LOCUS       CP067714                6141 bp    DNA     circular BCT 02-MAR-2022
DEFINITION  Klebsiella pneumoniae strain ARLG-4850 plasmid pC346_4, complete
            sequence.
ACCESSION   CP067714
VERSION     CP067714.1
DBLINK      BioProject: PRJNA658369
            BioSample: SAMN15869025
KEYWORDS    .
SOURCE      Klebsiella pneumoniae
  ORGANISM  Klebsiella pneumoniae
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Klebsiella/Raoultella group; Klebsiella.
REFERENCE   1  (bases 1 to 6141)
  AUTHORS   Shropshire,W.C.
  TITLE     Highly Conserved and Distinct Accessory Genomes Drive Independent
            and Parallel Endemic Spread of Carbapenem-Resistant Klebsiella
            pneumoniae Clonal Groups 258 and 307
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 6141)
  AUTHORS   Shropshire,W.C.
  TITLE     Direct Submission
  JOURNAL   Submitted (05-JAN-2021) 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 Date                     :: 2020
            Assembly Method                   :: Flye v. 2.7
            Assembly Name                     :: C346
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 190x
            Sequencing Technology             :: Oxford Nanopore GridION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI
            Annotation Date                   :: 01/11/2021 15:24:41
            Annotation Pipeline :: NCBI Prokaryotic Genome Annotation Pipeline
            (PGAP)
            Annotation Method :: Best-placed reference protein set; GeneMarkS-2+
            Annotation Software revision      :: 5.0
            Features Annotated :: Gene; CDS; rRNA; tRNA; ncRNA; repeat_region
            Genes (total)                     :: 5,479
            CDSs (total)                      :: 5,352
            Genes (coding)                    :: 5,231
            CDSs (with protein)               :: 5,231
            Genes (RNA)                       :: 127
            rRNAs                             :: 9, 8, 8 (5S, 16S, 23S)
            complete rRNAs                    :: 9, 8, 8 (5S, 16S, 23S)
            tRNAs                             :: 87
            ncRNAs                            :: 15
            Pseudo Genes (total)              :: 121
            CDSs (without protein)            :: 121
            Pseudo Genes (ambiguous residues) :: 0 of 121
            Pseudo Genes (frameshifted)       :: 52 of 121
            Pseudo Genes (incomplete)         :: 66 of 121
            Pseudo Genes (internal stop)      :: 25 of 121
            Pseudo Genes (multiple problems)  :: 20 of 121
            ##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..6141
                     /organism="Klebsiella pneumoniae"
                     /mol_type="genomic DNA"
                     /strain="ARLG-4850"
                     /isolation_source="other"
                     /host="Homo sapiens"
                     /db_xref="taxon:573"
                     /plasmid="pC346_4"
                     /geo_loc_name="USA: South"
                     /collection_date="2017"
                     /collected_by="MDRO network"
     gene            join(5768..6141,1..19)
                     /locus_tag="JJ502_27275"
     CDS             join(5768..6141,1..19)
                     /locus_tag="JJ502_27275"
                     /inference="COORDINATES: protein motif:HMM:NF037437.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="antitoxin VbhA family protein"
                     /protein_id="UMG43893.1"
                     /translation="MSTTQIEKDSRRKAVNGVISSFQLEGEAITDEFKILLEDYINGKI
                     STDEVLAMVSDEPTTTEYDYEITPRTLGLGGGWNLRLLENGEEVGGGVFPLPEHCDFRD
                     EKALQTLLDSLYEDALAEASAWLASR"
                     /name="antitoxin VbhA family protein"
     gene            1..339
                     /locus_tag="JJ502_27280"
     CDS             1..339
                     /locus_tag="JJ502_27280"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_005322038.1"
                     /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="UMG43894.1"
                     /translation="MAGQPLKRLRSIKIRVSDAELERLRELCPKAQLAEWMREQCLGVA
                     QPQRRTPAPTVDPALLRQLAGMGNNLNQIARRVNSGEWGPLDRLRIIAELSAIGRELEE
                     LHHDHQIP"
                     /name="MobC family plasmid mobilization relaxosome protein"
     gene            320..1030
                     /locus_tag="JJ502_27285"
                     /pseudo=""
     CDS             320..1030
                     /locus_tag="JJ502_27285"
                     /inference="COORDINATES: protein motif:HMM:NF015397.1"
                     /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            1008..1445
                     /locus_tag="JJ502_27290"
     CDS             1008..1445
                     /locus_tag="JJ502_27290"
                     /inference="COORDINATES: protein motif:HMM:NF016710.1"
                     /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="UMG43895.1"
                     /translation="MSKILDMAKDFEQSSKQQANAIEKRLTEEFTRHEKAISGALKSSE
                     EKMSAAIAEHSQKMGWLLLKTWIWMLVSIVLFLSATSGILWYQGELIAERQATLQALAE
                     KGGKLKLTQCGKKLEHLCVQISDPNPTVWGKDTYWIVPKGY"
                     /name="MbeB family mobilization protein"
     gene            1446..1718
                     /locus_tag="JJ502_27295"
     CDS             1446..1718
                     /locus_tag="JJ502_27295"
                     /inference="COORDINATES: protein motif:HMM:NF016769.1"
                     /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="UMG43896.1"
                     /translation="MTGLERELLCAFEALQSAYEQQHKAWQESYANLASMYESTKQEAE
                     ISRAAAERLTRQVNGLTQQVDGLSKQLEGLTGLVSKLQKKGNTGS"
                     /name="MbeD family mobilization/exclusion protein"
     gene            complement(2056..2337)
                     /locus_tag="JJ502_27300"
     CDS             complement(2056..2337)
                     /locus_tag="JJ502_27300"
                     /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="UMG43897.1"
                     /translation="MGFFNLSKALEEVSDAFGAKETAIASAKLLGKGVVNLAHFAATTG
                     LDSVVKQTSNKVLNSESSTEEQREQAKKSAAWADARIAARNKAENTED"
                     /name="hypothetical protein"
     gene            2681..3478
                     /locus_tag="JJ502_27305"
     CDS             2681..3478
                     /locus_tag="JJ502_27305"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_011071128.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="OXA-48 family carbapenem-hydrolyzing class D
                     beta-lactamase OXA-232"
                     /protein_id="UMG43898.1"
                     /translation="MRVLALSAVFLVASIIGMPAVAKEWQENKSWNAHFTEHKSQGVVV
                     LWNENKQQGFTNNLKRANQAFLPASTFKIPNSLIALDLGVVKDEHQVFKWDGQTRDIAA
                     WNRDHDLITAMKYSVVPVYQEFARQIGEARMSKMLHAFDYGNEDISGNVDSFWLDGGIR
                     ISATQQIAFLRKLYHNKLHVSERSQRIVKQAMLTEANGDYIIRAKTGYSTSIEPKIGWW
                     VGWVELDDNVWFFAMNMDMPTSDGLGLRQAITKEVLKQEKIIP"
                     /name="OXA-48 family carbapenem-hydrolyzing class D
                     beta-lactamase OXA-232"
     gene            complement(3885..4037)
                     /locus_tag="JJ502_27310"
                     /pseudo=""
     CDS             complement(3885..4037)
                     /locus_tag="JJ502_27310"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_015059985.1"
                     /note="incomplete; partial on complete genome; missing
                     N-terminus; Derived by automated computational analysis
                     using gene prediction method: Protein Homology."
                     /pseudo=""
                     /codon_start=1
                     /transl_table=11
                     /product="EreA family erythromycin esterase"
                     /name="EreA family erythromycin esterase"
     gene            4413..5360
                     /locus_tag="JJ502_27315"
     CDS             4413..5360
                     /locus_tag="JJ502_27315"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_014293673.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="replication initiation protein"
                     /protein_id="UMG43892.1"
                     /translation="MRKCAQLELFRERLPRKPYYSDELTTGLRIADVARALGARYIQPN
                     GPTHRHWIVFDVDHAAATLSWDDVGAPAPNITVTNKANGHAHLIYGLDTPIRTAPDGNA
                     APLRYAAAIEAALREKLGADMGYSGLICKNPLHEHWLVQVWEPRLYDLAWLSDYLDLSS
                     YNGRKSLPEYGLGRNCTLFEKTRLWAYKAIRQGWPDYPEWLAACVDRASGYNAQFEQPL
                     PANEVRHTAKSIAKWTHQHLSPAGFREEQARRGAKGGKVSKGGGRPSNSGKDKSDLLPE
                     VLRLKAQGYTNRDIADDLQISPSTVSVYLKRDRP"
                     /name="replication initiation protein"
     ARG             2682..3475
                     /name="blaOXA-232"
                     /gene="blaOXA-232"
                     /gene_name="OXA-48 family carbapenem-hydrolyzing class D
                     beta-lactamase OXA-232"
                     /tool="amrfinderplus"
                     /drug_class="BETA-LACTAM"
                     /identity="100.0"
                     /coverage="100.0"
     Typing          4426..5347
                     /name="rep_cluster_1195"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="81.974"
                     /coverage="98.0"
                     /evalue="0.0"
     Typing          321..1771
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="98.554"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 atggctggcc agccgttaaa gcgcctccgc tctatcaaga tccgggtctc agatgcggag
       61 cttgagcgcc tgcgggagct ctgccccaag gcccaactgg cggagtggat gcgggagcaa
      121 tgtctcggtg ttgcgcaacc ccagcgccga acgccggcgc ctaccgtaga tccggcgctc
      181 ttgcggcagt tggccggaat gggcaacaac ctgaaccaga tcgcccggcg cgttaattcc
      241 ggggagtggg ggccgttgga tcggctgcgc atcatagcgg agctgtccgc tataggccgc
      301 gagctggagg aactgcacca tgatcatcaa attccataac cgtggggtag gccggggctc
      361 cgggcctgtt ggctacttgt tgggccgtga cgggaaccgg gaaggcgcaa cgctcgaccg
      421 gggcaaccct gcggtgattg aagccctgat tgattccagt ccctacgcca aaaaatacac
      481 ctctggcgtt ctgtcgtttg ccgaggctga tttacccagg gcgaccaagg acaagctgat
      541 gagcgacttt gaaaaggcgc tcctgcccgg actggagggc aaccagtacg ctgttttgtg
      601 ggtagagcac cgcgacaagg ggcggctgga gctgaatttt gtagtcccga acatcgaatt
      661 gcagagcggg aagcggctgc aaccctactt ccacaaggcc gacaatccgc gcctcgatgc
      721 gtggcgaacc gtggtaaacg gggagctgaa attgcacgac ccggacgatc cgttaaaccg
      781 tcaggccgtt atcacgccaa aggatttgcc gagggggcac aaggaggccg ctcaggccat
      841 tacagacggg cttttacgca tggccggagc aggggagatc cagagccgcg atgatgtgcg
      901 caaagccttg cagggtgcgg gtttcagcgt ggtacgcgaa accaaaaaca gcctgagcat
      961 tgccgacccg gacggggggc ggaacatccg attaaagggg gtgctgtatg agcaagattt
     1021 tagacatggc gaaggacttc gagcagagct cgaagcagca ggccaacgct atcgagaagc
     1081 gtctgaccga agaattcacg aggcacgaga aagctatctc cggggcgttg aaatcaagcg
     1141 aggagaaaat gagcgccgct attgccgagc acagccagaa aatgggctgg ctgttgctca
     1201 aaacgtggat ctggatgctg gtcagcatcg tcctgttctt gagcgcaacg agcgggatcc
     1261 tctggtatca gggggaattg atagcggagc ggcaagccac tctccaagcc ttggcagaga
     1321 agggcggcaa gctaaagctg acccagtgcg ggaagaaatt ggagcacctt tgcgtgcaga
     1381 tctccgaccc caatccaacc gtttggggga aggataccta ttggatcgtg ccgaaggggt
     1441 actaaatgac gggattggag cgggaattgc tctgcgcgtt cgaggctttg cagagcgcat
     1501 acgagcagca gcacaaggca tggcaggaaa gctacgcgaa cttggcgagc atgtacgaga
     1561 gcaccaaaca agaggccgag atcagcaggg cagcagcaga gcgattgacg aggcaggtga
     1621 acggcttaac gcagcaagtg gacggcttga gcaagcagct ggagggcttg accgggctag
     1681 tcagcaagtt gcaaaagaaa gggaacacag gctcctgaag gcactggatc gaggctggga
     1741 gcgtggagac agatcgcgag gctttgagcg ttgacggaac aaaacggccg tcagttataa
     1801 aaaaaggaaa gtgctatcac tttcctttta tcggcgggaa ttatcgttga gttcttctat
     1861 gccatttttc atagtagtaa ctgtaatctt catctctacc accagattca atccagtcat
     1921 catactcagg gctatttttg aaatctgaat cagacatgct aactccttgt tattagttgg
     1981 cttctatgga agctagcgca ccgtgaagtt atgatcaacg atgtagtcca catcattgtc
     2041 gaaatgtgcg ttcagctagt cttcggtgtt ttctgcttta tttctagcgg cgattctcgc
     2101 gtctgcccat gcggcagact ttttagcctg ttctcgttgt tcttcggttg aagactcgct
     2161 gttgagaact ttgttgctcg tttgtttgac caccgaatcc aaacctgttg ttgctgcaaa
     2221 atgagctagg ttaacaactc ccttacctaa caacttggca ctagcgattg cggtttcttt
     2281 agccccaaaa gcatcagaca cctcctcaag cgctttagat aggttaaaaa atcccatact
     2341 ccccctaaga atatcatcaa taaaattgag tgttgctctg tggataactt gcagagttta
     2401 ttaagtatca ttgcagcaaa gatgaaatca atgatttatc aaaaatgatt gaaaggtggt
     2461 tgtaaataat gttacaatgt gtgagaagca gtctaaattc ttcgtgaaat agtgattttt
     2521 gaagctaata aaaaacacac gtggaattta ggtaatagtt aaagcttgtg cctgattgtt
     2581 gccacaattg gtcagcagtt tgctagggaa tgagagggca gagaatgata agcttagcac
     2641 ttaatttgta tggatatatt gcattaagca aggggacgtt atgcgtgtat tagccttatc
     2701 ggctgtgttt ttggtggcat cgattatcgg aatgccagcg gtagcaaagg aatggcaaga
     2761 aaacaaaagt tggaatgctc actttactga acataaatca cagggcgtag ttgtgctctg
     2821 gaatgagaat aagcagcaag gatttaccaa taatcttaaa cgggcgaacc aagcattttt
     2881 acccgcatct acctttaaaa ttcccaatag cttgatcgcc ctcgatttgg gcgtggttaa
     2941 ggatgaacac caagtcttta agtgggatgg acagacgcgt gatatcgccg cttggaatcg
     3001 tgaccatgac ttaattaccg cgatgaagta ctcagttgtg cctgtttatc aagaatttgc
     3061 ccgccaaatt ggtgaggcac gtatgagtaa aatgctgcac gccttcgatt atggcaatga
     3121 ggatatctcg ggcaatgtag acagtttttg gctcgatggt ggtattcgca tttcggctac
     3181 ccagcaaatc gcttttttac gcaagctgta tcacaacaag ctgcacgttt ctgagcgtag
     3241 tcagcgcatc gtgaaacaag ccatgctgac cgaagccaat ggcgactata ttattcgggc
     3301 taaaacggga tactcgacta gtatcgaacc taagattggc tggtgggttg gttgggttga
     3361 acttgatgat aatgtgtggt tttttgcgat gaatatggat atgcccacat cggatggttt
     3421 agggctgcgc caagccatca caaaagaagt gctcaaacag gagaaaatta ttccctagaa
     3481 gtggttagcg cgtatttgtg tgaaatagcc gtcatataag ctgtaaagat atatggacaa
     3541 aatgctgatg ctcgatgcgc ttgtagttaa tggctcatac ttaatcggtc aggcctaatc
     3601 gacttaagct ccgcgcgtta actttcagcc tgagcattag catcacattc ctaaacgtaa
     3661 aaagcctagc caatttgcta ggcttttttg ttatctcaat ggccatggtc actcaacatg
     3721 ggggtgtgaa taaaggagtg gcgatgtcag taaaggtgaa tgccgctgcg ataaagtgcc
     3781 tagcccatca aggattgtag gctttcttgg ctgctaaagc gtttgacgaa aaagtccaag
     3841 aaggcgctga tattggttct ccatcatttt catctaccgg tttactatag gtcaaccagg
     3901 ccgtccttgc cggcgcttgg gacgcagacg atggcatcaa atgcctcgct caaattcgtt
     3961 tctacagagg cgctttggga ccgcattcgc tttgctttca tgggggcatc tgtcaatgtc
     4021 agacatgaat cctccgatat aggttgattt ttgatctctt caacacttgg tgttgtccga
     4081 ctagagagac ttatatggat cagtattctt gcactgacaa tggtgccact caatcccaag
     4141 gatcgaccta gttagaggcg tagatcaagc aattcaaaac agcgcagaag cagaaggagg
     4201 tggaaatatg ttccagggtg aaaggttaca tgcaactaac gttgctctct aggatgtgcc
     4261 tgctgtaacg tattgtccag aaaagacaac cccccgttat cgcttgcatc ttggcggagc
     4321 tgcgaaaaac gggggccgtg acgaatcaca agagaagtct atcacatgga tcatgccaaa
     4381 caaccccacg ccgccaataa gcgcggtggt gcttgagaaa gtgcgcacag cttgagctgt
     4441 ttcgggagcg cctgccccgg aaaccctact attccgacga gcttacaacg ggcctacgga
     4501 ttgcggatgt tgcccgcgcc cttggtgcgc gttacatcca gccgaacggg ccaacgcacc
     4561 gccactggat cgtttttgac gtagaccatg cagccgctac gttatcttgg gatgacgtag
     4621 gcgctccagc ccctaacatt accgtcacga acaaggccaa cggccacgcg catctgatct
     4681 acggactgga tacgccgatc cgcactgccc cggatggaaa tgcagcccct ctgcggtatg
     4741 ccgccgccat cgaggccgcg ctccgggaga aattaggggc ggatatgggc tactccgggc
     4801 tgatctgcaa gaaccccctg catgagcact ggctggtgca ggtatgggaa ccccggctct
     4861 acgatttagc ctggctatcc gattacctcg atctgagctc ctacaatggc cgcaaatcgc
     4921 ttcctgagta cgggcttggg cgaaactgta ccctgttcga gaaaacgcgc ctgtgggcct
     4981 ataaagcgat ccggcagggc tggccggatt accccgaatg gttggccgct tgtgttgacc
     5041 gggcatcagg atataacgcc cagttcgagc agccgctccc cgcaaacgaa gtccggcaca
     5101 cggccaagtc cattgccaaa tggacgcacc agcacctaag ccccgcaggg ttcagagagg
     5161 agcaggcccg gagaggtgcg aagggcggca aggtatccaa gggaggggga aggccgagca
     5221 atagcggtaa ggacaagtcc gatctattgc cggaggttct gcggcttaag gctcaggggt
     5281 acaccaaccg cgatatagcg gacgatcttc aaatctcccc cagtacggtg agcgtttacc
     5341 taaagcgtga tcgtccgtga tcgaaacaag ccttatcaga taatagcccc ctttaggggg
     5401 gttcctgcgc tcttgtcttt tagccttaaa aaatcctttt agcgcggatc tttggcgagg
     5461 tggacaactg cgcctgtccg tccatcgccc ccctgttttt tcggggggtg tgggcggcag
     5521 cagttatcca cggagccgct ctttcccttg atcttgctct agggcttgca gtatcccgcc
     5581 catggttgaa taatgtacta agcaaggcta cacagaggcc cctctacctg cttcgcggtc
     5641 tcgggcctct gtggccttgt tcaggggtgc tacgcccccc cgaaaccccc tgtggccccc
     5701 gctcgatccg ccccttcggg acggtctgcg cggtggcttc ttggctctgg agaatggacg
     5761 aggccctatg tcaacaacac agatagagaa agattcgaga aggaaggcag tcaatggcgt
     5821 tatttctagt ttccaactag agggggaggc cataaccgat gaattcaaaa ttctacttga
     5881 agattatatc aatggaaaaa tttccaccga tgaggtgtta gctatggtaa gtgacgaacc
     5941 cacaacaacg gaatacgact acgaaatcac cccccgcact ctcggtcttg gcgggggctg
     6001 gaatctgcgt ttgctggaga acggcgaaga ggtcggcggg ggtgttttcc ccttgccgga
     6061 gcactgcgat tttcgggatg aaaaggcgct ccagacgcta ctcgatagcc tctatgagga
     6121 cgccttagcg gaggcctctg c
//
