LOCUS       NZ_CP132643             5640 bp    DNA     circular CON 24-AUG-2023
DEFINITION  Klebsiella pneumoniae strain 589376 plasmid p5, complete sequence.
ACCESSION   NZ_CP132643
VERSION     NZ_CP132643.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN36071305
            Assembly: GCF_030845595.1
KEYWORDS    RefSeq.
SOURCE      Klebsiella pneumoniae
  ORGANISM  Klebsiella pneumoniae
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Klebsiella/Raoultella group; Klebsiella.
REFERENCE   1  (bases 1 to 5640)
  AUTHORS   Luo,T.
  TITLE     Differentiation of hypervirulent and classical Klebsiella pneumoniae
            with acquired drug resistance
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 5640)
  AUTHORS   Luo,T.
  TITLE     Direct Submission
  JOURNAL   Submitted (03-JUL-2023) Walter Reed Army Institute of Research, MRSN
            BI Team, 503 Robert Grant Ave, Silver Spring, MD 20910, USA
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: Trycycler v. 0.5.3
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 440x
            Sequencing Technology             :: Oxford Nanopore MinION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 08/21/2023 17:24:28
            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)                     :: 5,696
            CDSs (total)                      :: 5,563
            Genes (coding)                    :: 5,398
            CDSs (with protein)               :: 5,398
            Genes (RNA)                       :: 133
            rRNAs                             :: 9, 8, 8 (5S, 16S, 23S)
            complete rRNAs                    :: 9, 8, 8 (5S, 16S, 23S)
            tRNAs                             :: 90
            ncRNAs                            :: 18
            Pseudo Genes (total)              :: 165
            CDSs (without protein)            :: 165
            Pseudo Genes (ambiguous residues) :: 0 of 165
            Pseudo Genes (frameshifted)       :: 66 of 165
            Pseudo Genes (incomplete)         :: 102 of 165
            Pseudo Genes (internal stop)      :: 30 of 165
            Pseudo Genes (multiple problems)  :: 30 of 165
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP132643.1.
            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..5640
                     /organism="Klebsiella pneumoniae"
                     /mol_type="genomic DNA"
                     /strain="589376"
                     /isolation_source="respiratory"
                     /host="Homo sapiens"
                     /db_xref="taxon:573"
                     /plasmid="p5"
                     /geo_loc_name="Afghanistan:Bagram"
                     /collection_date="2018-07-15"
                     /collected_by="Multidrug Resistance Surveillance Network"
     gene            complement(join(4128..5640,1..263))
                     /locus_tag="QRD00_RS28410"
                     /old_locus_tag="QRD00_28390"
     CDS             complement(join(4128..5640,1..263))
                     /locus_tag="QRD00_RS28410"
                     /old_locus_tag="QRD00_28390"
                     /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="DUF262 domain-containing protein"
                     /protein_id="WP_124046799.1"
                     /translation="MRFDASPFNMNSILSVEKRYEIPRNQREFSWERIQLEELWADLLR
                     NIVMDDNGTIKLHEYFIGTIVLSGVDSDDVLEVVDGQQRLSVITMMLSIISRYFRKNKN
                     DTTADNIYKKYIVTINNTLDRNSLNSDGESVIQKLTRSVGGEYFKKIVQGKEESDAKAT
                     NDEEKKIRYAVTFFKRALRKKSLCSAIFKTNDDSFTKADYDLCLNAIYKMITNYLYIVR
                     IAVDRGDDAYDIFEVLNARGINLSSIDLIKNKVFQSCTTTFPEDEARRKWVHIYEQLGS
                     VGETMTDYIRCWWLSKYGYIGEDQLYRSFKREILNENSLLTADSFLEEIYNDVSLYMSM
                     VAPSTKYWNLSHQRPILDALANINTFSVTVPRPFILSLLRTRRDKSRLMKQSELIETLE
                     FLEKFHFKFNAVCRMRPSGIDSKYSVFAVRADRAVSKASLKNTIDETVDFLKRKAPSEK
                     VFKDCLMKNIEYKDDKLSQRKLIIYIFETLERLAVGTKELKYHMVSIEHIGSQSNFSPT
                     YVGKLGNLLPLCFDINRDCENMPLAGKLPEYARSRLELVKQFNTANAAKNTWEVSDAQT
                     RQEQITNALNAAFTL"
                     /name="DUF262 domain-containing protein"
     gene            complement(253..1146)
                     /locus_tag="QRD00_RS28415"
                     /old_locus_tag="QRD00_28395"
     CDS             complement(253..1146)
                     /locus_tag="QRD00_RS28415"
                     /old_locus_tag="QRD00_28395"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_006674370.1"
                     /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_044816547.1"
                     /translation="MNNAVLELFNDRLPHKPYFSDDLHFGVRIAGKERAILAKYIQFNQ
                     PHAMFWLGFDVDRTGAAIDWNDRNAPAPTLTITNPDNGHAHLLYALRTSIRTAPDGKMK
                     PLRYAAAVENALRKKLEADAGYSGLICKNPNHSHWRIAVWQPELYTLDWLADFLDLNAA
                     NDKEIVADYGLGRNCTLFDKTRKWAYRAIRQGWPEYDQWLQACYERATAYNLHFSSPLD
                     DNEVTGIAKSIAKWTSKNFSEDSFREFVSRTHTSEIQSIRGSKSKGGGRPSIGEPWLEH
                     GISRATYFRKLKKNEI"
                     /name="replication initiation protein"
     gene            complement(1339..1623)
                     /gene="nadS"
                     /locus_tag="QRD00_RS28420"
                     /old_locus_tag="QRD00_28400"
     CDS             complement(1339..1623)
                     /gene="nadS"
                     /locus_tag="QRD00_RS28420"
                     /old_locus_tag="QRD00_28400"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000007431.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="NadS family protein"
                     /protein_id="WP_001697687.1"
                     /translation="MSFFDELKASLEEAVEIKNGVREPARVTRYELADVKAIRAQLNVS
                     QSEMAKVLGTSLDTIKSWETGRRNPTGLAAKVLATIQANPKFFQELAAH"
                     /name="nadS"
     gene            complement(1625..1957)
                     /locus_tag="QRD00_RS28425"
                     /old_locus_tag="QRD00_28405"
     CDS             complement(1625..1957)
                     /locus_tag="QRD00_RS28425"
                     /old_locus_tag="QRD00_28405"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_015873600.1"
                     /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_044816545.1"
                     /translation="MSHAIEFIETPMFTRQIKQIATDEELRELQKTLIESPDKGDLIQK
                     TGGLRKIRMATGNQGKSGSARVIYFLATAEVIYLVMAYPKSTKDSLTDAEKAVLKSLTQ
                     QLKDEV"
                     /name="type II toxin-antitoxin system RelE/ParE family
                     toxin"
     gene            complement(2113..2358)
                     /locus_tag="QRD00_RS28430"
                     /old_locus_tag="QRD00_28410"
     CDS             complement(2113..2358)
                     /locus_tag="QRD00_RS28430"
                     /old_locus_tag="QRD00_28410"
                     /inference="COORDINATES: protein motif:HMM:NF016769.3"
                     /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="WP_306589344.1"
                     /translation="MTKTMTEMEKQLLSALESLQTSYEQQQQAWQDSYSSLQHMFEATS
                     QALTHSDRVCQHLSSQVDSLRVQVESLSRNVSRLMR"
                     /name="MbeD family mobilization/exclusion protein"
     gene            complement(2407..2892)
                     /locus_tag="QRD00_RS28435"
                     /old_locus_tag="QRD00_28415"
     CDS             complement(2407..2892)
                     /locus_tag="QRD00_RS28435"
                     /old_locus_tag="QRD00_28415"
                     /inference="COORDINATES: protein motif:HMM:NF016710.3"
                     /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="WP_139914218.1"
                     /translation="MSEILNLAKAFEEKSKQQAQDTEQSVKREFARLETSISAELQSSS
                     QSISNAIREQNGRLTGMLRASVSTAMAWIFLCFALLIGIMGGIIWFQGTIITSRLSEMD
                     SYSQQLESLKAKSGAGVAIYSDDKHRNTYMVVLPKQAHGVETYTSTTDNTVVKYTAK"
                     /name="MbeB family mobilization protein"
     gene            complement(<2939..3361)
                     /locus_tag="QRD00_RS28440"
                     /old_locus_tag="QRD00_28420"
                     /pseudo=""
     CDS             complement(<2939..3361)
                     /locus_tag="QRD00_RS28440"
                     /old_locus_tag="QRD00_28420"
                     /inference="COORDINATES: protein motif:HMM:NF015397.3"
                     /note="incomplete; partial in the middle of a contig;
                     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            complement(3570..3896)
                     /locus_tag="QRD00_RS28445"
                     /old_locus_tag="QRD00_28425"
     CDS             complement(3570..3896)
                     /locus_tag="QRD00_RS28445"
                     /old_locus_tag="QRD00_28425"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_006674374.1"
                     /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="WP_038885858.1"
                     /translation="MEKRTKEIKIRLTETEHQRLLDRCDRTHLAEWLRQLGLGEHTSRK
                     RRVPEVAPELLRQVSGIGNNLNQIARRLNQADSLTPSERASLLVVLTSLDRQLGDLLEQ
                     NRDR"
                     /name="MobC family plasmid mobilization relaxosome protein"
     Typing          complement(2022..3580)
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="96.743"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 attacagaca atcgttgctg tccatccaca acttctaaaa catcatcact atcaacacct
       61 gatagcacaa tggttccaat aaagtactcg tgtaatttta tagtgccgtt atcatccatc
      121 actatatttc ttagaagatc agcccaaagc tcctcaagct gaattcgctc ccagctaaac
      181 tctcgctgat ttcttgggat ctcatatctt ttttctacag aaagaatgga gttcatatta
      241 aatggtgacg catcaaatct catttttttt tagtttcctg aagtatgtag ctctgctgat
      301 gccatgttct aaccacggct cccctataga aggtcttccg cctcccttac ttttactacc
      361 ccgtattgac tggatctcag aggtatgtgt ccgagaaaca aactccctga atgaatcttc
      421 ggaaaaattt ttacttgtcc atttagctat gcttttggca attccagtta cttcgttatc
      481 gtcaagaggc gaagaaaaat gaaggttata ggctgtagca cgttcataac aggcttgcag
      541 ccactggtca tactcaggcc agccctgacg gatagcgcgg tatgcccact tgcgggtttt
      601 gtcgaacagc gtgcagttac ggcctaaacc atagtcggca acgatttctt tgtcgttcgc
      661 cgcgttcagg tcgagaaagt cagccagcca gtccagcgtg tagagttccg gctgccatac
      721 ggcaattctc cagtggctat ggttcggatt tttgcagatt agccccgaat accccgcgtc
      781 agcctctaac tttttacgta gcgcgttctc cacagcggca gcgtagcgca gcggcttcat
      841 ttttccgtcc ggcgcggtac gtatcgaggt tctgagggcg tacagcagat gcgcgtgtcc
      901 gttgtcgggg ttggtgatgg tcagcgtggg cgcaggcgcg ttccggtcgt tccagtcgat
      961 ggccgcaccg gtgcgatcga cgtcgaatcc cagccagaac atggcgtgcg gctggttgaa
     1021 ctggatgtat ttcgccagaa tggcgcgttc cttaccggca atgcgtacac caaagtgtaa
     1081 atcatccgag aagtacggct tgtgcggtaa gcggtcgttg aaaagttcga gtactgcgtt
     1141 attcaaagcg ccctgcactt atggcgggct gttgtctggc acggttcatg tgctaatatc
     1201 ctttcaaggt ttcgacctgg ccctggttat catgtccgct cgccaaagta gagcatgatt
     1261 tccggggctt tgttttttct gttgccgtta aattacacgc gaacggcctc gcctgtcgaa
     1321 tccttctgtc acaacggctt agtgcgccgc cagctcctgg aagaatttcg ggttcgcctg
     1381 gatggttgcc agcaccttcg ccgccagtcc ggtcggatta cggcgtccgg tttcccagct
     1441 cttgatagtg tcgaggctgg tccccagcac tttcgccatc tcgctctgag atacgttcag
     1501 ctgtgccctg atggctttca cgtctgccag ctcgtaacgg gtgacgcggg caggctctct
     1561 gacgccgttt ttgatttcaa cggcttcttc cagcgatgct ttcagctcgt caaaaaaact
     1621 catgtcacac ctcgtctttc agttgttggg tcagcgactt cagcacggct ttctccgcgt
     1681 ccgtcaggct gtctttggtg cttttcgggt aggccatcac cagataaatc acctcggcgg
     1741 tggccagaaa gtaaataacc ctcgcactgc cgctttttcc ctggttgccc gtcgccattc
     1801 tgattttgcg cagcccaccg gttttctgga tgagatcgcc tttatccggt gactcaatca
     1861 gcgtcttttg cagctccctg agttcttcat ccgtggcgat ctgttttatc tgacgggtaa
     1921 acatcggggt ctcgataaac tcaatcgcgt gactcacggc tgtctcctgt gttcaatggc
     1981 gtacatagta cacttaattt taatttcaga aaagcggtca catcgagggg ccgtaatagc
     2041 gggtcggctt tttctgcggc tccggctgct gctcgcgcag cttctccgca cgggcgcggt
     2101 cgtgctgtgc aatcagcgca tcaagcggct gacgttcctg cttaagctct cgacctgcac
     2161 gcgcaagctg tccacctgac tgctcaagtg ctgacacacc ctgtcgctgt gcgtcagcgc
     2221 ctgtgaggta gcctcgaaca tgtgctgcaa gctgctgtag ctgtcctgcc acgcctgctg
     2281 ctgttgctcg tagcttgtct gtaagctctc taaggcgctc agaagctgtt tttccatctc
     2341 ggtcatggtt ttggtcatcc tcggtgttaa aaacgcgctg tgtcgtttca gggcgctctg
     2401 acggggttat ttcgccgtgt atttcactac ggtgttgtcg gtcgtcgatg tataggtttc
     2461 cacgccgtgc gcctgcttcg gcagcaccac catgtaggtg tttcggtgct tgtcgtcgct
     2521 gtagatcgcc acgcccgcgc cgcttttcgc tttcaggctc tccagctgtt ggctgtagct
     2581 gtccatctcg ctcaggcgcg aggtgatgat cgtgccctga aaccagatta tcccgcccat
     2641 gatgccgatc agcagggcga agcagaggaa tatccacgcc atcgccgttg agacagaggc
     2701 tctgagcatg cccgtcagtc tgccgttctg ctcgcggata gcgttgctga tgctctgcga
     2761 gcttgattgc agttccgcgc tgatagacgt ctccagcctc gcgaactcgc gcttcacgct
     2821 ctgctcggta tcctgcgcct gctgcttcga tttctcctcg aaggccttcg ccaaatttaa
     2881 aatctcgctc ataaatcatt cctttcagcc ggatatttcg gccgccgtcc ggatcggcaa
     2941 tgctgatgct gcttttcgtt tcccgcgcta cggtcaggcc gtagctttcc agctgcgtca
     3001 ccacgtcctg ccggctgcgg atcaccccct gctgcatcag gttcatcagg ccggcggtga
     3061 ttttctctgc cgcctgctgt ttgtcgcggg gcaaatcgct ggcctgcgtc agcggacggc
     3121 ggtaggtcgg gtcattcggg tcgcgcagcc ccagccggtc gttggtcagg gtctgccagg
     3181 cgttgacgcg gggacggtcg gcgcggtcaa agtagggttg caggcgtttt ccactctgca
     3241 attcgatgtt cgggatgaca aaattcagct caagccgtcc cttgtcacgg tgctccaccc
     3301 acaggcaggc gtactggtcg cgatcaaggc cggtcagcag cgtgtgctcc cattcgtcca
     3361 tcaggcgcga tttctcagcg tctgcaatgt ccggctcctg aaatgacagc acgccggaag
     3421 tataagcgcg ggcaaagtcg cagccgtcga tcagctcgcg cacatgttca gggttgccgc
     3481 gcagaacgct ggcctgttca cgctgccggt ctttacccag caggtaatcc accggcccgc
     3541 tgcccgaacc cgcaccccgt gagtgaattt taacgatcac ggttctgctc cagcaggtcg
     3601 ccaagctgcc ggtcaaggct ggtcagcacg acgagcagcg aggcacgttc agaaggcgtc
     3661 agggaatcag cctggttcag gcgacgggcg atctggttca agttattgcc aatcccgctg
     3721 acctgccgca gcagttcggg cgccacctca ggcacacggc gcttgcggga ggtgtgttca
     3781 cccagaccaa gctgacgcag ccactccgca aggtgagtgc ggtcgcagcg atcaagcagt
     3841 cgctgatgct cggtttcggt gagccggatt ttgatctctt tcgttcgctt ttccataggc
     3901 tccgctgaga aaaaattcgc accaccgtga gaatttttcg cagtggatgc tgggggtttc
     3961 ggggggcggc gagccccctg aaccagtcac ggcgacacct cgtaagaggg gacgctgtgt
     4021 gtactggctt atagtatgaa gtagtatgtc agattctatg ctatccgcaa aaaaacagcc
     4081 ctctgctaaa gagggctgtt atctgatata ggttgtttag tctcacatca gagcgtgaag
     4141 gcagcgttga gggcgtttgt tatctgttct tgcctcgttt gggcatcact tacttcccaa
     4201 gtatttttag ctgcgttagc agtgttaaat tgcttcacta actctaatcg tgatcgagca
     4261 tattctggca atttcccagc taatggcata ttttcacagt ctctatttat atcgaaacaa
     4321 agcggcagaa ggttacccag cttaccaaca taagttggac tgaaattcga ctgagagcct
     4381 atatgttcaa tcgaaaccat atgatattta agctctttag ttcctactgc tagtcgctct
     4441 agtgtttcaa atatgtagat aatgagtttt ctttgagata gtttatcgtc cttatactcg
     4501 atatttttca ttaagcagtc tttaaacacc ttttcgcttg gtgcctttct tttcaggaaa
     4561 tcaactgtct catcgattgt gtttttcaat gaagccttgc tcacagctct atcagctctg
     4621 actgcaaaaa ctgaatattt tgagtcaata cctgaaggtc tcattcgaca tacagcatta
     4681 aatttaaaat ggaacttctc aaggaactct agcgtctcaa taagctcaga ctgtttcata
     4741 agccttgatt tatctcttct tgttctgaga agagataaaa tgaaaggtct tggaacagta
     4801 acgctaaatg tgttgatatt tgctaaggcg tctaatatag gtctctggtg agacaggttc
     4861 cagtattttg tagatggagc taccatactc atataaagag atacatcatt atatatttct
     4921 tctaaaaatg aatcagctgt taacaagcta ttttcattta aaatttctct tttgaatgat
     4981 cgatagagct gatcttcacc aatatatcca tatttagata gccaccaaca acggatgtaa
     5041 tcggtcatgg tctcgccaac tgaacctagc tgttcgtata tgtgaaccca tttccttctg
     5101 gcttcatctt ctgggaaagt tgtagtgcaa gactggaaaa ccttattctt tataaggtct
     5161 attgaactga ggttaatacc tctggcattt agaacttcaa atatgtcata tgcatcgtcg
     5221 cctcgatcaa ccgctatcct gactatgtac agatagttgg ttatcatttt atagatagca
     5281 ttaagacata agtcataatc agccttcgta aaactatcat catttgtttt aaatatggcg
     5341 ctacataatg attttttgcg aagagccctt ttaaagaacg taacagcata tcttattttc
     5401 ttttcttcat cattcgttgc tttggcgtca gactcttcct tgccttgaac tattttttta
     5461 aaatactcac ctccaacgct ccttgttagc ttttgaataa cagactcacc atcagaattt
     5521 aaactatttc tatccagagt gttatttatt gttacgatat attttttata tatattgtcc
     5581 gcagttgtgt catttttgtt ctttctaaaa taccttgata ttatagaaag catcatggtt
//
