LOCUS       NZ_CP099141             3580 bp    DNA     circular CON 28-MAY-2024
DEFINITION  Klebsiella pneumoniae strain RHB28-SO-C05 plasmid unnamed1, complete
            sequence.
ACCESSION   NZ_CP099141
VERSION     NZ_CP099141.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN15488602
            Assembly: GCF_029718135.1
KEYWORDS    RefSeq.
SOURCE      Klebsiella pneumoniae
  ORGANISM  Klebsiella pneumoniae
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Klebsiella/Raoultella group; Klebsiella.
REFERENCE   1  (bases 1 to 3580)
  AUTHORS   Matlock,W.
  TITLE     Plasmid overlap and evolution between Enterobacterales isolates from
            bloodstream infections and non-human compartments
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 3580)
  AUTHORS   Matlock,W.
  TITLE     Direct Submission
  JOURNAL   Submitted (13-JUN-2022) Nuffield Department of Medicine, University
            of Oxford, John Radcliffe Hospital, Oxford OX3 9DU, United Kingdom
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: Unicycler v. v0.4.4
            Assembly Name                     :: RHB28-SO-C05
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 163x
            Sequencing Technology             :: Illumina/Nanopore
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_029718135.1-RS_2024_05_28
            Annotation Date                   :: 05/28/2024 05:02:24
            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)                     :: 5,090
            CDSs (total)                      :: 4,965
            Genes (coding)                    :: 4,878
            CDSs (with protein)               :: 4,878
            Genes (RNA)                       :: 125
            rRNAs                             :: 9, 8, 8 (5S, 16S, 23S)
            complete rRNAs                    :: 9, 8, 8 (5S, 16S, 23S)
            tRNAs                             :: 87
            ncRNAs                            :: 13
            Pseudo Genes (total)              :: 87
            CDSs (without protein)            :: 87
            Pseudo Genes (ambiguous residues) :: 0 of 87
            Pseudo Genes (frameshifted)       :: 43 of 87
            Pseudo Genes (incomplete)         :: 38 of 87
            Pseudo Genes (internal stop)      :: 24 of 87
            Pseudo Genes (multiple problems)  :: 14 of 87
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP099141.1.
            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..3580
                     /organism="Klebsiella pneumoniae"
                     /mol_type="genomic DNA"
                     /strain="RHB28-SO-C05"
                     /isolation_source="Pooled soil sample collected from floor
                     of pig farm"
                     /db_xref="taxon:573"
                     /plasmid="unnamed1"
                     /geo_loc_name="United Kingdom"
                     /collection_date="2017"
     gene            complement(158..439)
                     /locus_tag="NFK38_RS25410"
                     /old_locus_tag="NFK38_25395"
     CDS             complement(158..439)
                     /locus_tag="NFK38_RS25410"
                     /old_locus_tag="NFK38_25395"
                     /inference="COORDINATES: protein motif:HMM:NF016875.4"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="type II toxin-antitoxin system RelE/ParE family
                     toxin"
                     /protein_id="WP_087843277.1"
                     /translation="MDVQFKSKAYEKFISTGSTAGINQSFAKKLRAIYHTFSSAIELND
                     ISSVKYLEFHELKGDRKNEYAVSINGPWRVVFKTDGKTVYDVDIENYH"
                     /name="type II toxin-antitoxin system RelE/ParE family
                     toxin"
     gene            751..1023
                     /locus_tag="NFK38_RS25415"
                     /old_locus_tag="NFK38_25400"
     CDS             751..1023
                     /locus_tag="NFK38_RS25415"
                     /old_locus_tag="NFK38_25400"
                     /inference="COORDINATES: protein motif:HMM:TIGR02607.1"
                     /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="HigA family addiction module antitoxin"
                     /protein_id="WP_256944066.1"
                     /translation="MHPGEYIREVYMEPFNIHAADLAKYLEVSPSTLSRILNAKADLSV
                     DMAFRLSKVLGRSPESWINLQTQYSLDKARKESADNFSVLRPIPL"
                     /name="HigA family addiction module antitoxin"
     gene            1793..1984
                     /locus_tag="NFK38_RS25420"
                     /old_locus_tag="NFK38_25405"
     CDS             1793..1984
                     /locus_tag="NFK38_RS25420"
                     /old_locus_tag="NFK38_25405"
                     /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_087843279.1"
                     /translation="MSKQQKTALNMAKFIQNQSLLLLEKLNELDLDVEADLCEKLHDDA
                     EHLFRTLSSRLDELQDGN"
                     /name="Rop family plasmid primer RNA-binding protein"
     gene            1984..2406
                     /locus_tag="NFK38_RS25425"
                     /old_locus_tag="NFK38_25410"
     CDS             1984..2406
                     /locus_tag="NFK38_RS25425"
                     /old_locus_tag="NFK38_25410"
                     /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_045265535.1"
                     /translation="MARVSISEAARLVKVSRPTIYKMINSGKLSYTSVVKHGKAIKVID
                     TSELIRVFGSLDGVIDTVKYDVKSDAESTGVNSVGLHDLQHRIALLEAENDGLKGAVKA
                     RDEHIDSLRQAMQLLEHKHEPSSPPHSPWWKFWKKS"
                     /name="helix-turn-helix domain-containing protein"
     gene            3226..3492
                     /locus_tag="NFK38_RS25430"
                     /old_locus_tag="NFK38_25415"
     CDS             3226..3492
                     /locus_tag="NFK38_RS25430"
                     /old_locus_tag="NFK38_25415"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001414864.1"
                     /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_225002567.1"
                     /translation="MAYKNKSGQPRERAMVAAYSLVTQFGGKQQDVAKVLGCSPSTVHQ
                     WVKEIGFKKEIAGLKQELSDANEYIEELAENLGLEYHSDDQED"
                     /name="helix-turn-helix domain-containing protein"
     Typing          complement(1265..1636)
                     /name="ColRNAI_rep_cluster_1987"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="96.783"
                     /coverage="91.0"
                     /evalue="5.8799999999999995e-176"
ORIGIN
        1 ttgtaaagga atttattaac aaatggaaaa ggcgcagatc ttacaaactg cgcctaaaaa
       61 gggcgaggaa ccctataacc caatcatcaa cacgtggatt aagtattcat ttgaataaag
      121 ttactaatcc atcacttggt ggattagtaa cctactttca gtggtagttt tctatgtcaa
      181 cgtcatacac cgtttttcca tcggtcttga agacaaccct ccatggacca ttgatgctga
      241 cagcatactc gttttttctg tctcccttta gttcgtgaaa ctcaagatac ttaacggaag
      301 atatatcgtt aagctctatt gccgaggaaa acgtatggta gatagcgcga agcttcttgg
      361 caaaactctg gttgatacca gcagtcgaac cagtgctaat gaacttctca tacgctttac
      421 ttttgaattg aacatccatc tttttctcct tctttctttc gtcgttttcg ataacacctg
      481 attaaaatga aatacatagt tactacctcg attgtttgtt ggactaagta ttgaaaaagt
      541 acttgacaca accattcagc gacctataat ttaaatgccc tttaagggta agaataggtc
      601 attcactaca actctgaatc atagttgttg tttttatttc tgtcaatata aattttcatt
      661 tgcgcattac gcaatgcgca tcacccaagc aaccggcggt tgctttttta tgttttaatt
      721 gaggtaggta tgattaatgt gttcaatcct atgcacccag gggagtatat ccgcgaggtg
      781 tacatggagc cgttcaacat tcatgccgct gatctagcaa agtatcttga ggtctctccg
      841 tctacgttaa gtcgaatcct taacgctaag gcagatctga gtgttgatat ggcgtttcgc
      901 ctgtctaaag ttttaggcag gagccctgag tcttggataa atctacagac gcagtatagt
      961 ctggacaaag ctaggaaaga atcagcggac aatttttctg tattacgacc aattccactc
     1021 tgaccgagaa aagccatctt taaagatggc ttttctacat ttaggcttga gatcagtatt
     1081 tagtcatcgt aatctcttgc tctgtaaacg aaaaaaccac ccggcaaggt ggttttttcg
     1141 aaggttcagt aaccggcaag tttctgaacc aaggtaactg gctaatagag gagcacagtc
     1201 accaaaactg ttcgtttagt ttagccttaa ctggcgcata acttcaagac tatctcctct
     1261 aaatcagtta ccagtggctg ctgccagtgg cgcttttgca tgtcttaccg ggttggactc
     1321 aagatgatag ttaccggata aggcgcagca gtcggactga acggggggtt cgtgcataca
     1381 gtccagcttg gagcgaactg ccttcccgga actgagtgtc tggcgtggaa tgagataaac
     1441 gcggccataa cagcggaatg acaccggtaa accgaatggc aggaacagga gagcgcacga
     1501 gggagccacc aggcggaaac gcctggtatc tttatagtcc tgtcgggttt cgccaccact
     1561 gatttgagcg tcagattctg tgatgcttgt caggggggcg gagcctatgg aaaaacggcc
     1621 gggtcgcggc ctttcccttt atcttttacg tgatagctct gttttctcga gctcttatac
     1681 acatgttcct gccgctcgcc gcagccgaac gaccggagcg tagcgactga gtgagcgagg
     1741 aagcggaaaa gagactggtt tgacactgag cactgacgct ctgaggccct ttatgtcgaa
     1801 acaacagaaa acagcgctga atatggcaaa attcatccag aatcagtctc tgctcctgct
     1861 ggagaagctt aacgagcttg acctcgatgt cgaggccgac ctttgtgaga aactccacga
     1921 tgatgcggag catcttttcc gtacactgtc ctcgaggctg gatgaattac aggatggtaa
     1981 ctgatggcca gagtgtctat tagtgaagcg gcacggcttg ttaaggttag tcgccccaca
     2041 atttacaaga tgattaacag tgggaagtta agttacacct ctgttgtaaa gcacgggaag
     2101 gctattaaag ttattgatac ttcagagctt attagagtgt ttggttctct tgatggtgtc
     2161 atcgatactg taaaatatga tgtaaaaagt gacgcagaat ctacaggtgt taacagcgtt
     2221 ggtttacatg atttacaaca tagaatcgct ttacttgaag ctgaaaacga tggtcttaaa
     2281 ggggctgtta aggctcgaga tgagcatatt gattcccttc gtcaggctat gcagcttctg
     2341 gagcacaagc acgaaccttc ttcaccaccc cattccccgt ggtggaaatt ctggaaaaaa
     2401 tcctgacccc gtcatgcttc cgttttcctc tccggccatc ccggggagtt cctgaacctt
     2461 cccaaaaatc gtcagatctc tgaacgctcc tcaccactaa aaatacccac accccacgca
     2521 aaattaaaat tttgcagata actcattaat atcaggtagt tggctgttgt taaattacgc
     2581 agtattacct tctgtaaggt aaatccaagt cgtcggcgat tcgcgcacga cttgccgatg
     2641 actcgtcaca gagtcatcga cgactcagcc cagactatca gtaacttatg acgacttgac
     2701 tctagagtcg aatcgccatt ttggtgtttt tttgaccttg gcgactctag agtcaagtca
     2761 cgagtcgaat cgccgatgaa tcgtgtgcta agtcgtccgg tgacttgcca tcacgtcgct
     2821 gccagctatc gctgaaccgg attcctgaac gtgctaaaaa cggggtttcc ggctgcgccg
     2881 gcaacgcctc acggccacgc aataaattgc gtccccgttc accgttttcg gaagagaaga
     2941 gcgtcggaaa caggacttac cctggctgaa tggtgtggat ttccgggtta tgcacttgct
     3001 cgcatactca tgcatgacgt aaaaacagag cctgtgcttt ctggcgggtt ttcgggtagt
     3061 ttgttgccgg ttttaccggt ttcccgtcag aaacgccctt aggccgtttt agcggtgcgt
     3121 acaattaagt cgttatgtta aataccatct ttgcgtaact atcttgcata aatgcaccgc
     3181 ctcttttaaa attaaatttc gaaatttaat tttaaaagag gcggtatggc ttacaaaaac
     3241 aagagtggtc aacctaggga gcgggccatg gttgccgcgt attctctggt aactcagttt
     3301 ggtggaaaac aacaggacgt agctaaggtt cttggttgct caccatcgac ggttcatcaa
     3361 tgggtcaaag agattggttt taaaaaagaa attgcagggc tcaaacaaga acttagtgat
     3421 gcaaatgaat atattgagga gttagctgaa aatcttggcc ttgaatatca ttcagatgat
     3481 caagaagact gatgagagtt acttcatcag tcttctttct taacccataa gcttggggca
     3541 tcagcaggaa cttaaaagaa taaatgccat atgttattga
//
