LOCUS       NZ_CP055323             3906 bp    DNA     circular CON 26-JAN-2024
DEFINITION  Klebsiella grimontii strain RHBSTW-00555 plasmid pRHBSTW-00555_9,
            complete sequence.
ACCESSION   NZ_CP055323
VERSION     NZ_CP055323.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN15148651
            Assembly: GCF_013608545.1
KEYWORDS    RefSeq.
SOURCE      Klebsiella grimontii
  ORGANISM  Klebsiella grimontii
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Klebsiella/Raoultella group; Klebsiella.
REFERENCE   1  (bases 1 to 3906)
  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 3906)
  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 T2-00555
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 72.8782588803698x
            Sequencing Technology :: Hybrid: Illumina and OXFORD_NANOPORE
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 01/24/2024 14:17:59
            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)                     :: 6,253
            CDSs (total)                      :: 6,136
            Genes (coding)                    :: 5,958
            CDSs (with protein)               :: 5,958
            Genes (RNA)                       :: 117
            rRNAs                             :: 9, 8, 8 (5S, 16S, 23S)
            complete rRNAs                    :: 9, 8, 8 (5S, 16S, 23S)
            tRNAs                             :: 85
            ncRNAs                            :: 7
            Pseudo Genes (total)              :: 178
            CDSs (without protein)            :: 178
            Pseudo Genes (ambiguous residues) :: 0 of 178
            Pseudo Genes (frameshifted)       :: 69 of 178
            Pseudo Genes (incomplete)         :: 120 of 178
            Pseudo Genes (internal stop)      :: 29 of 178
            Pseudo Genes (multiple problems)  :: 35 of 178
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP055323.1.
            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..3906
                     /organism="Klebsiella grimontii"
                     /mol_type="genomic DNA"
                     /strain="RHBSTW-00555"
                     /isolation_source="Freshwater sample from upstream of
                     wastewater treatment plant"
                     /db_xref="taxon:2058152"
                     /plasmid="pRHBSTW-00555_9"
                     /geo_loc_name="United Kingdom"
                     /collection_date="2017"
     gene            join(3703..3906,1..297)
                     /locus_tag="HV234_RS31085"
                     /old_locus_tag="HV234_31095"
     CDS             join(3703..3906,1..297)
                     /locus_tag="HV234_RS31085"
                     /old_locus_tag="HV234_31095"
                     /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_023307482.1"
                     /translation="MIRFVIAAFISILTIKGAFADINVFIAPNDLNYETNSTSEINHYL
                     DELKKNNTKVDVDKDPKISNELKKYIGIVNDRVSDVFSESEFKKYRGDVCKISITTGDT
                     APSDPVLTQVFTYDELADNKKQSCQKLNNELIKKVAKDKGLSYPKVVKDYGSLSIDMIF
                     LFK"
                     /name="hypothetical protein"
     gene            345..479
                     /locus_tag="HV234_RS31090"
                     /old_locus_tag="HV234_31100"
     CDS             345..479
                     /locus_tag="HV234_RS31090"
                     /old_locus_tag="HV234_31100"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000724569.1"
                     /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_110216848.1"
                     /translation="MSICVIILLAACQANYIRDVKGGTVAPSASSDIRTSSSQPIGSS"
                     /name="colicin release lysis protein"
     gene            complement(644..786)
                     /locus_tag="HV234_RS31590"
                     /pseudo=""
     CDS             complement(644..786)
                     /locus_tag="HV234_RS31590"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001326446.1"
                     /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            1191..1382
                     /locus_tag="HV234_RS31095"
                     /old_locus_tag="HV234_31105"
     CDS             1191..1382
                     /locus_tag="HV234_RS31095"
                     /old_locus_tag="HV234_31105"
                     /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            1382..1804
                     /locus_tag="HV234_RS31100"
                     /old_locus_tag="HV234_31110"
     CDS             1382..1804
                     /locus_tag="HV234_RS31100"
                     /old_locus_tag="HV234_31110"
                     /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_025714834.1"
                     /translation="MARVSISEAARLVKVSRPTIYKMINSGKLSYTSVVKHGKAIKVID
                     TSELIRVFGSLDGVIDTVKYDVKSDAESTSINSVGLHDLQHRIALLEAENDGLKGAVKA
                     RDEHIDSLRQAMQLLEHKREPSSPPHSPWWKFWKKS"
                     /name="helix-turn-helix domain-containing protein"
     gene            2849..3601
                     /locus_tag="HV234_RS31105"
                     /old_locus_tag="HV234_31115"
     CDS             2849..3601
                     /locus_tag="HV234_RS31105"
                     /old_locus_tag="HV234_31115"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001711308.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_023307481.1"
                     /translation="MGIENSNQGPGWHDHDTPYGTIHSYDGDTGTYGGGGTGGNAGGGH
                     TGLTANTWVDIATTKDYNGRYMSMCLNNLKDHEGSINTMYRDSKGNITVGIGHYLGSAE
                     MAQALPFNRTKVMHVHGDDLESEVAVSKSDIASAFNAYKSNPRDVPSMHLSNADVIGQC
                     IKDVQTTENGLRGLYPGYDRFSDPRKTALVDMGFNLGIPTLKSKFPKFNDAVNRGDWNV
                     AADESHRDLNQRGDKRNKDTADQLRYNR"
                     /name="hypothetical protein"
     Typing          complement(678..1143)
                     /name="ColRNAI_rep_cluster_1987"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="88.935"
                     /coverage="92.0"
                     /evalue="5.96e-162"
ORIGIN
        1 aaatatattg gtattgttaa cgatagagtg tctgatgttt tcagtgaaag tgaatttaag
       61 aagtatcgtg gcgatgtctg taaaatatca ataacaactg gggatacggc tccatctgat
      121 cctgttttga ctcaagtgtt tacttatgat gaactagctg ataataaaaa acaatcatgt
      181 caaaaattaa ataatgagct aataaaaaaa gttgctaaag ataagggttt atcatatccg
      241 aaagttgtta aagattatgg atctttatca attgatatga tctttttatt taaataaaaa
      301 taaatttacg gtgttgttta tgccttttaa aaaagtcttt tccaatttct atttgtgtaa
      361 ttatattgtt ggctgcctgc caagctaact atattaggga cgtaaaagga ggaactgttg
      421 ctccatcagc ttcttcagat ataagaacgt cgagttcgca acccatagga tcttcttgag
      481 atccttagcg gatagtcgta atctctgctc tgtaaacgaa aaaaccaccc ggcaaggtgg
      541 ttttttcgaa ggttcattaa ccggcaagtt tctgaaccgt ggtaactggc tttcgcagag
      601 cacagaaacc gaattagttc taacagtgta gctgtagttt acctcacact tcaacacttc
      661 tttgttctgc gaatgcgtta ccagtggctg ctgccagtgg tgataagtcg tgtcttttcg
      721 ggttggactc aagttgatag ttaccgaaaa ggcgcagcag tcggactgaa cggggggttc
      781 gtgcatacag tccagcttgg agcgaactgc ctacccggaa ctgagtgtca ggcgtggaat
      841 gagataaacg cggccataac agcggaatga caccggtaaa ccgaatggca ggaacaggag
      901 agcgcacgag ggagccatca gggggaaacg cctggtatct ttatagtcct gtcgggtttc
      961 gccaccactg atttgagcgt caaattctgt gatgcttgtc aggggggcgg agcctatgga
     1021 aaaacggccg ctgtgctgcc ttctccctct ccgagctgtc tgctctatgt cgttatgtgc
     1081 gcgttgcgac cgctcgccgc agccgaacgg caggagcgta gcgactgagt gagcgaggaa
     1141 gcggaaaaga gatctgtctg acattgagca ctgacgctct gaggcccttt atgacgaaac
     1201 aacagaaaac agcgctgaac atggctaaat tcatccagaa tcagtctctg ctcctgctgg
     1261 agaagcttaa cgagcttgat ctcgatgttg aggccgacct ttgtgagaaa ctccacgatg
     1321 atgcggagca tcttttccgt acactgtcct cgagactgga tgaattacag gatggtaact
     1381 gatggccaga gtgtctatta gtgaagcggc acggcttgtt aaggttagcc gtcccacaat
     1441 ttacaagatg attaacagtg ggaagttaag ttacacctct gttgtaaagc acgggaaggc
     1501 tattaaagtt attgatactt cagagcttat tagagttttt ggttctcttg atggtgtcat
     1561 cgatactgta aaatatgatg taaaaagtga cgcagaatct acaagtatta acagcgttgg
     1621 tttacatgat ttacaacata gaatcgctct acttgaagct gaaaacgatg gtcttaaagg
     1681 ggctgttaag gctcgagatg agcatattga ttcccttcgt caggctatgc agcttctgga
     1741 gcacaagcgc gagccttctt caccacccca ttccccgtgg tggaaattct ggaaaaaatc
     1801 ctgatcctgc catgcttgag ttttcctctc cggccatccc agggagttcc tgaaccttcc
     1861 caaaaatcgc cagatctctg aacgctcctc acgactaaaa atacccacac actacgcaaa
     1921 attaaaattt tgcagattcc ttatttaaaa caattggtta atgaaaaatt aatgtgcagt
     1981 gatgtgttac aaagtgcaga tccaagtcgt ggacgactct atggcgaatc gtttacgaat
     2041 tgcccacgat tcatatgtga atcacgcttt attatcatgt tgttatgatg aatcgactct
     2101 tgattcaatt catcaatttg ggcgtttttt gttcatggtg actcttgatt caattcacga
     2161 ttcgaatcgc cggtgaatcg tgtggtgagt cgtccggcga cttgccataa cgtgattgcc
     2221 ggccgtcgac gaacccgatt cctgaacgtg ctgaaaaccg gttttccggc tgcgccggca
     2281 acgcctcacg gccacgcaat aaattgcgtc cccgttcacc gttttcggat cagaagaacg
     2341 ccggaaacag gacttaccct ggctgaatgg cgtgaatttc cgcgctatgc acttgcgcgc
     2401 atactcatgc atgccgtaaa aacagagcct gcgcgtttct ggcgggtttt cgggtggttt
     2461 gttgcctgtt ttaccggttt cccgtcagaa acgtcctgag gccgttttag cggtgcgtac
     2521 aattatggct ttatgttaaa tcattgccgc aaacagccac gaaaagctta cttggcatcg
     2581 tctctactag cctgttaaaa ctcatatttt gaactcaatc atttaaattt cgtcttttca
     2641 ggcgtacaac ttcgataact aaaaatttat gtgaaataga tatttatcca acagttatgt
     2701 agataagaat aaaacatcaa tatttttttg agagtgtcaa ggaagttata gtgagaattt
     2761 ttctaaaagt attgacagat tcaaagaaga tgaataaatt gatactgttt atttatacag
     2821 ttgttttttt gtcaaagagg taatgtttat gggtattgaa aattcaaatc aggggccagg
     2881 atggcatgat catgatactc cttatggcac tattcacagc tatgatggtg atactggtac
     2941 gtatggaggt ggtggaactg gagggaatgc tggtggtggg cataccggtc ttactgcaaa
     3001 tacatgggta gatatcgcga caacaaaaga ttataacggt agatatatgt ctatgtgttt
     3061 aaataatctt aaagaccatg aaggttcaat taatacaatg tatagagact ctaaaggtaa
     3121 tattaccgtt ggtattggtc attaccttgg ttctgctgag atggctcagg cattaccttt
     3181 taatcgaaca aaagttatgc atgtgcatgg tgatgatctt gaaagtgagg tcgccgtatc
     3241 taagtctgat atagcttcag catttaatgc atacaaatca aacccaagag atgttcctag
     3301 tatgcatctt tcaaatgctg atgtaatagg tcagtgtatt aaggatgttc aaactactga
     3361 aaatggtttg cgtggacttt acccaggtta tgatcgtttt tcagatccac gaaaaacagc
     3421 attggtagat atgggtttta atcttggtat tcctacgctt aagtctaaat ttccgaagtt
     3481 taacgatgca gttaatcgtg gtgattggaa tgttgctgca gatgaaagtc atcgagatct
     3541 taatcaaaga ggtgataagc gtaataaaga tacggcagat caattgcgtt ataatcggta
     3601 atgatttaga tttacaactc ctgccatcaa atggcaggag tgtcctcacg atattaaaac
     3661 taagtcatga ggtttctgat cttatatttt atgggtggta ttatgattcg ttttgtgatt
     3721 gctgctttta tttcaatctt gacaattaaa ggagcttttg ctgatatcaa tgtttttata
     3781 gcgcctaacg atctaaatta tgaaacaaat tctactagtg aaattaatca ttatttagat
     3841 gagctgaaaa aaaataatac taaagttgat gttgataaag acccaaaaat tagcaatgag
     3901 ttaaaa
//
