LOCUS       NZ_CP097242             2095 bp    DNA     circular CON 11-JUN-2024
DEFINITION  Klebsiella pneumoniae strain 1 plasmid p2.1, complete sequence.
ACCESSION   NZ_CP097242
VERSION     NZ_CP097242.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN27722563
            Assembly: GCF_023374245.1
KEYWORDS    RefSeq.
SOURCE      Klebsiella pneumoniae
  ORGANISM  Klebsiella pneumoniae
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Klebsiella/Raoultella group; Klebsiella.
REFERENCE   1  (bases 1 to 2095)
  AUTHORS   Luo,T.L., Corey,B.W., Snesrud,E., Iovleva,A., McElheny,C.L.,
            Preston,L., Bennett,J.W., McGann,P.T. and Lebreton,F.
  TITLE     IS26-mediated plasmid and toxin-antitoxin gene convergence in
            Klebsiella pneumoniae resulting in antibiotic resistance gene loss
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 2095)
  AUTHORS   Luo,T.L., Corey,B.W., Snesrud,E., Iovleva,A., McElheny,C.L.,
            Preston,L., Bennett,J.W., McGann,P.T. and Lebreton,F.
  TITLE     Direct Submission
  JOURNAL   Submitted (09-MAY-2022) Bioinformatics, Walter Reed Army Institute
            of Research, 503 Robert Grant Ave, Silver Spring, MD 20910, USA
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: Newbler v. 2.9
            Assembly Name                     :: MRSN546052
            Genome Representation             :: Full
            Expected Final Version            :: No
            Genome Coverage                   :: 113x
            Sequencing Technology             :: Illumina MiSeq
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_023374245.1-RS_2024_06_11
            Annotation Date                   :: 06/11/2024 04:57:04
            Annotation Pipeline :: NCBI Prokaryotic Genome Annotation Pipeline
            (PGAP)
            Annotation Method :: Best-placed reference protein set; GeneMarkS-2+
            Annotation Software revision      :: 6.7
            Features Annotated                :: Gene; CDS; rRNA; tRNA; ncRNA
            Genes (total)                     :: 5,667
            CDSs (total)                      :: 5,546
            Genes (coding)                    :: 5,378
            CDSs (with protein)               :: 5,378
            Genes (RNA)                       :: 121
            rRNAs                             :: 9, 8, 8 (5S, 16S, 23S)
            complete rRNAs                    :: 9, 8, 8 (5S, 16S, 23S)
            tRNAs                             :: 84
            ncRNAs                            :: 12
            Pseudo Genes (total)              :: 168
            CDSs (without protein)            :: 168
            Pseudo Genes (ambiguous residues) :: 0 of 168
            Pseudo Genes (frameshifted)       :: 62 of 168
            Pseudo Genes (incomplete)         :: 103 of 168
            Pseudo Genes (internal stop)      :: 25 of 168
            Pseudo Genes (multiple problems)  :: 19 of 168
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP097242.1.
            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..2095
                     /organism="Klebsiella pneumoniae"
                     /mol_type="genomic DNA"
                     /strain="1"
                     /isolation_source="urine"
                     /host="Homo sapiens"
                     /db_xref="taxon:573"
                     /plasmid="p2.1"
                     /geo_loc_name="USA: Pittsburgh"
                     /lat_lon="40.4406 N 79.9959 W"
                     /collection_date="2013-03-06"
                     /collected_by="UPMC"
                     /genotype="ST14"
     gene            complement(join(1222..2095,1..167))
                     /locus_tag="M4268_RS28250"
                     /old_locus_tag="M4268_28260"
     CDS             complement(join(1222..2095,1..167))
                     /locus_tag="M4268_RS28250"
                     /old_locus_tag="M4268_28260"
                     /inference="COORDINATES: ab initio prediction:GeneMarkS-2+"
                     /GO_process="GO:0006260 - DNA replication [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: GeneMarkS-2+."
                     /codon_start=1
                     /transl_table=11
                     /product="phage/plasmid replication protein, II/X family"
                     /protein_id="WP_159174367.1"
                     /translation="MIDWITAIVPCFHETPLDSGRITKINSSGEIEWESLTAISVVGSH
                     DSSLRLKTHSINDFGNGTHIYFDGNPVKFLQGHNLFGTDNLIPLLCCVLKKITSIPELG
                     LNPTDFDVRSWEKGDFKLNRVDCTVMFDVGNTANALSWIRQAEMNATLSHRGRGQVTKG
                     STLYFGKSSRRSSVKFYAKGEEFQKHSHAAFLQLPALVDYANRGLRCEVVLRSLELNHR
                     GLSSGSAWDDLLPLQIVNDFIGRINMADITAITSDRLDGLTPSFKNVYELWKCGYDIRS
                     MHSKTAFYRYRKGLMDALGIDIATVQYKQPDNVVPFIRIIEAKPMGVPDWAIGTDLYFD
                     GAVNHG"
                     /name="phage/plasmid replication protein, II/X family"
     gene            complement(160..435)
                     /locus_tag="M4268_RS28255"
                     /old_locus_tag="M4268_28265"
     CDS             complement(160..435)
                     /locus_tag="M4268_RS28255"
                     /old_locus_tag="M4268_28265"
                     /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_050885152.1"
                     /translation="MASKRPRTTLLLTDELMTAIRSLSDVSGMTMSSIVVQFLEPSIPV
                     MKQLEEIVLEAKKGAAGNGRAIVGSILEGANKTLAELNREFGELDD"
                     /name="hypothetical protein"
     gene            complement(990..1229)
                     /locus_tag="M4268_RS28260"
                     /old_locus_tag="M4268_28270"
     CDS             complement(990..1229)
                     /locus_tag="M4268_RS28260"
                     /old_locus_tag="M4268_28270"
                     /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_074146588.1"
                     /translation="MAKKNKMTVLFCFKHNSSGLLYSRETPDNLTADDKKALYLPTVPT
                     GADFEEFLGSENARLVERMQADPAYSLRFSFRFP"
                     /name="hypothetical protein"
ORIGIN
        1 atagaatggg ttttaagtct taatgatgaa tcatggctac caacaacaga aatagcggta
       61 agagactccc attcaatctc accggatgag ttgattttag tgattcgccc agaatctaaa
      121 ggggtttcat ggaaacaagg aacaatagca gtgatccaat caatcatcta actctccaaa
      181 ttccctgtta agctcggcaa gagttttatt ggcaccctca agaatagaac caacaatagc
      241 cctaccatta ccagcagcac ctttcttagc ctccaagaca atctcctcta gctgcttcat
      301 aacagggatt gatggctcta aaaattgaac aacaatcgac gacatggtca tgccagatac
      361 atcagaaaga gaacgaattg cagtcatcaa ctcatcagta agaagaagcg tggtgcgcgg
      421 gcgcttagat gccatataaa acctcaagta ccgaaatcgg gacaaagtgt gcagtggggt
      481 gtgaaccgta tgaatcaata ctaaaggaag gaaaaaagaa atgcaataag gggtgagtag
      541 ttccgcaatc gggacaaatg tgcagtatta cagacactgc acatcgagat cggtaatggc
      601 gaggatgcga atcagaacgg cgtatgcctc ctcgcagagc tgcgggggca atccccgtcc
      661 cgattcgtga tcgcacgaca aaccctatca ccctggacag agttgcaaat ctacaaataa
      721 ggcataccga gcaaaacgaa aataccccca cggcatcacc tgtagggcag ggcttacgca
      781 cctaccccac aggcaacgcc ttgaaggggg taaaaagcgg ctttacaggg cgatggctca
      841 ccatgtgaac catcacccat aactaggatg aatagggagt gtcgtacaac cactaaatcg
      901 gaaccctgaa gggatccccc gatttagcag ttgacgagtc ggcggcggcg aacgctgtca
      961 gatttcaatc tgagagcgcg aggcgtctat caagggaacc tgaaactaaa gcgaaggcta
     1021 taagctgggt cagcttgcat acgctctacc aaacgggcat tttcagaacc taaaaactcc
     1081 tcaaaatcag cgccggtggg aacggtagga agataaaggg cttttttatc atctgccgtt
     1141 aaattatcag gcgtctcgcg ggaataaaga aggccagagg aattatgttt aaagcaaaaa
     1201 agaacagtca ttttgttttt tttagccatg attaacagcc ccatcaaaat ataaatcagt
     1261 gccaatagcc caatcaggta cacccatagg cttagcctct atgatgcgta tgaagggaac
     1321 gacattatca ggctgcttgt attggacagt ggcaatatca atacccaagg catccataag
     1381 acctttacga taacgataaa aagcagtttt agagtgcata gacctaatat cataaccaca
     1441 cttccaaagc tcgtagacgt tcttaaatga aggggttaaa ccatcaagcc tatcagaagt
     1501 gatagcagta atgtcagcca tgttaatacg tcctataaaa tcatttacta tttgcagagg
     1561 aagcaagtca tcccatgccg aaccggaaga aagaccgcga tgattaagct caagcgaacg
     1621 taaaacaacc tcacaacgca aaccacgatt agcgtagtca acgagcgcag gaagctgtaa
     1681 gaaagctgcg tgagagtgct tttggaattc ctcaccctta gcatagaatt tcactgagct
     1741 acggcgcgac gacttaccaa agtataacgt agatccttta gtaacctgac cacgcccacg
     1801 atgagaaaga gtggcattca tctcggcctg acgaatccaa gacagtgcgt tagcagtatt
     1861 gccaacatca aacataacag tacagtcaac gcggtttaac ttgaaatccc ccttttccca
     1921 agaacgaaca tcaaaatcag ttggattaag tccaagctca ggaatagagg ttattttctt
     1981 caatacgcag caaagcaatg gaattaaatt atccgttcca aaaaggttat ggccttgaag
     2041 gaatttaact ggattcccat caaaataaat atgagtcccg ttaccaaagt catta
//
