LOCUS       NZ_CP058756             4600 bp    DNA     circular CON 02-MAY-2024
DEFINITION  Klebsiella pneumoniae strain STLIN_19 plasmid unnamed4, complete
            sequence.
ACCESSION   NZ_CP058756
VERSION     NZ_CP058756.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN13925573
            Assembly: GCF_022494375.1
KEYWORDS    RefSeq.
SOURCE      Klebsiella pneumoniae
  ORGANISM  Klebsiella pneumoniae
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Klebsiella/Raoultella group; Klebsiella.
REFERENCE   1  (bases 1 to 4600)
  AUTHORS   Che,Y., Xu,X., Yang,Y., Brinda,K., Hanage,W., Yang,C. and Zhang,T.
  TITLE     High-resolution genomic surveillance elucidates a multilayered
            hierarchical transfer of resistance between WWTP- and
            human/animal-associated bacteria
  JOURNAL   Microbiome 10 (1), 16 (2022)
   PUBMED   35078531
  REMARK    Publication Status: Online-Only
REFERENCE   2  (bases 1 to 4600)
  AUTHORS   Che,Y.
  TITLE     Direct Submission
  JOURNAL   Submitted (06-JUL-2020) Civil Engineering, The University of Hong
            Kong, Pokfulam Road, Hong Kong 000000, China
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: SPAdes v. Unicycler 0.4.8
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 200x
            Sequencing Technology :: Illumina; Oxford Nanopore GridION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_022494375.1-RS_2024_05_02
            Annotation Date                   :: 05/02/2024 05:10:59
            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)                     :: 5,627
            CDSs (total)                      :: 5,505
            Genes (coding)                    :: 5,327
            CDSs (with protein)               :: 5,327
            Genes (RNA)                       :: 122
            rRNAs                             :: 9, 8, 8 (5S, 16S, 23S)
            complete rRNAs                    :: 9, 8, 8 (5S, 16S, 23S)
            tRNAs                             :: 86
            ncRNAs                            :: 11
            Pseudo Genes (total)              :: 178
            CDSs (without protein)            :: 178
            Pseudo Genes (ambiguous residues) :: 0 of 178
            Pseudo Genes (frameshifted)       :: 77 of 178
            Pseudo Genes (incomplete)         :: 106 of 178
            Pseudo Genes (internal stop)      :: 31 of 178
            Pseudo Genes (multiple problems)  :: 33 of 178
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP058756.1.
            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..4600
                     /organism="Klebsiella pneumoniae"
                     /mol_type="genomic DNA"
                     /strain="STLIN_19"
                     /isolation_source="Stanley WWTPs_19 WWTPs influent"
                     /db_xref="taxon:573"
                     /plasmid="unnamed4"
                     /geo_loc_name="Hong Kong"
                     /lat_lon="22.2 N 114.2 E"
                     /collection_date="2018-12"
     gene            576..797
                     /locus_tag="HZT05_RS28020"
                     /old_locus_tag="HZT05_27890"
     CDS             576..797
                     /locus_tag="HZT05_RS28020"
                     /old_locus_tag="HZT05_27890"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_016947202.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_016162091.1"
                     /translation="MEFDTAAELAALQAQTRRIRQVRYRPSRLDRYTGELLSLYQAGAS
                     AAELQRWLRARRIKVVLSTVTRWLEKNG"
                     /name="hypothetical protein"
     gene            790..1679
                     /locus_tag="HZT05_RS28025"
                     /old_locus_tag="HZT05_27895"
                     /pseudo=""
     CDS             790..1679
                     /locus_tag="HZT05_RS28025"
                     /old_locus_tag="HZT05_27895"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_016947203.1"
                     /note="frameshifted; Derived by automated computational
                     analysis using gene prediction method: Protein Homology."
                     /pseudo=""
                     /codon_start=1
                     /transl_table=11
                     /product="site-specific integrase"
                     /name="site-specific integrase"
     gene            1748..2374
                     /locus_tag="HZT05_RS28030"
                     /old_locus_tag="HZT05_27900"
     CDS             1748..2374
                     /locus_tag="HZT05_RS28030"
                     /old_locus_tag="HZT05_27900"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_016162089.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_240726599.1"
                     /translation="MGVYYPDASNPQLFTGWKAVTELGPAILATAIAATAFSLWLFILF
                     FRSSESRRIQSETDRYKQALREAEEAHRARQNTLIQNHNLETAALRSHYSGAEDVLREE
                     FAKKENRWRQALQNAREEARQELEEQTEALNQRASGLLVQEQTLKARMEEVRKYVAGER
                     HNAMRARLEAEEAEKRRQNASATAERRRRKLEKLRATDGTAGQKH"
                     /name="hypothetical protein"
     gene            complement(2381..2785)
                     /locus_tag="HZT05_RS28035"
                     /old_locus_tag="HZT05_27905"
     CDS             complement(2381..2785)
                     /locus_tag="HZT05_RS28035"
                     /old_locus_tag="HZT05_27905"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_016162088.1"
                     /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="WP_023301406.1"
                     /translation="MAKVSISEAARLTGKSRTTLHRLIKAGELSTCRGERNAKMLDTSE
                     LLRVFGAFAPVPVEQRGEQVSGQRDTVTSDRNEQVIYILKQEIEHLNTLLASRDSHIDS
                     LKQAMLLLENREEKRQNTTRPRAWWRFWQS"
                     /name="helix-turn-helix domain-containing protein"
     gene            complement(2785..2976)
                     /locus_tag="HZT05_RS28040"
                     /old_locus_tag="HZT05_27910"
     CDS             complement(2785..2976)
                     /locus_tag="HZT05_RS28040"
                     /old_locus_tag="HZT05_27910"
                     /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_023301407.1"
                     /translation="MTKQQKTALNMAKFIQNQSLLLLEKLNELDLDAEADLCEKLHDDA
                     EHLFRTLSLRLDALQKGD"
                     /name="Rop family plasmid primer RNA-binding protein"
     gene            3395..3553
                     /locus_tag="HZT05_RS28170"
     CDS             3395..3553
                     /locus_tag="HZT05_RS28170"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001326446.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_001403044.1"
                     /translation="MHEPPVQSDCCACSGNYRLESNPERHDKTPLAAAIGIWFTERRGV
                     YKHTQSS"
                     /name="hypothetical protein"
     gene            4017..4127
                     /locus_tag="HZT05_RS28045"
                     /old_locus_tag="HZT05_27915"
     CDS             4017..4127
                     /locus_tag="HZT05_RS28045"
                     /old_locus_tag="HZT05_27915"
                     /inference="COORDINATES: protein motif:HMM:NF033853.2"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="small membrane protein"
                     /protein_id="WP_140411027.1"
                     /translation="MDWILLAIAIALLVVAVYSGISYFREKKTISRTFRR"
                     /name="small membrane protein"
     Typing          3214..3707
                     /name="rep_cluster_2358"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="96.371"
                     /coverage="94.0"
                     /evalue="0.0"
ORIGIN
        1 tgcatcgtct gacctcatct gcactttcat cacaccgttt cagatcccgc ctcctcgcca
       61 tgatgtgaaa cggtgaccgg gcaggcaaat tttttgtctg tccggtcacc gttggcgggg
      121 tccggggcgg tcagtcccgg tgttttttat tccgccaaat cagcacctgc gacacccgct
      181 atgtacgacg catgaatgcg cctgtacata gcgggtgtcg ctattaaact gagtcaggcg
      241 caacatttaa aaaacaacat tcacacgcac gaaaaacctg gctagtattt agccaaacca
      301 tgagaaggcg cactctgacg cgcacctgcc taccggcagc aggcaaaaca gccgggtccc
      361 tccggggata ctgtaccggg cagcccaatc cgagaactct gagaaaacag cccaaatctg
      421 tcagacccac aaccgggtca agtcattctc tgactaaaga gacgttgagc cgcgagcagt
      481 ccgggcttaa ccacgttacg gtttaaacga gggcgatcgg cgcaggccgc agtggatttc
      541 cactggcgtt cttacaactc aacaccggag ttcctgtgga atttgatacc gctgccgagc
      601 tggccgccct gcaggcgcag acccgccgta tccgccaggt ccgctaccgt ccctcccgcc
      661 ttgaccgcta taccggcgaa ctactgagcc tgtatcaggc cggggccagt gcagcggagc
      721 tgcaacgctg gctacgggcc cggcgaatca aagtcgtgtt gtccacggtt acccgctggc
      781 tggaaaaaaa tggctaaatt cgccagcgct gcccgccagg cgacgggcgt gataaaaatc
      841 ctcagggcga tattctgcgc tctgtcggca cagtccggaa ttacgagcag ggcctgaccc
      901 gcgtcgcaga atggatgaaa gacaaccgga ttaatcacgg cgatttacgc acactgacac
      961 cggcgcaggc catcacctac ctggagcagc gcggggagca ggtcggccag aaaacgctcg
     1021 atatggaacg ccaggccatc caggccatga tgatccacgt gacgcagacc ctccctgccg
     1081 gcgaacacct gccggtggtg aaatcggagc aggcacagat cctgagcagc cgggcctaca
     1141 gcccggacca ggtggccctg attgccgctg cacagcagcc cgccaacgct ctggccaccg
     1201 cgattgctct ggccgccgga ttacgcgccc atgaactgct gaccctcgcg ccccgccagg
     1261 agcgtgcacc agatacccgt ccggcagcgg acagtaaatt tgccggtcgg gagggtgtga
     1321 tttacaccgt tcagggcaaa ggcggcctgg tcagggaagt tctgctgccg tcacgcctgg
     1381 ctgaacgtct ggagcatgtc aggctggcga gcccggtccg ggtgaccgat cgcggcgtgt
     1441 tttaccagag tcagtacgcc attggcggag gacagcgctg gtcgaacgct ttcagtgccg
     1501 cctccatgcg taccctgggc tggtcacggg gggcacacgg cgtgcgtcac agctacgccc
     1561 agcaacggat gcaggagctg caaaaactcg gtctggttcg tgatatggcc ctgcgtaccg
     1621 tgccagcgcc agaaatgggc cattttcgtc cggaaatcac ggagacatac ctgcgatgac
     1681 aagaacgttt attttactgt gtaccggtgt tttcgccatc gcgtacgccc tgtatgagct
     1741 gaaacatatg ggcgtttact atccggatgc cagcaatccg cagctgttca ctggctggaa
     1801 ggcggtcacc gaactcggtc ccgcaatcct ggctaccgcg atcgcagcca cagcgttctc
     1861 gctgtggctg ttcattttgt ttttcagaag ctcagagtcc cggcggatac agagcgagac
     1921 agacaggtat aagcaggctc tgagggaggc agaagaggct cacagagcca gacaaaatac
     1981 ccttattcag aatcacaatc tggagacagc ggccctgcga agccactaca gtggtgctga
     2041 ggatgtactg cgggaagagt ttgcgaaaaa agaaaaccgc tggcgtcagg cgttgcagaa
     2101 tgcccgggaa gaagccaggc aggagctgga ggaacagacg gaggcactga atcagcgcgc
     2161 gtccggcctg ctggtacagg agcagacact gaaagccaga atggaggaag tcagaaagta
     2221 tgttgccgga gagcggcata acgccatgcg ggcccgtctg gaggcagagg aagcagagaa
     2281 aaggcgacaa aatgccagcg caacagcgga acggcgcaga cggaaactgg aaaaactccg
     2341 ggccactgac ggaacagcag ggcaaaaaca ctgaggcatt tcaggactgc cagaaacgcc
     2401 accaggcacg gggccgggtc gtgttctgcc gcttctcttc ccggttctcc agcaacaaca
     2461 tcgcctgttt caggctgtcg atatgtgaat ctctggaggc aaggagggtg ttcaggtgtt
     2521 caatttcctg tttcagaatg taaatgacct gttcattacg gtcagaagtg actgtgtcac
     2581 gctgtccact gacctgttca cccctctgtt caacgggtac aggcgcaaag gcaccaaaaa
     2641 cccgcaaaag ctctgaagta tcgagcattt tcgcattccg ttcaccccga caggtggaca
     2701 gttcaccggc tttaattaac ctgtgcaggg ttgtcctgct cttacccgtc aggcgtgctg
     2761 cctcactgat cgacactttc gccatcagtc acccttctgt agtgcatcca gtctcaggga
     2821 cagtgtacgg aaaagatgct ccgcatcatc gtggagtttc tcacaaaggt cagcctccgc
     2881 atcgagatca agctcgttaa gcttctccag caggagcagg gactgattct ggatgaattt
     2941 tgccatattc agcgcggtct tctgttgttt agtcataagg ggcctcggag catcagtgct
     3001 caatgtaaaa ccagactctt ttccgcttcc tcgctcactc agtcgctacg ctcctgccgt
     3061 tcggctgcgg cgagcggcag ggcacacaga cagaaaagtc atagccacca cccgggaagg
     3121 gaaaagaaca gacgggagaa ggccacggcg ttgccgtttt tccataggct ccgcccccct
     3181 gacaagcatc acgaaatctg acactcaaat cagtggtggc gaaacccgac aggactataa
     3241 agatacctat catttctgat aggcggctcc ctcgtgcgct ctcctgttcc tgcctttcgg
     3301 tttaccggtg tcactccgct gttatggccg cgtttatctc attccacgcc tgacactcag
     3361 ttccgggaag gcagttcgct ccaagctgga ctgtatgcac gaaccccccg ttcagtccga
     3421 ctgctgcgcc tgttccggta actatcgact tgagtccaac ccggaaagac acgacaaaac
     3481 gccactggca gcagccattg gtatctggtt tacggagcgg agaggcgtgt acaagcatac
     3541 acagagttct tgaagtgttg acctgactac ggctacactg gaaggacaga tttggtcact
     3601 gcgctccgtt taagccagtt accacggttc agaaacttgc cggtttcctg aaccttcgaa
     3661 aaaccacctt gccgggtggt tttttcgttt cagagaaaga gattacgacg aggctgaatg
     3721 aatctcaaga tttcatttag cctgccaccc gatcattcaa agttttggcg tagttctgac
     3781 ccgctccccg tgatttgtta catacccacc acagggcatt agttttttta tttttttgat
     3841 gatatgtaca aaatcagtgg ttaggaataa tcttagccgc cttaacaaac acatacaaaa
     3901 acagcggtta tgtttcatct caccacaata agtaacgaca gtatcatgct aaaaaaagat
     3961 gatattatct ttacgaaatc ataacaggct gtttttatta aattaatcag gcatttatgg
     4021 actggatttt acttgctatc gccattgctc tacttgttgt agctgtctac tcaggaatct
     4081 catacttcag agaaaaaaaa acaatcagtc gtacatttag gcgatagcgc cctatttacc
     4141 ataatccctt cttacgcgca ccgcgaaaac ggcctcaggg cgtttctggt ggttaacggg
     4201 caaaaggtgg tggcaagtac accgaaaacc gccagaaacg cgcctgattt attttacgca
     4261 tatgcatggc tattcacacc actgcatagt aggtgatttc ggtcgagaaa agggccccgg
     4321 acgttaaaag cataaaagaa cgggccatcc aggcccgtca aatgaggaca actctgtaaa
     4381 aggaccgtcg cacctggtgc ggtgccggcg acaagaaaaa ggtagctcat atcagcccct
     4441 caccggcgaa aaatatttcc tggccacctc aaccgccaca cgctgtgttc ccgttaactc
     4501 gcgcagataa cgcaggaaca tcctgttttc ctctgcatgc gcctcctcac tgccctgtgc
     4561 gtggtattcc actatcgcgt tcaccacgga ctcaccgacc
//
