LOCUS       CP052216                4167 bp    DNA     circular BCT 04-MAY-2020
DEFINITION  Klebsiella pneumoniae strain E17KP0079 plasmid pE17KP0079-3,
            complete sequence.
ACCESSION   CP052216
VERSION     CP052216.1
DBLINK      BioProject: PRJNA625837
            BioSample: SAMN14609949
KEYWORDS    .
SOURCE      Klebsiella pneumoniae
  ORGANISM  Klebsiella pneumoniae
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Klebsiella/Raoultella group; Klebsiella.
REFERENCE   1  (bases 1 to 4167)
  AUTHORS   Yoon,E.-J., Gwon,B., Liu,C., Kim,D., Won,D., Park,S.G., Choi,J.R.
            and Jeong,S.H.
  TITLE     Built-in CTX-M extended-spectrum beta-lactamase gene in Klebsiella
            pneumoniae ensuring stable propagation of the multidrug-resistant
            pathogen in clinical settings
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 4167)
  AUTHORS   Yoon,E.-J., Gwon,B., Liu,C., Kim,D., Won,D., Park,S.G., Choi,J.R.
            and Jeong,S.H.
  TITLE     Direct Submission
  JOURNAL   Submitted (24-APR-2020) Research Institute of Bacterial Resistance,
            Yonsei University College of Medicine, 211, Eonjuro, Gangnam-Gu,
            Seoul 06273, Korea, Republic of
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: SPAdes v. 3.13.1
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 100x
            Sequencing Technology             :: Oxford Nanopore and Illumina
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI
            Annotation Date                   :: 04/27/2020 20:11:14
            Annotation Pipeline :: NCBI Prokaryotic Genome Annotation Pipeline
            (PGAP)
            Annotation Method :: Best-placed reference protein set; GeneMarkS-2+
            Annotation Software revision      :: 4.11
            Features Annotated :: Gene; CDS; rRNA; tRNA; ncRNA; repeat_region
            Genes (total)                     :: 5,472
            CDSs (total)                      :: 5,352
            Genes (coding)                    :: 5,249
            CDSs (with protein)               :: 5,249
            Genes (RNA)                       :: 120
            rRNAs                             :: 9, 8, 8 (5S, 16S, 23S)
            complete rRNAs                    :: 9, 8, 8 (5S, 16S, 23S)
            tRNAs                             :: 85
            ncRNAs                            :: 10
            Pseudo Genes (total)              :: 103
            CDSs (without protein)            :: 103
            Pseudo Genes (ambiguous residues) :: 0 of 103
            Pseudo Genes (frameshifted)       :: 49 of 103
            Pseudo Genes (incomplete)         :: 46 of 103
            Pseudo Genes (internal stop)      :: 23 of 103
            Pseudo Genes (multiple problems)  :: 13 of 103
            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..4167
                     /organism="Klebsiella pneumoniae"
                     /mol_type="genomic DNA"
                     /strain="E17KP0079"
                     /isolation_source="blood"
                     /host="Homo sapiens"
                     /db_xref="taxon:573"
                     /plasmid="pE17KP0079-3"
                     /geo_loc_name="South Korea: Jeonnam"
                     /lat_lon="34.87 N 126.99 E"
                     /collection_date="2017"
                     /collected_by="Kor-GLASS"
     gene            join(4080..4167,1..104)
                     /locus_tag="HJX61_27330"
     CDS             join(4080..4167,1..104)
                     /locus_tag="HJX61_27330"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000166328.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="Rop family plasmid primer RNA-binding protein"
                     /protein_id="QJO22120.1"
                     /translation="MTKQQKTALNMAKFIQNQSLLLLEKLNELDLDVEADLCEKLHDDA
                     EHLFRTLSSRLDALQDGN"
                     /name="Rop family plasmid primer RNA-binding protein"
     gene            104..505
                     /locus_tag="HJX61_27335"
     CDS             104..505
                     /locus_tag="HJX61_27335"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_009310048.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="helix-turn-helix domain-containing protein"
                     /protein_id="QJO22121.1"
                     /translation="MARVSISEAARLTGKSRTTLHRLIKAGDLSTCSGERNAKMVDTSE
                     LLRVFGPFEQPKGEHHSGQVSGQRDTASADQSEQVIRHLKQEIEHLNTLLLSKDSHIDS
                     LKQAMLLLENHQAKLTESPAPWWKFWKKS"
                     /name="helix-turn-helix domain-containing protein"
     gene            complement(851..1093)
                     /locus_tag="HJX61_27340"
     CDS             complement(851..1093)
                     /locus_tag="HJX61_27340"
                     /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="QJO22122.1"
                     /translation="MHSAEIHTIQPGEVLFPAFFSSENGERGRNLLRGREALPAQPENR
                     FSAPSGIGFVDGRQSRYGKSPDDSPHDSPAIRIVN"
                     /name="hypothetical protein"
     gene            complement(1459..2091)
                     /locus_tag="HJX61_27345"
     CDS             complement(1459..2091)
                     /locus_tag="HJX61_27345"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000804504.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="QJO22123.1"
                     /translation="MKDINNSKKIIFVEGDDDFHFLCNLLEIQGITDVFVEKINGKSKL
                     KQALRAFKNIDSFDEKESIFIILDADTSFSDTERSIIATLRELQISSPSSHNEIAMNGN
                     TKISFFIMPGKDKQGAIEDLIIEHASTRALYEYIIEFFEKIKNNKDDISASDKEYTYPT
                     NEKKAKVQVYLSCNRESDSRIGISMKNGIINTADNCFDEIKDFISKI"
                     /name="hypothetical protein"
     gene            complement(2091..3206)
                     /locus_tag="HJX61_27350"
     CDS             complement(2091..3206)
                     /locus_tag="HJX61_27350"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_019405083.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="AAA family ATPase"
                     /protein_id="QJO22124.1"
                     /translation="MIKEISLKNFKCFNELYLKQLKTLNIIAGKNNYGKTSILDAIFCF
                     YDVKNPAVLLNIQAFRKEMAEINKNKPFWVSYFHDMDTSQKMSIVIRDERSEVTQTYET
                     ETNQRLESSLSLNVDTVLSNQNIPRQTIGSQATVNSLKINVTETPNAKNRVSNKLFSMQ
                     LKEDGVEIKSEIKNERDGINYKFKTATIITTSRKINKEATITNVSSLLTQKRKKDILEN
                     LKKIDDRIVDIAISAIGNNKEIYLDIGFSELNEISMLGEGISRALSFISSVLVQENSII
                     LIDEIENGIHYSVIKDIIKSLISSAKQNNNQIFATTHSQDVIRAINEIDSKNEDIAYIR
                     LGREKNSLKPTAVQFNMDDFSYSVENDWEVR"
                     /name="AAA family ATPase"
     gene            complement(3551..3664)
                     /locus_tag="HJX61_27355"
                     /pseudo=""
     CDS             complement(3551..3664)
                     /locus_tag="HJX61_27355"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_007772075.1"
                     /note="internal stop; Derived by automated computational
                     analysis using gene prediction method: Protein Homology."
                     /pseudo=""
                     /codon_start=1
                     /transl_table=11
                     /product="replication initiation protein"
                     /name="replication initiation protein"
     gene            complement(3689..4123)
                     /locus_tag="HJX61_27360"
                     /pseudo=""
     CDS             complement(3689..4123)
                     /locus_tag="HJX61_27360"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:YP_005229779.1"
                     /note="internal stop; Derived by automated computational
                     analysis using gene prediction method: Protein Homology."
                     /pseudo=""
                     /codon_start=1
                     /transl_table=11
                     /product="plasmid replication initiation protein"
                     /name="plasmid replication initiation protein"
     Typing          complement(3552..3959)
                     /name="ColRNAI_rep_cluster_1987"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="93.399"
                     /coverage="99.0"
                     /evalue="5.92e-171"
ORIGIN
        1 atctcgatgt cgaggccgac ctttgtgaga aactccacga tgatgcggag catcttttcc
       61 gtacactgtc ctcgagactg gatgcattac aggatggtaa ctgatggcca gagtgtctat
      121 tagtgaggct gcccgactga cgggtaagag tagaacaaca ctgcacaggt taattaaagc
      181 aggtgacctg tccacctgta gcggtgagcg caatgcaaaa atggtagata cttcagagct
      241 tttacgtgtc tttggcccct ttgagcaacc gaagggtgaa caccattctg gacaggtctc
      301 tggacagcgt gatacagcct ctgctgacca gagtgaacag gtgatccgtc atctgaaaca
      361 ggagattgaa cacctgaaca ccttactttt gtccaaggat tcgcacattg acagcctgaa
      421 acaggccatg ctccttcttg aaaatcacca ggcaaaatta actgaatccc cggcgccatg
      481 gtggaaattc tggaaaaaat cctgaccccg tcatgcttca gttttcctct ccggccatcc
      541 cagggagttc ctgaaccttc ccaaaaatcg tcagatctct gaacgctcct caccactaaa
      601 aatacccaca ccccacgcaa aattaaaatt ttgcagattc cttatttaca acaatgggtt
      661 aatgaaaaat aaatgtgcgg tgatgtgtta caaagtgcag atccaagtcg tggacgactc
      721 tatggcgaat cgctgacgaa ttgcccacga ttcatatgtg aatcacgctt tattatcata
      781 ttgttatgat gaatcgactc ttgattcaat tcatcacttt gggtgttttt tgctcatggt
      841 gactcttgat tcaattcacg attcgaatcg ccggtgaatc gtgtggtgag tcgtccggcg
      901 acttgccata acgtgattgc cggccgtcga cgaacccgat tcctgaaggt gctgaaaacc
      961 ggttttccgg ctgcgccggc aacgcttcac ggccacgcaa taaattgcgt ccccgttcac
     1021 cgttttcgga ggagaagaac gccggaaaca ggacttcccc tggctgaatg gtgtgaattt
     1081 ccgcgctatg cacttgcgcg catactcatg catgccgtaa aaacagagcc tgcgcgtttc
     1141 tggcgggttt tcgggtggtt tgttgcctgt tttaccggtt tcccgtcaga aacgtcctga
     1201 gtccgtttta gcggtgcgta caattatgat tttatgttaa attgttttaa gtgaatagag
     1261 agaatataac ttaagggagc atcttgtgct gggtctttta cattagatct gcacaatcat
     1321 tgttttggca tctggtgatg tctttaggac gtttgagatt gctgataact aaagtgtatg
     1381 atgctttcta tacgttatcc ggcgtttaat aacaccctgg tgataagcca gcccgtgaag
     1441 ggctggcttg atttggattt atatttttga aataaaatct tttatttcat caaagcaatt
     1501 gtctgctgtg tttattattc catttttcat ggatattcct attcttgagt cggattctct
     1561 attgcagcta agatagactt gtaccttagc ttttttttcg tttgttggat aagtgtactc
     1621 tttgtcactc gctgagatgt catctttatt atttttaatt ttttcgaaaa attctattat
     1681 gtattcatat aacgctcgag tgcttgcgtg ttcaattatc agatcttcaa tggcaccttg
     1741 cttgtctttt cctggcatta taaagaaaga aatttttgta ttgccattca tagctatctc
     1801 gttatgcgag ctgggggagg agatttgtag ttctcgcaat gtggcaatta ttgatctttc
     1861 tgtgtcagaa aatgatgtgt cagcatctaa tataataaaa atactttctt tttcatcgaa
     1921 agaatcaatg tttttgaatg ctctaagtgc ttgttttaat tttgattttc catttatttt
     1981 ttcgacaaaa acatcggtaa tgccttgtat ttcaagtagg ttgcatagaa aatgaaaatc
     2041 atcatcaccc tcaacgaaaa tgatcttttt gctattattt atgtctttca ttatcttacc
     2101 tcccagtcgt tctcaactga gtaggagaaa tcatccatat tgaattgtac ggctgttggt
     2161 tttagggagt tcttttctct tcctagtcta atataagcga tatcttcatt tttgctatct
     2221 atttcgttta ttgctcgtat cacatcttga ctatgagttg ttgcaaatat ttgattgttg
     2281 ttttgttttg cagatgaaat taatgatttt attatgtctt taattactga gtaatgtatt
     2341 ccgttctcga tttcatcaat aagaataatt gagttttcct gtaccagcac tgagctgata
     2401 aaagataatg ctcgactgat accctcgcca agcattgata tttcatttag ctcactaaat
     2461 ccaatgtcta aatatatttc cttattgtta cctatcgcag atattgctat atctacaatt
     2521 ctgtcatcta ttttttttaa gttttctagt atgtcttttt tccttttttg tgttagtagg
     2581 ctagatacat ttgtaattgt tgcctctttg tttatctttc tggatgttgt tattattgtt
     2641 gctgtcttaa atttataatt aatcccatcc ctttcgtttt ttatttcgga ttttatttct
     2701 acgccatctt ctttcaattg catagagaaa agcttattgg aaaccctgtt tttcgcattg
     2761 ggtgtctcgg tcacatttat ttttaaagag tttactgtgg cctgagaacc gatagtttga
     2821 cgaggtatgt tttggttaga tagtacggtg tcaacgttta gagacaaact tgattctaat
     2881 ctctgatttg tttctgtttc atatgtttgt gttacttcag agcgttcatc tcgaatgact
     2941 atggacatct tttgtgatgt gtccatatca tgaaagtaac taacccaaaa tggcttgttt
     3001 ttgtttattt ctgccatttc ttttctgaat gcttgaatgt ttaacaaaac agccgggttt
     3061 tttacatcat aaaaacaaaa aatagcatcc agtatagatg ttttcccgta gttgtttttc
     3121 ccagctatga tatttaaagt ctttaattgc tttagatata gctcattgaa gcatttgaag
     3181 ttctttaaac ttatttcctt tatcatgata gcctctgttc gtgtttttgt tatatgccat
     3241 acgatttgtt agtaccttaa taaaatgtac agctttcatt gtgattagct agactttatg
     3301 tcaaagatta actttgattg cttgtgtttt aatcgatttt ttttactttc ttcttgagat
     3361 tatctggcag cagccgtaag cttccggctg tgaacgaaaa aaaccgcctt ggcgggcggt
     3421 tttttcgaaa ggttcagtag agttggcgct ctatgaaccg aggtaactgg cttaaaggga
     3481 gcgcagtcac caaaactgtt cgtttagttt agctttaact ggcgtataac ttcaagacta
     3541 actccctaaa tcagttacca gtggctgctg ccagtggcgc tttgtcgtgt ctttccgggt
     3601 tggactcaag acgatagtta ccggattagg cgcagcagtc ggactgaacg gggggttcgt
     3661 gcatacagtc cagcttggag cgaactgcct acccggaact gagtgtcagg cgtggaatga
     3721 gacaaacgcg gccataacag cggaatgaca ccggtaaacc gaaaggcagg aacaggagag
     3781 cgcacgaggg agccatcagg gggaaacgcc tggtatcttt atagtcctgt cgggtttcgc
     3841 caccactgat ttgagcgtca gattccgtga tgctcgtcag gggggcggag cctatggaaa
     3901 aacggccgct gtgcggcctt tccttctttc ctccatgcga ttactcggtt ttctcgagcg
     3961 tttctacgca tgctcctgcc gctcgccgca gccgaacggc aggagcgtag cgactgagtg
     4021 agcgaggaag cggaaaagag gagatcccta cactgaccac tgacgctctg aggcctctta
     4081 tgacgaaaca acagaaaaca gcgctgaaca tggctaaatt catccagaat cagtctctgc
     4141 tcctgctgga gaagcttaac gagcttg
//
