LOCUS       NZ_CP030721             4119 bp    DNA     circular CON 26-JAN-2024
DEFINITION  Klebsiella pneumoniae strain B4 plasmid pKpnB4_4, complete sequence.
ACCESSION   NZ_CP030721
VERSION     NZ_CP030721.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN09519602
            Assembly: GCF_024585185.1
KEYWORDS    RefSeq.
SOURCE      Klebsiella pneumoniae
  ORGANISM  Klebsiella pneumoniae
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Klebsiella/Raoultella group; Klebsiella.
REFERENCE   1  (bases 1 to 4119)
  AUTHORS   Johnning,A., Karami,N., Tang-Hallback,E., Muller,V., Westerlund,F.,
            Adlerberth,I. and Kristiansson,E.
  TITLE     Genome dynamics of NDM-producing Klebsiella pneumoniae isolated from
            a long-term colonised patient
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 4119)
  AUTHORS   Johnning,A., Karami,N., Tang-Hallback,E., Muller,V., Westerlund,F.,
            Adlerberth,I. and Kristiansson,E.
  TITLE     Direct Submission
  JOURNAL   Submitted (02-JUL-2018) Department of Mathematical Sciences,
            Chalmers University of Technology, Department of Mathematical
            Sciences, Gothenburg SE-412 96, Sweden
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Date                     :: 26-JAN-2018
            Assembly Method                   :: Unicycler v. 0.4.1
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 140x
            Sequencing Technology             :: Illumina MiSeq; Pacbio
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 01/24/2024 16:49:06
            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)                     :: 5,793
            CDSs (total)                      :: 5,673
            Genes (coding)                    :: 5,541
            CDSs (with protein)               :: 5,541
            Genes (RNA)                       :: 120
            rRNAs                             :: 9, 8, 8 (5S, 16S, 23S)
            complete rRNAs                    :: 9, 8, 8 (5S, 16S, 23S)
            tRNAs                             :: 86
            ncRNAs                            :: 9
            Pseudo Genes (total)              :: 132
            CDSs (without protein)            :: 132
            Pseudo Genes (ambiguous residues) :: 0 of 132
            Pseudo Genes (frameshifted)       :: 51 of 132
            Pseudo Genes (incomplete)         :: 79 of 132
            Pseudo Genes (internal stop)      :: 17 of 132
            Pseudo Genes (multiple problems)  :: 13 of 132
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP030721.1.
            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..4119
                     /organism="Klebsiella pneumoniae"
                     /mol_type="genomic DNA"
                     /strain="B4"
                     /isolation_source="feces"
                     /host="Homo sapiens"
                     /db_xref="taxon:573"
                     /plasmid="pKpnB4_4"
                     /geo_loc_name="Sweden: Gothenburg"
                     /lat_lon="57.6823 N 11.9613 E"
                     /collection_date="2014-01-07"
                     /collected_by="Clinical Microbiology Laboratory,
                     Sahlgrenska University Hospital"
     gene            complement(828..1460)
                     /locus_tag="DR191_RS28805"
                     /old_locus_tag="DR191_29770"
     CDS             complement(828..1460)
                     /locus_tag="DR191_RS28805"
                     /old_locus_tag="DR191_29770"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_012579086.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="DUF3226 domain-containing protein"
                     /protein_id="WP_117027410.1"
                     /translation="MKDINNSKKIIFVEGDDDFHFLCNLLEIQGITDVFVEKINGKSKL
                     KQALRAFKNIDSFDEKESIFIILDADTSFSDTERSIIATLRELQISSPSSHNEIAMNGN
                     TKISFFIMPGKDKQGAIEDLIIEHASTRALYEYIIEFFEKINNNKDDISASDKEYTYPT
                     NEKKAKVQVYLSCNRESDSRIGISMKNGIINTADNCFNEIKDFISKI"
                     /name="DUF3226 domain-containing protein"
     gene            complement(1460..2575)
                     /locus_tag="DR191_RS28810"
                     /old_locus_tag="DR191_29775"
     CDS             complement(1460..2575)
                     /locus_tag="DR191_RS28810"
                     /old_locus_tag="DR191_29775"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_019405083.1"
                     /GO_function="GO:0005524 - ATP binding [Evidence IEA];
                     GO:0016887 - ATP hydrolysis activity [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="ATP-binding protein"
                     /protein_id="WP_086540617.1"
                     /translation="MIKEISLKNFKCFNELYLKQLKTLNIIAGKNNYGKTSILDAIFCF
                     YDVKNPAVLLNIQAFRKEMAEINKNKPFWVSYFHDMDTSQKMSIVIRDERSEVTQTYET
                     ETNQRLESSLSLNVDTVLSNQNIPRQTIGSQATVNSLKINVTETPNAKNRVSNKLFSMQ
                     LREDGVEIKSEIKNERDGINYKFKTATIITTSRKINKEATITNVSSLLTQKRKKDILEN
                     LKKIDDRIVDIAISAIGNNKEIYLDIGFSELNEISMLGEGISRALSFISSVLVQENSII
                     LIDEIENGIHYSVIKDIIKSLISSAKQNNNQIFATTHSQDVIRAINEIDSKNEDIAYIR
                     LGREKNSLKPTAVQFNMDDFSYSVENDWEVR"
                     /name="ATP-binding protein"
     gene            complement(2920..3033)
                     /locus_tag="DR191_RS28975"
                     /pseudo=""
     CDS             complement(2920..3033)
                     /locus_tag="DR191_RS28975"
                     /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            3450..3641
                     /locus_tag="DR191_RS28815"
                     /old_locus_tag="DR191_29785"
     CDS             3450..3641
                     /locus_tag="DR191_RS28815"
                     /old_locus_tag="DR191_29785"
                     /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="WP_004187666.1"
                     /translation="MTKQQKTALNMAKFIQNQSLLLLEKLNELDLDVEADLCEKLHDDA
                     EHLFRTLSSRLDALQDGN"
                     /name="Rop family plasmid primer RNA-binding protein"
     gene            3641..4042
                     /locus_tag="DR191_RS28820"
                     /old_locus_tag="DR191_29790"
     CDS             3641..4042
                     /locus_tag="DR191_RS28820"
                     /old_locus_tag="DR191_29790"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_009310048.1"
                     /GO_function="GO:0003677 - DNA binding [Evidence IEA]"
                     /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="WP_117027411.1"
                     /translation="MARVSISEAARLTGKSRTTLHRLIKAGDLSTCSGERNAKMVDTSE
                     LLRVFGPFEQPKGEHHSGQVSEQRDTASADQSEQVIRHLKQEIEHLNTLLLSKDSHIDS
                     LKQAMLLLENHQAKLTESPTPWWKFWKKS"
                     /name="helix-turn-helix domain-containing protein"
     Typing          complement(2921..3329)
                     /name="ColRNAI_rep_cluster_1987"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="94.39"
                     /coverage="99.0"
                     /evalue="1.26e-177"
ORIGIN
        1 acgctcctca ccactaaaaa tacccacacc ccacgcaaaa ttaaaatttt gcagattcct
       61 tatttacaac aatgggttaa tgaaaaataa atgtgcggtg atgtgttaca aagtgcagat
      121 ccaagtcgtg gacaactcta tggcgaatcg ctgacgaatt gcccacgatt catatgtgaa
      181 tcacgcttta ttatcatatt gttatgatga atcgactctt gattcaattc atcactctgg
      241 gtgttttttg ttcatggtga ctcttgattc aattcacgat tcgaatcgcc ggtgaattgt
      301 ctggtgagtc gtccggcgac ttgccataac gtgattgccg gccgtcgacg aacccgattc
      361 ctgatcgtgc tgaaaaccgg ttttccggct gcgccggcaa cgcttcacgg ccacgcaata
      421 aattgcgtcc ccgttcaccg ttttcggata ggaagaacgc cggaaacagg acttaccctg
      481 gctgaatggc gtgaattttc gcgctatgca cttgcgtgca tactcatgca tgccgtaaaa
      541 acagagcctg cgcgtttctg gcgggttttc gggtggtttg ttgcctgttt taccggtttc
      601 ccgtcagaaa cgccctgagg ccgttttagc ggtgcgtaca attatgattt tatgttaaat
      661 tgttttaagt gaatagagag aatataactt aagggagcat ctggtgatgt ctttaggacg
      721 tttgagattg ctgataacta aagtgtatga tgctttctat atgttatccg gcgtttaata
      781 acaccctggt gataagccag cctgtgaagg gctggcttga tttggattta tatttttgaa
      841 ataaaatctt ttatttcatt aaaacaattg tctgctgtgt ttattattcc atttttcatg
      901 gatattccta ttcttgagtc ggattctcta ttgcagctaa gatagacttg taccttagct
      961 tttttttcgt ttgttggata agtgtactct ttgtcactcg ctgagatgtc atctttatta
     1021 ttattaattt tttcgaaaaa ttctattatg tattcatata acgctcgagt gcttgcgtgt
     1081 tcaattatca gatcttcaat tgcaccttgc ttgtcttttc ctggcattat aaagaaagaa
     1141 atttttgtat tgccattcat agctatctcg ttatgcgagc tgggggagga gatttgtagt
     1201 tctcgcaatg tggcaattat tgatctttct gtgtcagaaa atgatgtgtc agcatctaat
     1261 ataataaaaa tactttcttt ttcatcgaaa gaatcaatgt ttttgaatgc tctaagtgct
     1321 tgttttaatt ttgattttcc atttattttt tcgacaaaaa catcggtgat gccttgtatt
     1381 tcaagtaggt tgcatagaaa atgaaaatca tcatcaccct caacgaaaat gatctttttg
     1441 ctattattta tgtctttcat tatcttacct cccagtcgtt ctcaactgag taggagaaat
     1501 catccatatt gaattgtacg gctgttggtt ttagggagtt cttttctctt cctagtctaa
     1561 tataagcgat atcttcattt ttgctatcta tttcgtttat tgctcgtatc acatcttgac
     1621 tatgagttgt tgcaaatatt tgattgttgt tttgttttgc agatgaaatt aatgatttta
     1681 ttatgtcttt aattactgag taatgtattc cgttctcgat ttcatcaata agaataattg
     1741 agttttcctg taccagcact gagctgataa aagataatgc tcgactgatg ccctcgccaa
     1801 gcattgatat ttcatttagc tcactaaatc caatgtctaa atatatttcc ttattattac
     1861 ctatcgcaga tattgctata tctacaattc tgtcatctat tttttttaag ttttctagta
     1921 tgtctttttt ccttttttgt gttagtaggc tagatacatt tgtaattgtt gcctctttgt
     1981 ttatctttct ggatgttgtt attattgttg ctgtcttaaa tttataatta atcccatccc
     2041 tttcgttttt tatttcggat tttatttcta cgccatcttc tctcaattgc atagagaaaa
     2101 gcttattgga aaccctgttt ttcgcattgg gtgtctcggt cacatttatt tttaaagagt
     2161 ttactgtggc ctgagaaccg atagtttgac gaggtatgtt ttggttagat agtacggtgt
     2221 caacgtttag agataaactt gattctaatc tctgatttgt ttctgtttca tatgtttgtg
     2281 ttacttcaga gcgttcatct cgaatgacta tggacatctt ttgtgatgtg tccatatcat
     2341 gaaagtaact aacccaaaat ggcttgtttt tgtttatttc tgccatttct tttctgaatg
     2401 cttgaatgtt taacaaaaca gccggatttt ttacatcata aaaacaaaat atagcatcca
     2461 gtatagatgt tttcccgtag ttgtttttcc cagctatgat atttaaagtc tttaattgct
     2521 ttagatatag ctcattgaag catttgaagt tctttaaact tatttccttt atcatgatag
     2581 cctctgttcg tgtttttgtt atatgccata cgatttgtta gtaccttaat aaaatgtaca
     2641 gctttcattg tgattagcta gactttatgt caaagattaa ctttgattgc ttgtgtttta
     2701 atcgattttt tttactttct tcttgagatt atctggcagc agccgtaagc ttccggctgt
     2761 gaacgaaaaa aaccgccttg gcgggcggtt ttttcgaaag gttcagtaga gttggcgctc
     2821 tatgaaccga ggtaactggc ttaaagggag cgcagtcacc aaaactgttc gtttagttta
     2881 gccctaactg gcgtataact tcaagactaa ctccctaaat cagttaccag tggctgctgc
     2941 cagtggcgct ttgtcgtgtc tttccgggtt ggactcaaga cgatagttac cggattaggc
     3001 gcagcagtcg gactgaacgg ggggttcgtg catacagtcc agcttggagc gaactgcctt
     3061 cccggaactg agtgtcaggc gtggaatgag acaaacgcgg ccataacagc ggaatgacac
     3121 cggtaaaccg aaaggcagga acaggagagc gcacgaggga gccatcaggg ggaaacgcct
     3181 ggtatcttta tagtcctgtc gggtttcgcc accactgatt tgagcgtcag attctgtgat
     3241 gcttgtcagg ggggcggagc ctatggaaaa aagggccgcc ttgcggcctt tccttttccc
     3301 cgttacgcga ccgctcggtt ttctcgagct tttatacgca tgctcctgcc gctcgccgca
     3361 gccgaacggc aggagcatag cgactgagtg agcgaggaag cggaaaagag aacatcccta
     3421 cactgagcac tgacgctctg aggcctctta tgacgaaaca acagaaaaca gcgctgaaca
     3481 tggctaaatt catccagaat cagtctctgc tcctgctgga gaagcttaac gagcttgatc
     3541 tcgatgtcga agccgacctt tgtgagaaac tccacgatga tgcggagcat cttttccgta
     3601 cactgtcctc gagactggat gcattacagg atggtaactg atggccagag tgtctattag
     3661 tgaggctgcc cgactgacgg gtaagagtag aacaacactg cacaggttaa ttaaagcagg
     3721 tgacctgtcc acctgtagcg gtgaacgcaa tgcaaaaatg gtagatactt cagagctttt
     3781 acgtgtcttt ggtccctttg aacaaccgaa gggtgaacac cattctggac aggtctctga
     3841 acagcgtgat acagcctctg ctgaccagag tgaacaggtg attcgtcatc tgaaacagga
     3901 gattgaacac ctgaacacct tacttttgtc caaggattcg cacattgaca gcctgaaaca
     3961 ggccatgctc cttcttgaaa atcaccaggc aaaattaact gaatccccga cgccatggtg
     4021 gaaattctgg aaaaaatcct gaccccgtca tgcttcagtt ttcctctccg gccatcccgg
     4081 ggagttcctg aaccttccca aaaatcgtca gatctctga
//
