LOCUS       NZ_CP056387             5783 bp    DNA     circular CON 17-MAY-2024
DEFINITION  Klebsiella pneumoniae strain RHBSTW-00610 plasmid pRHBSTW-00610_3,
            complete sequence.
ACCESSION   NZ_CP056387
VERSION     NZ_CP056387.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN15148664
            Assembly: GCF_013735155.1
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                     :: WTP3 T2-00610
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 72.9533752167854x
            Sequencing Technology :: Hybrid: Illumina and OXFORD_NANOPORE
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_013735155.1-RS_2024_05_17
            Annotation Date                   :: 05/17/2024 03:20:16
            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)                     :: 5,516
            CDSs (total)                      :: 5,390
            Genes (coding)                    :: 5,246
            CDSs (with protein)               :: 5,246
            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)              :: 144
            CDSs (without protein)            :: 144
            Pseudo Genes (ambiguous residues) :: 0 of 144
            Pseudo Genes (frameshifted)       :: 60 of 144
            Pseudo Genes (incomplete)         :: 80 of 144
            Pseudo Genes (internal stop)      :: 29 of 144
            Pseudo Genes (multiple problems)  :: 22 of 144
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP056387.1.
            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-00610"
                     /isolation_source="Freshwater sample from downstream of
                     wastewater treatment plant"
                     /db_xref="taxon:573"
                     /plasmid="pRHBSTW-00610_3"
                     /geo_loc_name="United Kingdom"
                     /collection_date="2017"
     gene            129..386
                     /locus_tag="HV247_RS27240"
                     /old_locus_tag="HV247_27245"
     CDS             129..386
                     /locus_tag="HV247_RS27240"
                     /old_locus_tag="HV247_27245"
                     /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            494..649
                     /locus_tag="HV247_RS27245"
                     /old_locus_tag="HV247_27250"
     CDS             494..649
                     /locus_tag="HV247_RS27245"
                     /old_locus_tag="HV247_27250"
                     /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(855..969)
                     /locus_tag="HV247_RS27425"
                     /pseudo=""
     CDS             complement(855..969)
                     /locus_tag="HV247_RS27425"
                     /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            1385..1576
                     /locus_tag="HV247_RS27250"
                     /old_locus_tag="HV247_27255"
     CDS             1385..1576
                     /locus_tag="HV247_RS27250"
                     /old_locus_tag="HV247_27255"
                     /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            1576..1998
                     /locus_tag="HV247_RS27255"
                     /old_locus_tag="HV247_27260"
     CDS             1576..1998
                     /locus_tag="HV247_RS27255"
                     /old_locus_tag="HV247_27260"
                     /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"
     gene            3114..5456
                     /locus_tag="HV247_RS27260"
                     /old_locus_tag="HV247_27265"
     CDS             3114..5456
                     /locus_tag="HV247_RS27260"
                     /old_locus_tag="HV247_27265"
                     /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            5467..5730
                     /locus_tag="HV247_RS27265"
                     /old_locus_tag="HV247_27270"
     CDS             5467..5730
                     /locus_tag="HV247_RS27265"
                     /old_locus_tag="HV247_27270"
                     /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"
     Typing          complement(856..1264)
                     /name="ColRNAI_rep_cluster_1987"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="96.341"
                     /coverage="99.0"
                     /evalue="0.0"
ORIGIN
        1 aaaagggttt cttttttgag tggtcgtggt ttcgatgata ctggcagcat atcaggtcaa
       61 caatatctgg ggtaagctga gtgcattaaa acctaaacgc catattgaaa tccataatgg
      121 gaactgaaat ggctaataaa actttggctg actatacaga gcaggaattt attgagttta
      181 tcgaaaaaat taaaaaagca gactttgcta ctgagtctga gcatgatgag gccatttatg
      241 agttcagcca gttgactgaa catccagatg gttgggatct tatttatcat cctcaagcag
      301 gagccgataa ctctcctgct ggtgttgtaa aaacagtaaa agagtggcga gcagctaacg
      361 gtaagccagg ttttaaaaaa tcgtgattga atgtgcgggt tcaagtgatg aatccgcaca
      421 tttttaactc tggatttgaa taataattac taggtatcca tttgcttaga ataataaaaa
      481 taaaaggtga tatatgaaaa aattactttt cctgggggtt gttaccgttt ctgtggttct
      541 ggcggcatgt caggtcaata atgttcgtga caccggaggt ggggctgttt caccttcatc
      601 gacggtgacc ggagtcacgc ttgatagcgg tacgaacggc aatccgtaaa ggatcttctt
      661 gagatcccat ttggatcgtc gtaatctctt gctctgtaaa cgaaaaaacc gccttggcgg
      721 gcggtttttc gaaggttcca agagttggcg ctctttgaac cgaggtaact ggcttatgag
      781 gagcacagta accaaaactt gttctttcag tttagcctta accggcgcat aacttcaaga
      841 ctaactcctc taaatcagtt accagtggct gctgccagtg gtgcttttgc atgtcttacc
      901 gggttggact caagatgata gttaccggat caaggcgcag cagtcggact gaacgggggg
      961 ttcgtgcata cagtccagct tggagcgaac tgcctacccg gaactgagtg tcaggcgtgg
     1021 aatgagataa acgcggccat aacagcggaa tgacaccggt aaaccgaatg gcaggaacag
     1081 gagagcgcac gagggagcca tcagggggaa acgcctggta tctttatagt cctgtcgggt
     1141 ttcgccacca ctgatttgag cgtcaaattc tgtgatgctt gtcagggggg cggagcctat
     1201 ggaaaaacgg ccgctgtgcg gcctctcctt ctccccatca cgcgatcgct cggttttctc
     1261 gagcttttat acgcatgctc ctgccgctcg ccgcagccga acggcaggag cgtagcgact
     1321 gagtgagcga ggaagcggaa aagagaacat ccctacactg agcactgacg ctctgaggcc
     1381 tcttatgacg aaacaacaga aaacagcgct gaacatggct aaattcatcc agaatcagtc
     1441 tctgctcctg ctggagaagc ttaacgagct tgatctcgat gtcgaggccg acctttgtga
     1501 gaaactccac gatgatgcgg agcatctttt ccgtacactg tcctcgagac tggatgaatt
     1561 acaggatggt aactgatggc cagagtgtct attagtgaag cggcacggct tgttaaggtt
     1621 agtcgtccta caatttacaa gatgattaac agtgggaagt taagttacac ctctgttgta
     1681 aagcacggga aggctattaa agttattgat acttctgagc ttattagagt gtttggttct
     1741 cttgatggtg taatcgatac tgtaaaatat gatgtaaaaa gtgacgcaga atctacaggt
     1801 attaacagcg ttggtttaca tgatttacaa catagaatcg ctttacttga agctgaaaac
     1861 gatggtctta aaggggctgt taaggctcga gatgagcata ttgattccct tcgtcaggct
     1921 atgcagcttc tggagcacaa gcacgaacct tcttcaccac cccattcccc gtggtggaaa
     1981 ttctggaaaa aatcctgacc ccatcatgct tcagttttcc tctccggcca ttccggggag
     2041 ttcctgaacc ttccaaaaaa tcgccagatc tctgaacgct cctcaccact aaaaataccc
     2101 acacactacg caaaattaaa attttgcaga ttctttattt aaaacaattg gttaatgaaa
     2161 aattaatgtg cagtgatgtg ttacaaagtg cagatccaag tcgtggacga ctctatggcg
     2221 aatcgtttac gaattgccca cgattcatat gtgaatcacg ctttattatc atgttgttat
     2281 gatgaatcga ctcttgattc aattcatcaa tttgggcgtt ttttgttcat ggtgactctt
     2341 gattcaattc acgattcgaa tcgccggtga atcgtgtggt gagtcgtccg gcgacttgcc
     2401 ataacgtgat tgccggccgt cgacgaaccc gattcctgaa cgtgctgaaa accggttttc
     2461 cggctgcgcc ggcaacgcct cacggccacg caataaattg cgtccccgtt caccgttttc
     2521 ggatcagaag aacgccggaa acaggactta ccctggctga atggcgtgaa tttccgcgct
     2581 atgcacttgc gcgcatactc atgcatgccg taaaaacaga gcctgcgcgt ttctggcggg
     2641 ttttcgggtg gtttgttgcc tgttttaccg gtttcccgtc agaaacgccc tgaggccgtt
     2701 ttagcggtgc gtacaattaa gggattatgg taaatggggg cgctcgggtg gcggaatacc
     2761 ctctacacca agactttttg tacaggtctc tgtccgtcag tcacaccctt tttaagagca
     2821 catatcgtta attttttttc tctgccgagc cgcgtcctgt ctgggttttg tcatttctat
     2881 tacgcttaac ttaatgaaaa ttcaaaagat aattgtatct ctccgcgtgt tgacagagtt
     2941 ctcatgtcag gagtagtatt caagtactgt atataaacac atgtatttat atacagtact
     3001 tggtgtggca gagaactaat aacagcctcc ggatacaggt tcgaaggcga taaaccgcac
     3061 accagattct gacaagcagg aaaacgataa aaataacaac aaaggagaga gttatgggtg
     3121 gtggatttaa ctataacggg gaaggtgcta ctggcaccgg attggatcgt gatccatatg
     3181 ttcgcgacag caatggtaat gctattggtg ttaaatcagg ctatcacgcg gagtcctatg
     3241 ggacctcaag tccagcctta gggcctaatg gcgctattca gattactgct ggggttattg
     3301 ctgtgcctgg agataagccc cgacctgacg gtggtagtgg tggtgggaat actgttaaca
     3361 ccggaccggc aggacagctc ctggtgatga ataaaggtca gcttggatac tgggaaactc
     3421 gttctacggg cgcgggtaac aatgagcata atacgagtgt atttgttgcc gtaggtcctt
     3481 ctgaggcaga aaaaactgct tctgcagaga aggcgttaaa ggaaaaacag caggcagaag
     3541 cagcagcaaa agactttgcg gctaaaactg ctgccgcatc agccacggcg gaaaaagaac
     3601 gccagcaggc aattgctgct gcaactgcag cgggtcagca tcagtcagtt tctgatgccc
     3661 gtaatagcct gaataacgcg acgtcagatg tgtctcgtct gaaatcagct gcagacagtg
     3721 cactgcagga ggcaaaggca aaacggaagg ctgctattga tgctgtacct gttgcaaccc
     3781 aggcggaaaa taaatatcag gagctgcagc agaagattaa aggcctgaag ctgaaaaatg
     3841 gtgagtatgg tacggaaaaa tgggaaataa ttggctctaa taaggagcat gatcactggg
     3901 gatacaggtt ttatccatcc ggaattacca aagctcaggt tgatgtggcg cagagcgatg
     3961 ctgtgaataa gcgaaatcag gctaccagtc ttgccagtca ggcaacagca gcagaacagg
     4021 acagcctgaa agctacagct gcctataatg cggcagaaac gcgccgtcag gctgctcagg
     4081 cggcgttaaa ttctgctgaa caggctgctg ctgctgaacg taagcggcag gaagctgagg
     4141 cggctgcagc agctgctgct gagaaaaaac gtcaggcaga cgcagtagca aaagcagcag
     4201 aggaagcgcg tgcggcagcg gaaaaagcca ggctgatgca ggagcgtcag gcagcagcag
     4261 ataagctgaa atccacagat attcagtctg ttcgcgggat cccgtctacg gcatcgcctg
     4321 cagcgtcacc catttcctgg gccgttgcat cacttggtgg tatatcgctg gatagtgtta
     4381 ctgcagggaa agcctggacg cagattgctg aggtgatggc taaactgcga ggtattgccg
     4441 gtgcgagtct tgttggtccc gtggtggcaa ctgctgtagg gctgttttgg tcacgtgatg
     4501 ttggtattgg cagtgatgtg gtgcccggac gtgacatcag cgggctgatg ccgggtgatg
     4561 cactgtcatt acctgatctg gccactttga ttaaagctgc tgacagtaaa acgggtgtca
     4621 gtatgccggt tcgaggccgg attatcgtgc gtgaaggcga ttatctggag tctcagttcg
     4681 ttcgaacacc tgttgccggt agtgttccgg ttgttcgggc tactctggat aaagctactg
     4741 gttactgggg atatacgttg ccggcgatac agggcgtgcc cggacagaca atactggtaa
     4801 gtccgtcaga tgcgccgggc gttaatgctc ctctgggact tgctgggccg gttcctttgc
     4861 ctgaaactat tatacatacc ggtgggcaaa ctacggtccc tcaggggggg actgtgacag
     4921 tatctcctgt tattggtgaa gttgattttc gagatcttat ccttgttttc cctcctgagt
     4981 cagggttaaa gccgttatat gtgatgccag ttagccctta tggagatgca acagaaaaag
     5041 gcgagcacag cggaagacct tataatccgg ataaggcagg tggtcctgta cagaatctta
     5101 actggcgtag tgcagtcatc aacaaggccg ggattgataa ggtgaagcta cataccggtc
     5161 gctttggtga atcagcagca aacaaagtaa tgatcgaccg tctggagaaa atcctgagcg
     5221 gtcagttaca ggtaactgat acggacaagc ggttttacac ccatgaactc agagagctgg
     5281 aacgttatcg tgctttaggg gtccctgata atgtgaagcc agatgataaa ggtgttacgt
     5341 ggaataacac tcatacagca acgctggaag attataaaat taatgaaaaa actgatccgc
     5401 tctatacaaa ggatgctgaa gaggcagagt ataaagcaga gctaaaaaat aaatgagggg
     5461 gagagaatga gtaatccgat tgaagacatc attaaaaatg aatcggtaag tgatgtgctt
     5521 cgctactttg gtcctggtcg cgacatttca aaaattgacc gtatgtatgt ttcatataag
     5581 tttgaagtga tctctgaagg cgttctttta tctgaataca aaaagttatt cgacaatgga
     5641 gaactaaagt atgactctaa taaaaatgtt attaaggggc ctaactggaa agagcctgct
     5701 tttgtaacac aaaaaaaata cggcatttaa agtgtgcata tgaagccctt tgaaaagagg
     5761 gctttgatta aagctcacat atg
//
