LOCUS       CP139230                5216 bp    DNA     circular BCT 04-DEC-2023
DEFINITION  Klebsiella pneumoniae strain ARLG-4720 plasmid pARLG-4720-5,
            complete sequence.
ACCESSION   CP139230
VERSION     CP139230.1
DBLINK      BioProject: PRJNA658369
            BioSample: SAMN15868726
KEYWORDS    .
SOURCE      Klebsiella pneumoniae
  ORGANISM  Klebsiella pneumoniae
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Klebsiella/Raoultella group; Klebsiella.
REFERENCE   1  (bases 1 to 5216)
  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  JOURNAL   Unpublished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 5216)
  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
            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 20:20:41
            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)                     :: 5,847
            CDSs (total)                      :: 5,719
            Genes (coding)                    :: 5,541
            CDSs (with protein)               :: 5,541
            Genes (RNA)                       :: 128
            rRNAs                             :: 9, 8, 8 (5S, 16S, 23S)
            complete rRNAs                    :: 9, 8, 8 (5S, 16S, 23S)
            tRNAs                             :: 91
            ncRNAs                            :: 12
            Pseudo Genes (total)              :: 178
            CDSs (without protein)            :: 178
            Pseudo Genes (ambiguous residues) :: 0 of 178
            Pseudo Genes (frameshifted)       :: 75 of 178
            Pseudo Genes (incomplete)         :: 107 of 178
            Pseudo Genes (internal stop)      :: 24 of 178
            Pseudo Genes (multiple problems)  :: 27 of 178
            CRISPR Arrays                     :: 1
            ##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..5216
                     /organism="Klebsiella pneumoniae"
                     /mol_type="genomic DNA"
                     /strain="ARLG-4720"
                     /isolation_source="respiratory"
                     /host="Homo sapiens"
                     /db_xref="taxon:573"
                     /plasmid="pARLG-4720-5"
                     /geo_loc_name="USA: South"
                     /collection_date="2017"
                     /collected_by="MDRO network"
     gene            84..1334
                     /locus_tag="JJ203_29205"
     CDS             84..1334
                     /locus_tag="JJ203_29205"
                     /EC_number="2.1.1.37"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_015160339.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology. GO_function:
                     GO:0003886 - DNA (cytosine-5-)-methyltransferase activity
                     [Evidence IEA]; GO_function: GO:0008168 - methyltransferase
                     activity [Evidence IEA]; GO_function: GO:1904047 -
                     S-adenosyl-L-methionine binding [Evidence IEA]; GO_process:
                     GO:0006304 - DNA modification [Evidence IEA]"
                     /codon_start=1
                     /transl_table=11
                     /product="DNA cytosine methyltransferase"
                     /protein_id="WPQ23758.1"
                     /translation="MTRPIAVDLFAGAGGLSLGFEQAGFDIMASVEIDPIHCSAHKYNF
                     PMCKTICRSVVDVTGEYVREVSGIGEKEIDVVIGGAPCQGFSLIGKRALDDDRNKLVYH
                     YVRLVLELKPKYFVFENVKGLTVGKHKQFLVEIMDAFKDGGYDVVSDYKVLNAADYGVP
                     QDRRRLFLMGGRKGIALPSYPEPLSIRTTVGDAIGDIPDAEKYPELWGRDWVYAKFGEQ
                     SLYSSYLHGVGKDPSDFSYPRIFNKDKLTCSLLTDHSDISRGRFVETLPDTVEPISRFK
                     KLSMNGLCNTLRAGTASDRGAFTSPRPIHPIYPRVITVREAARLHSYPDWFRFHVTKWH
                     GFRQVGNSVPPMLARSVGLQIMKVLGVTPKKPTKKIKLGDESLVAISMSDAASMFGVSS
                     NVIAKRIKNSNKEVVCE"
                     /name="DNA cytosine methyltransferase"
     gene            1327..2136
                     /locus_tag="JJ203_29210"
     CDS             1327..2136
                     /locus_tag="JJ203_29210"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_010222407.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WPQ23759.1"
                     /translation="MSKDKKERSKNRYHQLVEKIFFDKYVDGDLEVLFERLDINSAAKD
                     LGIELPSNVGDVIYSIRFRTPMPESILLTQPEGKEWIIELAGRSKYRFRLVTISRILPN
                     PNMVAIKIPDNTPEIITGYSLDDEQALLAKVRYNRLIDIFLGITTYSLQNHLRTTVKGI
                     GQIEIDELYVGIDKYGCHYIIPVQAKGGTDQISMVQTSQDTAWCEQKYPNVRCRAISAQ
                     FVSSDLIALFELKIDEGQVKLIEERHYKLVPVKELDSSDISNYRMSV"
                     /name="hypothetical protein"
     gene            complement(2356..2487)
                     /locus_tag="JJ203_29215"
     CDS             complement(2356..2487)
                     /locus_tag="JJ203_29215"
                     /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="WPQ23760.1"
                     /translation="MHEPPVQSDCCALSGNYRLESNPKRHAKAPLAAATGNRIHGAE"
                     /name="replication initiation protein"
     gene            3110..3451
                     /locus_tag="JJ203_29220"
     CDS             3110..3451
                     /locus_tag="JJ203_29220"
                     /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="WPQ23761.1"
                     /translation="MADKRNKMLTMWVTEDEHRRLLERCDGKQLAAWMRQTCLDEKPTR
                     AGRLPSISPALLRQLAGMGNNLNQIARKVNAGGAGHDRVQIVAALMAIDAGLERLRHAV
                     LEKGPDDDC"
                     /name="MobC family plasmid mobilization relaxosome protein"
     gene            3660..4088
                     /locus_tag="JJ203_29225"
                     /pseudo=""
     CDS             3660..4088
                     /locus_tag="JJ203_29225"
                     /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            4129..4626
                     /locus_tag="JJ203_29230"
     CDS             4129..4626
                     /locus_tag="JJ203_29230"
                     /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="WPQ23756.1"
                     /translation="MSSLLTASRDFEEKSKAQQQLTEERLKAAFSKHENVVKSELNASA
                     KRINDAISAHEQGMNAAMQSNRLSVLRMVGRTWLTITMVSGLLFASLSGVLWYQGNRIA
                     ANLAEIRQQRDTLSKLHMQTWGVTYLENRNGRFLVLPEGMKAETGRTVDNKTRNAVKLV
                     RE"
                     /name="MbeB family mobilization protein"
     gene            4633..4848
                     /locus_tag="JJ203_29235"
     CDS             4633..4848
                     /locus_tag="JJ203_29235"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_015328239.1"
                     /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="WPQ23757.1"
                     /translation="MTELEKQLLSALEQLQQDYSRRLDEWESAFEEWRKMSGLMQRENA
                     ALSERVSGLSRQVQSLSEQLRRLSTG"
                     /name="MbeD family mobilization/exclusion protein"
     Typing          2851..3026
                     /name="MOB_unknown"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="90.449"
                     /coverage="81.0"
                     /evalue="5.74e-59"
     Typing          complement(2379..2868)
                     /name="ColRNAI_rep_cluster_1987"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="91.075"
                     /coverage="92.0"
                     /evalue="0.0"
     Typing          3442..4964
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 caatcgaaat cagaaaaacg atcggtaaag cgatcgtttt tctgatagca tcatgttgat
       61 tttatataac gtgggtgtaa agaatgacta gaccgattgc tgttgattta tttgctggag
      121 cgggtgggct gagtctcggt ttcgagcaag ctggctttga tataatggca tcagttgaaa
      181 tagatccaat acattgctct gctcacaaat ataactttcc tatgtgcaaa acgatatgta
      241 gaagtgttgt tgatgttacc ggagaatacg ttagggaagt ttcaggtatt ggtgagaaag
      301 agattgatgt agtgatcgga ggcgctccct gccaaggctt ttcattaata ggaaaacgcg
      361 cgcttgatga tgatagaaac aaactggtct atcactatgt acggctggtt cttgagctaa
      421 agcctaaata ctttgttttt gaaaatgtaa aagggttgac ggttggtaag cataagcagt
      481 ttttagtaga gataatggat gcatttaaag atggcgggta cgacgttgta agcgattata
      541 aagtgctaaa cgcagctgat tatggagttc ctcaagatcg ccgtcgtctt ttcttaatgg
      601 ggggaaggaa aggaattgct ctgccatcat accctgagcc attatccatt agaacaacgg
      661 ttggggacgc tattggggat attcctgatg cggaaaaata tcctgagcta tggggtagag
      721 attgggttta tgctaaattt ggtgagcaat cactatactc atcctatttg catggcgtag
      781 gaaaagatcc tagtgatttt agctacccaa ggatttttaa taaagacaaa ttaacgtgtt
      841 ctttactgac agatcactct gacatttcta gagggcggtt tgttgaaact ttgcctgaca
      901 cggtagaacc aatcagcagg tttaaaaagc tctcgatgaa tgggctatgt aatactttaa
      961 gggcaggaac agcaagtgac agaggtgctt ttacatctcc tcgtcctata catccgatct
     1021 atcctagggt catcacggtc agagaggcag caagactgca ttcatatcct gattggttca
     1081 gatttcatgt gactaagtgg catggattta gacaggtcgg taatagtgtt cctcctatgc
     1141 tagctagaag tgttggcttg cagattatga aggttcttgg tgttacgcca aaaaaaccaa
     1201 cgaagaaaat caaactcggt gatgaaagtt tggttgctat ttctatgtcc gatgctgcat
     1261 ctatgtttgg tgtgtcatca aatgtaattg ctaagagaat aaaaaatagt aacaaggagg
     1321 ttgtttgtga gtaaggataa aaaagaaagg tccaaaaata gataccatca gttggtagaa
     1381 aagatatttt tcgataaata tgttgatggt gacttagagg ttttgtttga aaggttagat
     1441 ataaacagtg ctgcaaaaga tttaggtata gaactcccat ctaatgttgg tgatgttata
     1501 tattcaatca gatttagaac gcctatgcca gaaagtattc tgttgactca gccagaaggt
     1561 aaggagtgga ttattgagct ggctggtagg tcaaagtatc gatttagatt agtaactatt
     1621 agtaggattt tgccaaatcc taatatggtg gcaataaaaa ttccagacaa taccccggag
     1681 ataattacag gttattcttt agacgacgag caggcattgc tggcgaaggt gagatataac
     1741 cggctaatag atatatttct aggtataacc acatattctt tacagaatca tttaagaact
     1801 acggtgaagg gaattggtca aatagagatc gatgaacttt atgtaggtat agataaatac
     1861 ggttgccatt atataatacc agttcaagca aaaggtggga cagatcaaat atcaatggtg
     1921 caaacatcgc aagatacagc gtggtgtgaa caaaaatacc caaatgttag atgtagagct
     1981 atttccgctc agtttgtttc gagcgatttg attgcactgt ttgagctaaa gatagacgaa
     2041 ggacaagtga aattgattga ggaaaggcat tacaaactgg ttccggtaaa agagttagat
     2101 agctctgaca tctcaaacta ccgcatgtct gtataatttc tgagaggatc ttcttgagat
     2161 cctttcgttc tagccgtaat ctcctaagcc gtaaacaaaa aaaccaccgc taccaacggt
     2221 ggttcgtttg ccggaattta gagctaccaa ctctttcttc cgaaggtaac tggctttcac
     2281 ggagcgcaga taccaaaact gtcctttcag tgtagccgta gtcaggccac cacttcaaga
     2341 actctgtaga taactctact ccgctccgtg aatccgatta ccagtggctg ctgccagtgg
     2401 cgcttttgca tgtcttttcg ggttggactc aagacgatag ttaccggaca aggcgcagca
     2461 gtcggactga acggggggtt cgtgcataca gtccagcttg gagcgaactg cctacccgga
     2521 actgagtgtc aggcgtggaa tgagacaaac gcggccataa cagcggaatg acaccggtaa
     2581 accgaaaggc aggaacagga gagcgcacga gggagctacc agggggaaac gcctgggatc
     2641 tttatagtcc tgtcgggttt cgccaccact gatttgagcg tcagattttg tgatgcttgt
     2701 caggggggcg gagcctatgg aaaaacggca acgccgcatc ctttttcctg actttcctga
     2761 ctttcctgac ttgagcgcga tctcgttatc tcgtccttcg tgagctggta acgcccgccg
     2821 cagtctcacg gcaggagcgc agcgaccgag tgagcgagga ggcgtcattt catcgttacc
     2881 tgcattttgc acttacgccc cgcagccgta ttttccccct tgccacatga agcacttccc
     2941 cgaatctcca tctcgccgta acatactaag ccagtataca ctccgctagc gctacgtgac
     3001 tggttcaggg ctgcgccccg aaaccccact gacgcgcctg cggcttgtcc aaccccgcgc
     3061 cgaccgggaa aggctttccc gtccgtcacg gcgttatcag gaggcgattc tggcagataa
     3121 acgcaacaag atgctcacga tgtgggtgac ggaagacgaa caccggcggt tgcttgagcg
     3181 gtgcgacgga aaacaactgg cggcgtggat gcgccagacc tgccttgatg agaaaccgac
     3241 acgcgccggc aggcttccct cgatttcgcc cgcgctgctg cgtcagcttg ccggcatggg
     3301 caataacctg aaccagatcg cccggaaagt gaacgccggt ggtgccggtc atgaccgggt
     3361 gcagatcgtg gcagcgctga tggcgatcga tgccggtctg gaacggttgc ggcatgccgt
     3421 actggaaaaa gggccggacg atgattgtta aattccatcc ccggggtcgc ggcgggggcg
     3481 ccggtcctgt ggattatctt ctgggtaaag accggcagcg tgaaggtgcc agcgtcctgc
     3541 aggggaagcc ggaagaagtc cgggagctga ttgatgcgtc gccgtatgtg aaaaaatata
     3601 cctccggggt gctgtcattc gcggaggcgg acctgccgcc gggtcagcgt gaaaaactga
     3661 tggccagctt tgagcgggtt ctgatgcccg gactcgataa agaccagtac agcattctgt
     3721 gggtggaaca cgcagacaag ggtcgtcttg agctgaattt tctgatcccc aataccgaat
     3781 tactgacggg gaaacgcctc cagccgtatt acgatcgtgc cgaccggccg cgcatcgatg
     3841 cgtggcagac agtggtcaac ggcaggctgg ggctacatga tccgaacgac ccggagaacc
     3901 ggcgggcgct ggtcacgcct tcaggactgc cagaaacgaa gcaggaagcc gcagagacga
     3961 ttacacgggg tttgctgatg ttagcctcat caggagagct gaaaacgcgt gatgacgtca
     4021 caggggcgct cacagcggcc ggttttgagg tggtcagaac cacaaaaaac agtatcagca
     4081 ttgccgaccc ggacgggggg cgaaatatcc gactgagggg agccatttat gagcagtctt
     4141 ttaacggcct cgagggactt cgaggagaaa tcgaaagcac agcagcagct taccgaagag
     4201 aggctgaaag ccgcattcag caagcacgag aacgttgtca aatcggaact gaacgcaagc
     4261 gcgaagagaa tcaacgacgc catcagcgcc cacgaacagg ggatgaacgc ggcgatgcag
     4321 tcgaaccggc tgagcgtgct gcgaatggtc gggcggacgt ggctgaccat caccatggtg
     4381 tcagggctgc tgttcgccag cctgagcggg gtgctgtggt accaggggaa ccggatagcg
     4441 gcgaacctgg cggaaatcag gcagcagaga gatacgctgt cgaaactgca catgcagacg
     4501 tggggcgtga cctatctgga gaaccgcaac ggacggtttc tggtgctgcc ggaggggatg
     4561 aaagccgaaa cgggccggac ggtggacaac aagacgcgga acgcggtgaa gctggtacgg
     4621 gagtagagca gaatgacgga actggaaaaa caattgctga gcgcgttaga gcagctacag
     4681 caggactact cgagaaggct ggacgagtgg gagagcgcct tcgaggaatg gcggaagatg
     4741 tctggtctta tgcaacggga gaacgcggcg ctgagcgagc gcgtgtcggg cttgagcagg
     4801 caggtgcaga gtttgagcga gcagctgcgc cggttatcga caggctgaat gagattgagc
     4861 aacagcgata cgggcaaaca acggaaaagg aaccagagaa gacagcagat ctggtaccgg
     4921 aacggcaacg cacattatct catggtgaca gggagtatgg agactgataa acgcccgtct
     4981 caggtggcct gagcgtgacg gggatcatgg ccattttctg cgatttcagc acacagagag
     5041 tcttttttaa ccgaaatcac cggctatgca gtgatgtgaa taagtgatgc atatgcgtaa
     5101 aataaatcag gtgcgtttct ggtggttttc ggtgtacttg ccaccacctt ttgcccgtca
     5161 gccatcagaa acgccctgag tgcctccggc gcggtgcggg taagagatgt tatgtt
//
