LOCUS       CP139242                5596 bp    DNA     circular BCT 04-DEC-2023
DEFINITION  Klebsiella pneumoniae strain ARLG-4744 plasmid pARLG-4744-5,
            complete sequence.
ACCESSION   CP139242
VERSION     CP139242.1
DBLINK      BioProject: PRJNA658369
            BioSample: SAMN15868737
KEYWORDS    .
SOURCE      Klebsiella pneumoniae
  ORGANISM  Klebsiella pneumoniae
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Klebsiella/Raoultella group; Klebsiella.
REFERENCE   1  (bases 1 to 5596)
  AUTHORS   Jiang,J., Chen,L. and Kreiswirth,B.
  TITLE     Genomic characteristics of 6 CR-HvKP strains in the US
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 5596)
  AUTHORS   Jiang,J., Chen,L. and Kreiswirth,B.
  TITLE     Direct Submission
  JOURNAL   Submitted (20-NOV-2023) HMH-CDI, Hackensack-Meridian Health Center
            for Discovery and Innovation, 340 Kingsland Street, Building 102,
            Nutley, NJ 07110, USA
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method :: Unicycler v. v0.5.0; Flye v. 2.9.2-b1794
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 200x
            Sequencing Technology :: Illumina NovaSeq; Oxford Nanopore MinION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI
            Annotation Date                   :: 11/28/2023 23:05:17
            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)                     :: 5,940
            CDSs (total)                      :: 5,818
            Genes (coding)                    :: 5,647
            CDSs (with protein)               :: 5,647
            Genes (RNA)                       :: 122
            rRNAs                             :: 9, 8, 8 (5S, 16S, 23S)
            complete rRNAs                    :: 9, 8, 8 (5S, 16S, 23S)
            tRNAs                             :: 85
            ncRNAs                            :: 12
            Pseudo Genes (total)              :: 171
            CDSs (without protein)            :: 171
            Pseudo Genes (ambiguous residues) :: 0 of 171
            Pseudo Genes (frameshifted)       :: 68 of 171
            Pseudo Genes (incomplete)         :: 112 of 171
            Pseudo Genes (internal stop)      :: 23 of 171
            Pseudo Genes (multiple problems)  :: 32 of 171
            ##Genome-Annotation-Data-END##
            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/
FEATURES             Location/Qualifiers
     source          1..5596
                     /organism="Klebsiella pneumoniae"
                     /mol_type="genomic DNA"
                     /strain="ARLG-4744"
                     /isolation_source="urine"
                     /host="Homo sapiens"
                     /db_xref="taxon:573"
                     /plasmid="pARLG-4744-5"
                     /geo_loc_name="USA: South"
                     /collection_date="2017"
                     /collected_by="MDRO network"
     gene            535..759
                     /locus_tag="JJ214_29650"
     CDS             535..759
                     /locus_tag="JJ214_29650"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000879771.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="DUF6290 family protein"
                     /protein_id="WPQ12998.1"
                     /translation="MLAIRLSDEIESRLDSLAKQTGRTKTFYAREAILAHLEDLEDYYL
                     SAETAARVRRGDEAVHSSEDVRKSLGLDD"
                     /name="DUF6290 family protein"
     gene            743..1009
                     /locus_tag="JJ214_29655"
     CDS             743..1009
                     /locus_tag="JJ214_29655"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000262326.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology. GO_function:
                     GO:0008657 - DNA topoisomerase type II (double strand cut,
                     ATP-hydrolyzing) inhibitor activity [Evidence IEA];
                     GO_function: GO:0042803 - protein homodimerization activity
                     [Evidence IEA]; GO_process: GO:0030541 - plasmid
                     partitioning [Evidence IEA]; GO_process: GO:0051290 -
                     protein heterotetramerization [Evidence IEA]"
                     /codon_start=1
                     /transl_table=11
                     /product="type II toxin-antitoxin system RelE/ParE family
                     toxin"
                     /protein_id="WPQ12999.1"
                     /translation="MVWTINYSDRALKSLRKMDKQNARRIVDFMSLRIAVAADPRQSGK
                     PLKGELGEFWRYRVGDYRVLCEIRDDELVILAATIGHRREVYD"
                     /name="type II toxin-antitoxin system RelE/ParE family
                     toxin"
     gene            complement(1079..1429)
                     /locus_tag="JJ214_29660"
     CDS             complement(1079..1429)
                     /locus_tag="JJ214_29660"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_004197756.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WPQ13000.1"
                     /translation="MYWLIAFLAFIFPGRSFADGYTAYYRCNGTQEASLTVKDNKLSMV
                     VGLSKFNRQLDTYRFKEKGIEVVMQRAASDDNSEAIMSFIMPDVNNMTLLVKNNGYIIV
                     KTTCWLTKTDKQ"
                     /name="hypothetical protein"
     gene            complement(1495..2040)
                     /locus_tag="JJ214_29665"
     CDS             complement(1495..2040)
                     /locus_tag="JJ214_29665"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_004197758.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WPQ13001.1"
                     /translation="MFFKRYLTEKEIYKAALPIVRLQGRVNTSLRFLSKYSDVNKNGLI
                     ALHLNLLHFISYNIHGVESLKITQAGINKAVQQSPHADEIKNIAQAIGRKGPEYIEGLI
                     RNPWGKKNDNPLIFIMSIEESIKETLNSGYMLYRVAPITEGEAAAFMDVLKQLLLFEDN
                     FRLFGRDLVYKIEKLKIR"
                     /name="hypothetical protein"
     gene            complement(2066..2392)
                     /locus_tag="JJ214_29670"
     CDS             complement(2066..2392)
                     /locus_tag="JJ214_29670"
                     /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="WPQ13002.1"
                     /translation="MRERTNIMLDIGLKQSLQRLSNKTKMSLSDLINQRLSGSLSVEER
                     IGEKPEWMRNLDPYLANHFSNIELPLPSPLKEYQEKMDEIDSIINDMMVLKEYFRAKFY
                     DEIK"
                     /name="hypothetical protein"
     gene            complement(2750..2908)
                     /locus_tag="JJ214_29675"
     CDS             complement(2750..2908)
                     /locus_tag="JJ214_29675"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_005761324.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="replication initiation protein"
                     /protein_id="WPQ13003.1"
                     /translation="MHEPPVQPDCCALSGNYHLESNPDGHAKTPLAAAIGNWIYTREIL
                     RGLEVGA"
                     /name="replication initiation protein"
     gene            3548..3724
                     /locus_tag="JJ214_29680"
     CDS             3548..3724
                     /locus_tag="JJ214_29680"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_004197757.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WPQ12994.1"
                     /translation="MQKPKKKPLVVKKRSWHPAVMANLMRQAQEEDYRREQMAELERSA
                     RSHFADIGGEDGG"
                     /name="hypothetical protein"
     gene            3714..4058
                     /locus_tag="JJ214_29685"
     CDS             3714..4058
                     /locus_tag="JJ214_29685"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_006122514.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MobC family plasmid mobilization relaxosome
                     protein"
                     /protein_id="WPQ12995.1"
                     /translation="MAVKRTRFLGIRVTDGEYQQLLERCNGRQLAVWMRETCLDTRPAR
                     SLRLPSIDPVLLRQLAGMGNNLNQIARKINGGQWSGADRVQVVAALMAIDAELERLRHA
                     VLEKGADDDR"
                     /name="MobC family plasmid mobilization relaxosome protein"
     gene            4267..4701
                     /locus_tag="JJ214_29690"
                     /pseudo=""
     CDS             4267..4701
                     /locus_tag="JJ214_29690"
                     /inference="COORDINATES: protein motif:HMM:NF015397.3"
                     /note="incomplete; partial on complete genome; missing
                     C-terminus; Derived by automated computational analysis
                     using gene prediction method: Protein Homology."
                     /pseudo=""
                     /codon_start=1
                     /transl_table=11
                     /product="relaxase/mobilization nuclease domain-containing
                     protein"
                     /name="relaxase/mobilization nuclease domain-containing
                     protein"
     gene            4736..5245
                     /locus_tag="JJ214_29695"
     CDS             4736..5245
                     /locus_tag="JJ214_29695"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_020325392.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MbeB family mobilization protein"
                     /protein_id="WPQ12996.1"
                     /translation="MNSLLTLAKDLEQKSKAQQQSTGEMLKAAFSEHEKSVRAELSESG
                     KRISAAIRAHEQGMSAAMQSNRLSVMRMVGRTWLTITMVSGLLFASLSGVLWYQGSLIA
                     SNLAEIDRQNAALSKLNAKTWGVTYLEDSNGRFLVLPKGTAVDRTQSWTVGNGRSKQNA
                     LRLVKE"
                     /name="MbeB family mobilization protein"
     gene            5252..5464
                     /locus_tag="JJ214_29700"
     CDS             5252..5464
                     /locus_tag="JJ214_29700"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000137423.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MbeD family mobilization/exclusion protein"
                     /protein_id="WPQ12997.1"
                     /translation="MTELEKQLLSALEQLQQDYSKRLDEWESAFGEWRKMSGLMQRENA
                     ALSERVTRLSQQVERLSGQLQRLSR"
                     /name="MbeD family mobilization/exclusion protein"
     Typing          3383..3462
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="90.361"
                     /coverage="97.0"
                     /evalue="1.1100000000000001e-21"
     Typing          complement(2800..3197)
                     /name="rep_cluster_2370"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="89.526"
                     /coverage="91.0"
                     /evalue="3.03e-139"
     Typing          4049..5580
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="99.804"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 agggttctca tcgggcattt acgctgaaac cggatgtcat tcacctggct gcatggctat
       61 gcagccaggt aaaatttatc tgtcgcgaac ggggcggttt atcgggtggt ttgttgccgg
      121 ttttacctga ctgccacccc gttcgcggcg aacccgtccg gggcggtgcg ggcaacgggt
      181 gttatgttta atcagcgtga acggcagata caaaaaagcc ccggagggct tttaactact
      241 gacttatttt tttgaagatt tgctgggttt caatttgtca gtatttcccg gcgttttttt
      301 attgtcacgc tggcgtttat caggttcccc tgttgaatcg gcaattcgtt tcggacccgg
      361 cttaagaccc ataatcgtta tcctttcaat agttaagagg aaagccctca agctagatat
      421 attgaccgcg ttacggatta tcaagagggg ctaacaagat tattttttgt tcttttaggt
      481 tgattgtggt actgttgata tacatgtata gcaaatggtg ttcgggaggt ttatatgctt
      541 gctatccggt tatctgatga gattgagtcc cgtctggact cgctggcgaa gcaaaccggc
      601 agaacaaaga cgttttatgc gcgggaagca atactggcgc atctggaaga cctggaggat
      661 tattatcttt cagcagaaac tgctgcacgc gttcgccgtg gtgatgaagc agtgcattcg
      721 tctgaagacg tgaggaagtc acttggtctg gacgattaac tattccgatc gggcgctcaa
      781 atcgttacgc aagatggaca aacagaacgc acgacggatt gtggatttta tgagtttacg
      841 cattgcagtt gctgccgatc ctcgccagtc agggaagccg ctcaaaggtg agctgggcga
      901 gttctggcgc tatcgggtgg gagattatcg cgttctgtgt gagatccgag atgacgagct
      961 tgttatcctt gccgccacga ttggacatcg ccgcgaagtt tacgactgaa gcccgctatg
     1021 cgggcttttt tgatgccgac aacaggtatt atggtaaata ctcgactaac tacgtgttct
     1081 actgtttgtc ggttttagtt aaccagcagg ttgtcttaac gataatgtag ccgttatttt
     1141 taactaataa ggtcatattg ttaacgtcag gcataataaa agacattatg gcctcagagt
     1201 tatcatcaga agcagctctc tgcattacta cttcgattcc cttttctttg aatctataag
     1261 tatccagttg cctattaaac ttagaaagac ctacaaccat acttagtttg ttatctttaa
     1321 cagtaagaga tgcttcctga gtaccattac atcggtagta agcggtgtaa ccgtcagcaa
     1381 aagatcgacc ggggaatata aatgctagga acgcaattaa ccaatacata gttgagaatc
     1441 ttggtattac acatttcact atcctctctt tcatttttcg ttcaccatac tttgttatct
     1501 gatttttaat ttttctattt tataaaccaa gtctctacca aaaaggcgaa aattatcctc
     1561 aaataataat aattgtttaa gaacatccat gaaagcagct gcttcaccct cagttatggg
     1621 agctactcta tataacatat aacctgagtt aagggtttct tttatacttt cttcaatgct
     1681 cattataaat attagtggat tatcattttt cttcccccat gggtttctaa ttaatccttc
     1741 gatgtactca ggtcctttgc gtcctattgc ctgcgcaata ttttttattt catctgcgtg
     1801 agggctttgt tgtacagctt tgtttatgcc tgcttgagtg attttcagag actctacacc
     1861 gtgtatgttg tatgagataa aatgtaataa attaagatgc aatgcaatta atccattttt
     1921 gtttacatct gagtatttgg ataaaaaacg taatgaagtg ttaactctcc cttgaagcct
     1981 aacaattggg agtgctgcct tgtatatttc cttctccgtt aaataccgtt taaaaaacat
     2041 aattctccgc ctccgtatag cgtgcctatt ttatttcgtc gtaaaactta gctctgaaat
     2101 attcctttag aaccatcatg tcattaataa ttgaatctat ctcatccatt ttttcttggt
     2161 attcttttaa tggtgaaggg agcggtaact caatatttga aaagtgattg gcgagatagg
     2221 gatcaaggtt tctcatccat tcaggctttt cgccaatgcg ttcttcaact gaaagtgaac
     2281 ctgataatct ctggttaata agatcactta gactcatttt ggttttattc gaaagccgtt
     2341 gtaaggattg ctttaatcct atatctagca tgatatttgt tctttctctc attacccccc
     2401 cttgctattg cgttttttgt tgcgcacaaa gctaccattg cgcattaaga aacgcaataa
     2461 aaaaggaggg agggagtggt ttgtacatga tgtgcagtgc gctgagggca tcagtggcgg
     2521 gtgtttttcc gtgggatgga tggagctccg gggataacag aactgacgat catttaaagg
     2581 atcttcttga gatccttttt ttctgcgcgt aatctcttgc actgtaaacg aaaaaaccgc
     2641 ctggggaggc ggtttgatcg aaggttaagt cagttgggga actgcttaac cgggtaactg
     2701 ggtatacgag accgcagata ccaaaactgt tctttcagtg tagccgcagt taggcaccca
     2761 cttcaagacc tctcaatatc tctctcgtat atatccagtt accaatggct gctgccagtg
     2821 gcgtttttgc gtgtccgtcc gggttggact caagatgata gttaccggaa agggcgcagc
     2881 agtcgggctg aacggggggt tcgtgcatac agcccagctt ggagcgaacg acctaaaccg
     2941 agccgagata ccagcagcgt gagctatgag aaagcgccac gcttcccgaa agggaaaaag
     3001 gcggaacagg tatccggtaa acggcagggt cggaacagga gagcgcacga gggagccgcc
     3061 ggagagaaat caccggcatc tttaagtcct gtcgggtttc gtcctcctct gacttgagcg
     3121 tccatttctg tgatgctcgt caggggaggc ggagcctatg gaaaaacggc aacgccgcat
     3181 ccttttctcc ggccctttct gatttgagcg cctttgcttt atcccgttat ccgtgagtcg
     3241 gtcacgcccg ccgcagccga acggcaggag cgcagctacc gagtgagcga ggaggcgtca
     3301 tttcatctgt ccgtgcatgg tattgcggac gctcctgagc cacatatcac acctgccaca
     3361 tgaggcactt tcatgaatcg tgctctcatg ccaacatagt aagccagtat acacagcgta
     3421 aacgctgtga ctggttcagg gctgcgcccc gaaacccgct aacaccactg acgcgctggc
     3481 gcttgtccaa cgccggagcg acccggaaaa cttttccgtg ccgtccggcg tttgcgaagg
     3541 agggataatg cagaagccga agaagaagcc gctcgtcgta aaaaaaagat cctggcatcc
     3601 ggcagtgatg gcaaatctga tgcgtcaggc acaggaggaa gattaccgcc gggagcagat
     3661 ggcagagctt gagcgttcag cccggtcaca ttttgcggat atcggaggag aggatggcgg
     3721 ttaagcgtac ccgtttttta ggtatccggg tgaccgatgg ggagtaccag cagctgctgg
     3781 agcgctgcaa tggaaggcaa ctggcggtgt ggatgcggga aacctgtctc gatacgcgcc
     3841 cggcgcggtc gttgcggctg ccgtccatcg atccggtttt gctgcgccag cttgccggga
     3901 tggggaacaa cctcaaccag atcgcccgga aaattaacgg cggccagtgg tcaggcgctg
     3961 accgggttca ggtggtggcc gcgctgatgg ccattgatgc cgaactcgag cggctgcggc
     4021 atgccgtgct ggaaaagggg gcagacgatg atcgttaagt ttcatccgcg agggcgaggc
     4081 ggcggtgccg ggccggtgga ttatctgctg gggaaagacc gccagcgcga cggggccatc
     4141 gtcctgcagg gaaagccgga ggaggtccgg gagcttatcg acgcctcgcc ctacgccaaa
     4201 aagtacacct ccggcgtcct gtcttttgct gaacaggatt taccgcccgg ccagcgtgaa
     4261 aagctgatgg cgagcttcga gcgggttctg atgcccggac tcgataaaga ccagtacagc
     4321 gtgctgtggg ttgaacaccg ggacaagggg cggctggaac tgaattttct ggtaccgaac
     4381 acggaactgc tgaccggcag gcgtctccag ccgtactacg accgggcaga ccgtccgcgc
     4441 atcgatgcgt ggcagaccgt ggtgaacggg cgactggggc tgcacgaccc gaacgcaccg
     4501 gagaaccggc gcgcgctggt gacgccatct tcgttaccca aaacgaagca ggaagccgca
     4561 gaggctatta cgcggggctt actggccctc gcctcgtcag gggagcttaa aacgcgtcag
     4621 gacgtcactg aggcgctgga aagcgcaggt tttgaggtcg tgcgcaccac aaagagcagc
     4681 atcagcattg ccgacccgga cggagggcga aacatccgac ttaagggagc catctatgaa
     4741 cagtctttta acgctggcga aggacttaga gcagaaatcg aaagcgcagc agcagagtac
     4801 cggcgaaatg ctgaaagccg cattcagcga gcacgagaag tctgtcagag cggaactgag
     4861 cgaaagcggg aagagaatca gcgccgccat ccgcgcccac gagcagggta tgagcgcggc
     4921 catgcagtcg aaccgcctga gcgtgatgcg tatggtcggg cggacatggc tgaccatcac
     4981 gatggtgtca ggactgctgt tcgccagcct gagcggggtg ttgtggtatc aggggagctt
     5041 gatagcgtca aatctggccg aaatcgaccg gcagaacgca gcgctgtcga agctgaacgc
     5101 gaagacctgg ggcgtgacgt acctggaaga cagcaacgga cgttttctgg tgctgccgaa
     5161 ggggacggcc gtagacagga cgcagagctg gacggtcggg aacgggcggt cgaagcagaa
     5221 cgcgctgaga ctggtgaagg agtaagtgcc gatgaccgag ctggaaaaac agttgctgag
     5281 cgcattagag cagctacagc aggactactc gaaaaggctg gacgagtggg agagcgcctt
     5341 cggggaatgg cggaaaatgt cagggcttat gcaacgggag aacgcggcgc tgagcgagcg
     5401 cgtgacgcgc ttgagtcagc aggtggaacg cttgagcggg caactgcagc gtttgagccg
     5461 gtagtgcagc gtcatgagat ggccgtggcc gcagaacggg cgcacgagca acggcagcac
     5521 gaaaaggaac tgacggaagc gcgttcccgg cagcgaagct atgacggtcc gtcgctgggc
     5581 tgaaatgcag gaaaac
//
