LOCUS       NZ_CP055321             5010 bp    DNA     circular CON 26-JAN-2024
DEFINITION  Klebsiella grimontii strain RHBSTW-00555 plasmid pRHBSTW-00555_7,
            complete sequence.
ACCESSION   NZ_CP055321
VERSION     NZ_CP055321.1
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 5010)
  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 5010)
  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
            CP055321.1.
            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..5010
                     /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_7"
                     /geo_loc_name="United Kingdom"
                     /collection_date="2017"
     gene            93..338
                     /locus_tag="HV234_RS31030"
                     /old_locus_tag="HV234_31040"
     CDS             93..338
                     /locus_tag="HV234_RS31030"
                     /old_locus_tag="HV234_31040"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_012848468.1"
                     /GO_component="GO:0110001 - toxin-antitoxin complex
                     [Evidence IEA]"
                     /GO_function="GO:0003677 - DNA binding [Evidence IEA];
                     GO:0097351 - toxin sequestering activity [Evidence IEA]"
                     /GO_process="GO:0045927 - positive regulation of growth
                     [Evidence IEA]; GO:0006355 - regulation of DNA-templated
                     transcription [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="type II toxin-antitoxin system Phd/YefM family
                     antitoxin"
                     /protein_id="WP_025987695.1"
                     /translation="MHAINFTDARKHFAETMKRVTDDAEPVRVMRRDAPDIVMIDAGEY
                     EALIETVYLFSNPANAEHINESMKQAERGEFVEVEY"
                     /name="type II toxin-antitoxin system Phd/YefM family
                     antitoxin"
     gene            319..594
                     /locus_tag="HV234_RS31035"
                     /old_locus_tag="HV234_31045"
     CDS             319..594
                     /locus_tag="HV234_RS31035"
                     /old_locus_tag="HV234_31045"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_017412855.1"
                     /GO_process="GO:0008219 - cell death [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="Txe/YoeB family addiction module toxin"
                     /protein_id="WP_019725129.1"
                     /translation="MSKWNIKFTRNGADDLNYWRDTDKKKFERIRQLLLSIEADPLTGI
                     GKPERLRHHKDPALYSRRIDQSHRLVYSIQNGEIIIYAARYHYGDK"
                     /name="Txe/YoeB family addiction module toxin"
     gene            842..1747
                     /locus_tag="HV234_RS31040"
                     /old_locus_tag="HV234_31050"
     CDS             842..1747
                     /locus_tag="HV234_RS31040"
                     /old_locus_tag="HV234_31050"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001697689.1"
                     /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_019725130.1"
                     /translation="MHNAALELFNERLPHKPYFSDDLHFGVRIAGKERAILAKYIQFNQ
                     PHAMFWLGFDVDRAGSSIDWSDRNAPAPTLTITNPENGHAHLLYALENSIRTAPDGKIK
                     PLRYAASVENALRKKLEADAGYSGLICKNPNHNHWKIAVWQPKLYTLDWLADFLDLNTG
                     NDKEIVADYGLGRNCTLFDKTRKWAYRAIRQGWPEYEQWLQACYERACAYNLQFARPLD
                     ENEVRGIAKSIAKWTSNKFSPEEFSKFVDITHSSEIQSKRGKKSGQSRRKGSLEEIKPW
                     VAMGISRRKYFYIKKNGEIR"
                     /name="replication initiation protein"
     gene            1744..2451
                     /locus_tag="HV234_RS31045"
                     /old_locus_tag="HV234_31055"
     CDS             1744..2451
                     /locus_tag="HV234_RS31045"
                     /old_locus_tag="HV234_31055"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001258875.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_004198042.1"
                     /translation="MKTFVTLWTIVFLAFIAVMCTVDISNYIPSVYTVFSKNRPLVTGA
                     LSILLISVFIWLMVSLYLLKKYSVKVEKLSLGGVNILFNESATLYKKSVKNHLDSKRAI
                     FKLRKNVDAFDEVISSYYQTYQFIRDEMKILNPKKDREIYDFSNEMLMVLNRFLTNYQN
                     NYKRWYKYISDKDEVVDRVSGDVMRFHATSINKIQMQYYDYERILKGFKDVNRFFVNDV
                     KPKFGINTDKWNW"
                     /name="hypothetical protein"
     gene            complement(2488..3102)
                     /locus_tag="HV234_RS31050"
                     /old_locus_tag="HV234_31060"
     CDS             complement(2488..3102)
                     /locus_tag="HV234_RS31050"
                     /old_locus_tag="HV234_31060"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_012822468.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="TIR domain-containing protein"
                     /protein_id="WP_019725132.1"
                     /translation="MGKHKVFISYHHANDQYYKNALEKMNEEHEIFVNRSVSLGDIDED
                     EAPQKIREIIRDEYLRDTSVLILLVGTETKNRKHVDWELYSSMRDSTINKKSGILVVNL
                     PSTNTTYIRSTHGTNEKSEVHPTVTEWFSIDKRSTYEERFPYMPARIIDNFMKSGSYIS
                     VVNWNQIENNPETLRKLIDMTYNDREKATYDMSREMRMHNS"
                     /name="TIR domain-containing protein"
     gene            3504..3905
                     /locus_tag="HV234_RS31055"
                     /old_locus_tag="HV234_31065"
     CDS             3504..3905
                     /locus_tag="HV234_RS31055"
                     /old_locus_tag="HV234_31065"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_009310048.1"
                     /GO_function="GO:0003677 - DNA binding [Evidence IEA]"
                     /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_019725133.1"
                     /translation="MTRVSISEAARLTGKSRTTLHRLIKTGELSTCSGERNTKMVDISE
                     LLRVFGPFDQPKNEHLTRQVPEQRDTAPADQSEHVIRQLKQQIEHLNILILSKDSHIDS
                     LKQAMLLLENHQAKLTEPPAPWWKFWKKS"
                     /name="helix-turn-helix domain-containing protein"
     gene            complement(4705..4866)
                     /locus_tag="HV234_RS31060"
                     /old_locus_tag="HV234_31070"
     CDS             complement(4705..4866)
                     /locus_tag="HV234_RS31060"
                     /old_locus_tag="HV234_31070"
                     /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_162870772.1"
                     /translation="MAKHWSGQECPKTGTYGQYHDTDNSYAGSEYDRHVSKGDKFPPSK
                     NNHHFQEK"
                     /name="hypothetical protein"
ORIGIN
        1 ctgatttggt tgtgggtttt tagggaaata tctttatgta cttatttgcg tacatgttct
       61 atgctaagcc ccaacaaatg ggggttaaca acatgcatgc aatcaatttt actgatgccc
      121 gtaaacattt tgccgagacg atgaagcgcg tcactgatga tgctgaaccg gtacgtgtca
      181 tgcgccgtga tgcgcctgat attgttatga tcgatgcggg agagtatgag gcgctaatcg
      241 aaacggtcta tctgttcagc aatccggcga acgcagagca tatcaatgag tcaatgaaac
      301 aggcggagcg cggcgaattt gtcgaagtgg aatattaagt tcactaggaa tggcgctgat
      361 gaccttaact actggcgtga tactgacaaa aagaagtttg agcgtatccg gcaactgttg
      421 ctcagcatcg aggctgatcc gctgacaggt ataggaaaac ccgaacggct gcggcaccac
      481 aaagatccgg cactctactc ccgcaggatt gatcagagcc accgtctggt ctattcaatc
      541 cagaacggag aaatcatcat ctacgcagcc cgttatcact atggtgacaa atagcaaaag
      601 tcgatatagc ccgcttgatg cgggcttttc atgcaaggcg tacaacggat gttagggtaa
      661 gtcgctgtca gatcgacaca aaggcaaagt cggtgtaacg ttagcctcag aaaaaacaaa
      721 gccccggaaa tcatgtcata tcttggcgga tcgcatgata accagggcta ggtcgaaacc
      781 ttgaaaggat attagcacat gaaccgtgcc agacaacagc ccgccataag cgcagggcac
      841 attgcataac gccgcactcg aacttttcaa cgaacgctta ccacacaagc cgtacttttc
      901 ggacgatctg cactttggtg tccgtatcgc cggtaaggaa cgcgctattc tggcgaaata
      961 tatccagttc aatcagcctc acgccatgtt ctggctggga tttgacgttg accgcgccgg
     1021 ttcctccatc gactggagcg accgcaacgc gcctgcaccg acgctgacca taactaaccc
     1081 cgaaaacgga cacgcgcacc tgctgtacgc gctggaaaac tcgatacgca ccgcgccgga
     1141 cggcaaaata aaaccgttac gctacgccgc ctccgtggag aatgcgctac gtaaaaaatt
     1201 agaggctgac gctggatatt cggggctcat ctgcaaaaat ccgaaccaca accactggaa
     1261 aatcgccgtg tggcagccga agctctacac tctggactgg ctggccgact ttctcgatct
     1321 gaacacaggg aatgacaagg aaatcgttgc cgactacggc ttaggccgta actgcacgtt
     1381 gttcgacaaa acccgtaagt gggcatatcg cgccatccgt cagggctggc ctgagtatga
     1441 gcagtggctg caagcctgct acgaacgcgc ttgcgcatac aacctgcaat ttgcacggcc
     1501 tctggatgaa aatgaggtaa gagggatagc taagagcatt gctaaatgga catcaaataa
     1561 attttcacct gaagaattca gtaaatttgt tgatattact cattcctctg aaattcaatc
     1621 aaagagaggg aaaaagtcag gacagtcaag gaggaaagga agcctagagg aaataaaacc
     1681 ttgggtagct atgggaataa gcaggcggaa gtatttttat atcaagaaaa atggtgaaat
     1741 aagatgaaaa ccttcgtaac tctttggact atagtttttt tagcatttat tgccgtgatg
     1801 tgtactgttg atatatctaa ttacattccg tctgtttaca cagtttttag taagaataga
     1861 cctcttgtaa ctggcgccct ttctattctt ttgatatctg tttttatttg gctgatggta
     1921 tccctctact tacttaaaaa gtattcggtt aaggttgaga aacttagcct tggtggagtg
     1981 aatatacttt tcaatgagag tgctacactt tacaaaaaga gtgtaaaaaa tcacctagat
     2041 tcaaaaagag caattttcaa attaagaaaa aacgttgatg cctttgatga ggttatttca
     2101 tcatattatc agacttacca atttattcgt gatgaaatga aaatactaaa ccctaaaaaa
     2161 gatcgtgaga tttatgattt cagcaatgag atgctcatgg tgttaaatag atttctaact
     2221 aactaccaga acaactacaa gcgttggtat aagtacatat cagacaaaga tgaggttgtt
     2281 gatagggtta gcggtgatgt catgagattt catgcaacca gcataaataa aatacaaatg
     2341 cagtattatg attatgagcg tattttaaaa ggttttaaag atgttaaccg gttctttgtt
     2401 aatgatgtga agcctaagtt tggaatcaat acagataagt ggaactggta aattaaagga
     2461 gtagccaagg ctactccttg gatagtacta tgaattatgc attctcattt ctctcgacat
     2521 atcatacgtt gctttttctc tatcgttata agtcatgtct attaattttc tgagtgtttc
     2581 tgggttgttt tctatttgat tccagttgac cactgatata taagacccgc tcttcatgaa
     2641 gttgtctatt attcttgctg gcatatatgg gaacctttcc tcataagttg agcgcttatc
     2701 aatagaaaac cattcagtta cggtaggatg aacttctgat ttttcattag ttccatgtgt
     2761 tgaacgaatg tacgtagtat ttgttgacgg gagattgacg actaaaattc ctgatttttt
     2821 gttaatggta ctatctctca tgctagagta aagttcccaa tctacgtgtt ttctgttttt
     2881 tgtttcagtt ccaacaagaa ggataagaac tgatgtatct ctaagatatt catctcttat
     2941 tatctctctt attttttgtg gggcttcatc ttcatctata tcacctaatg atactgagcg
     3001 attcacgaat atttcatgtt cctcattcat tttttcaagt gcgtttttgt agtactgatc
     3061 attcgcatgg tggtagctaa tgaatacctt atgctttccc atttttattg tccttttttt
     3121 gtttgtgtgc actctatttt gcacttgaac ctatatcaga taacagctct cttttagaga
     3181 gctctttttt tctcagccag cacacatagg gtcccttcag caaggtctcg ccatgactgg
     3241 tttagggcgg gctcgttgct tccctaaacg ccttgagaag agagctatca cctcacttta
     3301 ttcttacgta ccgctcgccg cagtcttatg accgaacgta gtgagcgaat gcgcgaggaa
     3361 gcggaaagtc atttgttgcc tgcattttgc acggtcactc ctgtgtttca tcgcccttct
     3421 gaaaaacaca tcacttctgg accagtatgt cgtaagctgg cccctgtttc cttgagactg
     3481 aatgtattaa aggatgataa ctgatgacca gagtgtctat tagtgaggct gcacggctga
     3541 cgggtaagag ccggacaacg ctgcacaggt taatcaaaac aggtgaactg tccacttgta
     3601 gcggtgaacg aaatacaaaa atggtcgata tatcagagct tttacgtgtt ttcggaccgt
     3661 ttgaccaacc gaagaatgaa caccttactc gacaagtacc tgaacagcgt gatacagcgc
     3721 ctgctgacca gagtgaacat gtcattcgtc aactgaaaca gcagattgaa caccttaaca
     3781 tattgatttt atcgaaggat tcgcacattg acagcctgaa acaggccatg ctccttcttg
     3841 aaaatcacca ggcaaaatta actgaacccc cggcgccgtg gtggaaattc tggaaaaaat
     3901 cctgaccccg tcatgcttca gttttcctct ccggccattc cggggagttc ctgaaccttc
     3961 ccgaaaatcg tcagatctct gaacgctcct caccacgaaa aatacccaca ccccacgcaa
     4021 aattttaatt ttgcagattt gtatttaata tcagcagctt actttactga aatttcgttt
     4081 tttaaatttt atttatatag atccgactct atgacgagtc gtcatagagt ccccggcgag
     4141 tcgtcataga gtcggtaacg actcaggcct ataaaaacaa tgagttaata acgacccgac
     4201 tctagatccg actccccgtt tggttgtttt ttagacgtgg cgactctggg tacgactcta
     4261 gtgaagagtc gccggggaat cgtgtggtga gtcgtccggc gacttgccat aacgtgattg
     4321 ccggccgtgg acgaaccgat tcctgaacgt gctgaaaacc ggttttccgg ctgcgccggc
     4381 aacgcttcac ggccacgcaa taaattgcgt ccccgttcac cgttttcgga tgggaagaac
     4441 gccggaaaca ggacttcccc tggctgaatg gtgtcaattt ccgcgctatg cacttgtgcg
     4501 catactcatg catgccgtaa aaacagagcc tgcgcgtttc tggcgggttt tcgggtggtt
     4561 tgttgccttg tttaccggtt tcccgtcaga aacgccctga gggcatctca ggcggtgctg
     4621 ataacggatg ttatggtaaa tcaagtgaat ggcaggtaca aaaaaagccc cagagggctt
     4681 ttagtttaga cttctgaaga tattttattt ttcttggaag tggtggttgt ttttgctcgg
     4741 agggaactta tcacccttgc tcacatggcg atcatattca gaaccagcgt atgagttgtc
     4801 ggtatcatga tattgaccgt aagtacctgt ttttggacat tcttgcccag accaatgttt
     4861 tgccatttac ttttcctttg ctcgttttag gagctaagct cctagcggta cgaaattgtg
     4921 ccgcacttca taaatgtaat tgcttgaaat tatgcttcaa tgtattgact tgttgttttt
     4981 gtggttattc gattgagttc acattttgag
//
