LOCUS       NZ_CP103702             4165 bp    DNA     circular CON 21-SEP-2023
DEFINITION  Klebsiella pneumoniae strain ST307 plasmid pMB3435_3, complete
            sequence.
ACCESSION   NZ_CP103702
VERSION     NZ_CP103702.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN28173997
            Assembly: GCF_024917935.1
KEYWORDS    RefSeq.
SOURCE      Klebsiella pneumoniae
  ORGANISM  Klebsiella pneumoniae
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Klebsiella/Raoultella group; Klebsiella.
REFERENCE   1  (bases 1 to 4165)
  AUTHORS   Shropshire,W.C., Konovalova,A., McDaneld,P.M., Gohel,M., Strope,B.,
            Sahasrabhojane,P., Tran,C.N., Greenberg,D.E., Kim,J., Zhan,X.,
            Aitken,S.L., Bhatti,M., Tor,S., Treangen,T., Hanson,B.M., Arias,C.A.
            and Shelburne,S.A.
  TITLE     Systematic Analysis of Mobile Genetic Elements Mediating
            Beta-lactamase Gene Amplification in Non-Carbapenemase-Producing
            Carbapenem Resistant Enterobacterales Bloodstream Infections
  JOURNAL   mSystems (2022) In press
REFERENCE   2  (bases 1 to 4165)
  AUTHORS   Shropshire,W.C.
  TITLE     Direct Submission
  JOURNAL   Submitted (19-AUG-2022) Infectious Diseases and Infection Control,
            University of Texas MD Anderson Cancer Center, South Campus Research
            Building 4, Houston, TX 77054, USA
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: Flye v. 2.8.3-b1695
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 101x
            Sequencing Technology             :: Oxford Nanopore GridION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 09/21/2023 03:26:49
            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)                     :: 5,515
            CDSs (total)                      :: 5,389
            Genes (coding)                    :: 5,262
            CDSs (with protein)               :: 5,262
            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)              :: 127
            CDSs (without protein)            :: 127
            Pseudo Genes (ambiguous residues) :: 0 of 127
            Pseudo Genes (frameshifted)       :: 55 of 127
            Pseudo Genes (incomplete)         :: 72 of 127
            Pseudo Genes (internal stop)      :: 18 of 127
            Pseudo Genes (multiple problems)  :: 16 of 127
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP103702.1.
            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..4165
                     /organism="Klebsiella pneumoniae"
                     /mol_type="genomic DNA"
                     /strain="ST307"
                     /isolation_source="blood"
                     /host="Homo sapiens"
                     /db_xref="taxon:573"
                     /plasmid="pMB3435_3"
                     /geo_loc_name="USA: Houston"
                     /lat_lon="29.7068 N 95.3971 W"
                     /collection_date="2017-03-17"
                     /collected_by="MDACC"
                     /genotype="ST307"
     gene            1..192
                     /locus_tag="M5R30_RS27500"
                     /old_locus_tag="M5R30_27500"
     CDS             1..192
                     /locus_tag="M5R30_RS27500"
                     /old_locus_tag="M5R30_27500"
                     /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_032421723.1"
                     /translation="MTKQQKTALNMAKFIQNQSLLLLEKLNELDLDAEADLCEKLHDDA
                     EHLFRTLSSRLDELQDGN"
                     /name="Rop family plasmid primer RNA-binding protein"
     gene            192..614
                     /locus_tag="M5R30_RS27505"
                     /old_locus_tag="M5R30_27505"
     CDS             192..614
                     /locus_tag="M5R30_RS27505"
                     /old_locus_tag="M5R30_27505"
                     /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            1732..1938
                     /locus_tag="M5R30_RS27510"
                     /old_locus_tag="M5R30_27510"
     CDS             1732..1938
                     /locus_tag="M5R30_RS27510"
                     /old_locus_tag="M5R30_27510"
                     /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_191720661.1"
                     /translation="MGGGFNYNGEGATGTGLDRDPYVRDSNGNAIGVKSGYHAESYGTS
                     SPALGPNGGQFGYRELLYGKPVF"
                     /name="hypothetical protein"
     gene            2253..2510
                     /locus_tag="M5R30_RS27515"
                     /old_locus_tag="M5R30_27515"
     CDS             2253..2510
                     /locus_tag="M5R30_RS27515"
                     /old_locus_tag="M5R30_27515"
                     /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            2618..2773
                     /locus_tag="M5R30_RS27520"
                     /old_locus_tag="M5R30_27520"
     CDS             2618..2773
                     /locus_tag="M5R30_RS27520"
                     /old_locus_tag="M5R30_27520"
                     /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(2978..3091)
                     /locus_tag="M5R30_RS27590"
     CDS             complement(2978..3091)
                     /locus_tag="M5R30_RS27590"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_007772075.1"
                     /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_191720660.1"
                     /translation="MHEPPVQSDRCAFSGNYHLESNPERHDKTPLAAATGN"
                     /name="replication initiation protein"
     gene            3510..3695
                     /locus_tag="M5R30_RS27525"
                     /old_locus_tag="M5R30_27525"
     CDS             3510..3695
                     /locus_tag="M5R30_RS27525"
                     /old_locus_tag="M5R30_27525"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001041614.1"
                     /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_191720659.1"
                     /translation="MNKQQKTAVNMAKFIQDQSLLLLDRLNELDHEADFCEKLHEDAER
                     LYRSLSARLNEQQDGA"
                     /name="Rop family plasmid primer RNA-binding protein"
     Typing          complement(2975..3328)
                     /name="rep_cluster_2373"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="94.366"
                     /coverage="82.0"
                     /evalue="1.38e-152"
ORIGIN
        1 atgacgaaac aacagaaaac agcgctgaac atggctaaat tcatccagaa tcagtctctg
       61 ctcctgctgg agaagcttaa cgagcttgat ctcgatgctg aggccgacct ttgtgagaaa
      121 ctccacgatg atgcggagca tcttttccgt acactgtcct cgagactgga tgaattacag
      181 gatggtaact gatggccaga gtgtctatta gtgaagcagc acggcttgtt aaggttagtc
      241 gccctactat ttacaagatg attaacagtg gtaagttaag ttacacctct gttgtaaagc
      301 acgggaaggc tattaaagtt attgatacct cagagcttat tagagtgttt ggttctcttg
      361 atggtgtcat cgatactgta aaatatgatg taaaaagtga cgcagaatct acaggtgtta
      421 acagtgttgg tttacatgat ttacaacata gaattgcttt actagaagct gaaaacgatg
      481 gtcttaaagg ggctgttaag gctcgagatg agcatattga ttcccttcgt caggctatgc
      541 agcttctgga gcacaagcac gaaccttctt caccacccca ttccccgtgg tggaaattct
      601 ggaaaaaatc ctgaccccgt catgcttcag ttttcctctc cggccatccc ggggagttcc
      661 tgaaccttcc caaaaatcgc cagatctctg aacgctcctc acgactaaaa atacccacac
      721 actacgcaaa attaaaattt tgcagatttg tatttaatat cagtggttta ctttcgtgaa
      781 atttcgtttt ttaaatttta tttacataga tccgactcta tgacgactcg tcatagagtc
      841 cccggcgagt cgtcatagag tcggtaacga ctcaggacta taaaaacaat gagttaataa
      901 cgacccgact ctagacccga ctccccgttt ggttgttttt tagactcggc gactctgggt
      961 acgactctag tgaagagtcg ccggtgaatc gtgtggtgag tcgtccggcg acttgccata
     1021 acgtgattgc cggccgtcga cgaacacgat tcctgaacgt gctgaaaacc ggttttccgg
     1081 ctgcgccggc aacgcttcac ggccacgcaa taaattgcgt ccccgttcac cgttttcgga
     1141 tggaaagaac gccggaaaca ggacttaccc tggctgaatg gcgtgagttt tcgcgctatg
     1201 cacttgtgcg catactcatg catgccgtaa aaacggagcc tgcgcgtttc tggcgggttt
     1261 tcgggtggtt tgttgcctgt tttgccggtt ttccgtcaga aacgccctga ggccgtttta
     1321 gcggtgcgta caattaaggg attatggtaa atgggagcgc ccgggtggcg ggataccctc
     1381 aacaccaaga ctttttgtac aggtctctgt ccgtcagtca cacctttttt aagagcacat
     1441 atcgttaatt ttttttctct gccgagccgc gtcctgtctg ggttttttca tttctctcat
     1501 gattaactta atgaaaatta aaaagataat tgtatctctc cgcgtgttga cagagttctc
     1561 atgtcaggag tagtatccaa gcactgtata taaacacatg tgtttatata cagtgctttg
     1621 gtgtggcaga gaactaataa cagcctccgg atacaggttc gaaggcgata aaccgcacac
     1681 cagattctga caagcaggaa aacgataaaa ataacaacaa aggagagagt tatgggtggt
     1741 ggatttaact ataacgggga aggtgctact ggcaccggat tggatcgtga tccatatgtt
     1801 cgcgacagca atggtaatgc tattggtgtt aaatcaggct atcacgcgga gtcctatggg
     1861 acgtcaagtc cagccttagg gcctaatggg gggcagtttg gatatagaga attattgtac
     1921 ggtaagcctg ttttttgaac agacttacct atagcaatag ggtgtactcc cgcgctatac
     1981 ggcattttca gaggtttgac cttaatcgga taacctaaat gcgatactgc aagagcgaca
     2041 acttaaaagc gatagccact gacgcaatat caacccctta cgaaccaaga ttggttaaat
     2101 aatgcgctta acgtacaaaa atttccgatc tccaaactga ccccaactac accataaagt
     2161 tgaaatttct aaaggtggcg atgtctataa cgtagataac ctgaatgcat taacacctaa
     2221 acgtcatatt gaaattcata aggggaactg aaatggctaa taaaactttg gctgactata
     2281 cagagcagga atttattgag tttatcgaaa aaattaaaaa ggcagacttt gctactgagt
     2341 ctgagcatga tgaggctatc tatgagttca gccagttgac tgaacatcca gatggttggg
     2401 atcttattta tcatcctcaa gcaggagccg ataactctcc tgctggtgtt gtaaaaacag
     2461 taaaagagtg gcgagcagct aacggtaagc caggttttaa aaaatcgtga ttgaatgtgc
     2521 gggttcaagt gatgaatccg cacattttta actctggatt tgaataataa ttactagata
     2581 tccatttgcc tagaataata aaaataaaag gtgatatatg aaaaaattac ttttcctggg
     2641 ggttgttacc gtttctgtgg ttctggcggc atgtcaggtc aataatgttc gtgacaccgg
     2701 aggtggggct gtttcacctt catcgacggt gaccggagtc acgcttgata gcggtacgaa
     2761 cggcaatccg taaaggatct tcttgagatc ccatttggat cgtcgtaatc tcttgctctg
     2821 taaacgaaaa aaccgccttg gcgggcggtt ttttcgaagg ttcgaggagt tggcgctctt
     2881 tgaaccgagg taactggctt ggaggagcgc agtaaccaaa tttgttcttt cagtttagcc
     2941 ttaactggca cataacttca agactaactc ctctaaatca gttaccagtg gctgctgcca
     3001 gtggcgtttt gtcgtgcctc tccgggttgg actcaagatg atagttaccg gagaaggcgc
     3061 agcggtcgga ctgaacgggg ggttcgtgca tacagtccag cttggagcga actgccttcc
     3121 cggaactgag tgtcaggcgt ggaatgagat aaacgcggcc ataacagcgg aatgacaccg
     3181 gtaaaccgaa tggcaggaac aggagagcgc gcgagggagc taccaggggg aaacacctgg
     3241 gatctttata gtcctgtcgg gtttcgccac cgctgatttg agcgtcagat tttatgatac
     3301 tcgtcagggg ggcggagcct atggaaaaac gccccggcgg ggcgtggcct tttcgccctt
     3361 gtccttagct ttcgttatgc ttaccgttac gttatctgct tatcttccct ccgctcgccg
     3421 cagactcatg accgaacgga gtgagcgaat gagcgaggaa gcggaaaacc atcagaacgt
     3481 acagtaagca ctttcgcgcc ggggccttca tgaacaaaca acaaaagact gccgttaaca
     3541 tggctaaatt catccaggat cagtccctgc ttcttctgga caggcttaat gagctggatc
     3601 atgaggctga tttctgcgag aaactccatg aggatgcgga acgcctttac cgaagcctgt
     3661 cagcgcgcct gaatgagcag caggacggtg cgtaatggct ccgtcctggg tattaccgga
     3721 gtaataccgg catcgcctta attttcattg tgttagcgct taacattatt accccggtaa
     3781 tacccagaat ccctgtattt tttctttttt atttattttt catgaagttg cgatgaaaat
     3841 cgcggctgcg ttaggtgtat gaccattttg aggttgaaaa ataatcaacc atggcgggtg
     3901 atttacgcag gttaaggggc gtcggtgaca aaaaaacgtc attaacgacc tcgttcatgc
     3961 tcgcatgaac ggattatttt tccggactac aggtaaacta cagaaagact acaaaagctg
     4021 atgacttaat cctgattttt agtgcgatga ctacagataa actacaaaat aactacagga
     4081 ttacctcaga tccgttctct gaaccattcg tacatccgac ccccttaccg gttttacact
     4141 gagcactgat gctctgaggt ccctt
//
