgc tgctgcaact gcagcgggtc agcatcagtc
     5341 agtttctgat gcccgtaata gcctgaataa cgcgacgtca gatgtgtctc gtctgaaatc
     5401 agctgcagac agtgcactgc aggaggcaaa ggcaaaacgg aaggctgcta ttgatgctgt
     5461 acctgttgca acccaggcgg aaaataaata tcaggagctg cagcagaaga ttaaaggcct
     5521 gaagctgaaa aatggtgagt atggtacgga aaaatgggaa ataattggct ctaataagga
     5581 gcatgatcac tggggataca ggttttatcc atccggaatt accaaagctc aggttgatgt
     5641 ggcgcagagc gatgctgtga ataagcgaaa tcaggctacc agtcttgcca gtcaggcaac
     5701 agcagcagaa caggacagcc tgaaagctac agctgcctat aatgcggcag aaacgcgccg
     5761 tcaggctgct caggcggcgt taa
//
