LOCUS       NZ_CP055190             4473 bp    DNA     circular CON 01-MAY-2024
DEFINITION  Klebsiella pneumoniae strain STEFF_14 plasmid unnamed4, complete
            sequence.
ACCESSION   NZ_CP055190
VERSION     NZ_CP055190.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN13925530
            Assembly: GCF_022354285.1
KEYWORDS    RefSeq.
SOURCE      Klebsiella pneumoniae
  ORGANISM  Klebsiella pneumoniae
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Klebsiella/Raoultella group; Klebsiella.
REFERENCE   1  (bases 1 to 4473)
  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 4473)
  AUTHORS   Che,Y.
  TITLE     Direct Submission
  JOURNAL   Submitted (11-JUN-2020) Civil Engineering, The University of Hong
            Kong, Pokfulam Road, Hong Kong 000000, China
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: "Other" v. Unicycler
            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_022354285.1-RS_2024_05_01
            Annotation Date                   :: 05/01/2024 05:13:17
            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)                     :: 5,397
            CDSs (total)                      :: 5,273
            Genes (coding)                    :: 5,140
            CDSs (with protein)               :: 5,140
            Genes (RNA)                       :: 124
            rRNAs                             :: 9, 8, 8 (5S, 16S, 23S)
            complete rRNAs                    :: 9, 8, 8 (5S, 16S, 23S)
            tRNAs                             :: 89
            ncRNAs                            :: 10
            Pseudo Genes (total)              :: 133
            CDSs (without protein)            :: 133
            Pseudo Genes (ambiguous residues) :: 0 of 133
            Pseudo Genes (frameshifted)       :: 58 of 133
            Pseudo Genes (incomplete)         :: 78 of 133
            Pseudo Genes (internal stop)      :: 20 of 133
            Pseudo Genes (multiple problems)  :: 20 of 133
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP055190.1.
            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..4473
                     /organism="Klebsiella pneumoniae"
                     /mol_type="genomic DNA"
                     /strain="STEFF_14"
                     /isolation_source="Shatin WWTPs_14 WWTPs effluent"
                     /db_xref="taxon:573"
                     /plasmid="unnamed4"
                     /geo_loc_name="Hong Kong"
                     /lat_lon="22.4 N 114.2 E"
                     /collection_date="2018-12"
     gene            complement(join(3990..4473,1..575))
                     /locus_tag="HUZ42_RS26865"
                     /old_locus_tag="HUZ42_26820"
     CDS             complement(join(3990..4473,1..575))
                     /locus_tag="HUZ42_RS26865"
                     /old_locus_tag="HUZ42_26820"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_012508929.1"
                     /GO_function="GO:0005524 - ATP binding [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="ParA family protein"
                     /protein_id="WP_042109829.1"
                     /translation="MAIYAVWNNKGGVGKSYLTFQLASEYARQNPTKKVLVVDLCPQAN
                     SSSMLLGGMINGENTLNQIHSAIQRKTISGYIEDRIRSPYIPTNTGSSYVINVSTHNSK
                     VPNNLYLVTGDEQLELQASRVVGASFPGPHDAWRTVHLWINDLISDICNSWNNEDSCVF
                     IDCNPSFSIYTELALTAAERLLIPFSADGSSKRAVKAVLSLVYGERRHQNEPQSDFYLN
                     SNRYSMSLPQIYMYVGNRLTQMNNSSASAFKTVVTEIGDEIWKVWQTKPSLFCIHPNGS
                     STPNNKRSFRNMFQYEVNDANTASVVSGALGIPIATLTAGNKTVSGKIIKVNQTQLDKQ
                     VPNIVALAGMIE"
                     /name="ParA family protein"
     gene            complement(905..1071)
                     /locus_tag="HUZ42_RS27010"
                     /pseudo=""
     CDS             complement(905..1071)
                     /locus_tag="HUZ42_RS27010"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001505258.1"
                     /note="frameshifted; 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            1487..1678
                     /locus_tag="HUZ42_RS26870"
                     /old_locus_tag="HUZ42_26825"
     CDS             1487..1678
                     /locus_tag="HUZ42_RS26870"
                     /old_locus_tag="HUZ42_26825"
                     /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_064185167.1"
                     /translation="MTKQQKTALNMAKFIQNQSLLLLEKLNELNLDVEADLCEKLHDDA
                     EHLFRTLSSRLDALQDGN"
                     /name="Rop family plasmid primer RNA-binding protein"
     gene            1678..2079
                     /locus_tag="HUZ42_RS26875"
                     /old_locus_tag="HUZ42_26830"
     CDS             1678..2079
                     /locus_tag="HUZ42_RS26875"
                     /old_locus_tag="HUZ42_26830"
                     /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_012579088.1"
                     /translation="MARVSISEAARLTGKSRTTLHRLIKAGDLSTCSGERNAKMVDTSE
                     LLRVFGPFEQPKGEHHSGQVSGQRDTASADQSEQVIRHLKQEIEHLNTLLLSKDSHIDS
                     LKQAMLLLENHQAKLTESPAPWWKFWKKS"
                     /name="helix-turn-helix domain-containing protein"
     gene            complement(2854..3285)
                     /locus_tag="HUZ42_RS26880"
                     /old_locus_tag="HUZ42_26835"
     CDS             complement(2854..3285)
                     /locus_tag="HUZ42_RS26880"
                     /old_locus_tag="HUZ42_26835"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001025244.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="DUF6530 family protein"
                     /protein_id="WP_064185166.1"
                     /translation="MKIPAHLKHKPIIQVENYDRIDGPHADDTDAMGLSVGIAQWNTPG
                     WTELSAKVWRNTGEKWSRQSEELPLHRVIDLATLICITIDYSKNGRLSSSDDFPVTRST
                     DNPELAHHTEFMKKELKQNKSNLDVSLKRLSTELKRLGY"
                     /name="DUF6530 family protein"
     gene            3703..3960
                     /locus_tag="HUZ42_RS26885"
                     /old_locus_tag="HUZ42_26840"
     CDS             3703..3960
                     /locus_tag="HUZ42_RS26885"
                     /old_locus_tag="HUZ42_26840"
                     /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_065953843.1"
                     /translation="MGSNNNQNKDLQDKQADLLDQTYTLGWMDGYAEGYDDAIEDTQNA
                     LNKLENENELLTEIVESKDNVIKELASSAGRALQAVKKNK"
                     /name="hypothetical protein"
     Typing          complement(964..1366)
                     /name="ColRNAI_rep_cluster_1987"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="94.828"
                     /coverage="99.0"
                     /evalue="3.51e-178"
ORIGIN
        1 ccatcggcag agaaaggaat taaaaggcgc tctgctgcgg ttaaagctaa ctctgtataa
       61 atagagaagc tagggttgca gtcaatgaat acgcagctat cttcattatt ccatgagttg
      121 caaatgtcac tgattaaatc attaatccag aggtgaacag tacgccatgc atcatgggga
      181 cctggaaatg atgccccaac aactcttgat gcttggagtt ctaattgttc atcgccagtg
      241 acaagatata gattatttgg aactttacta ttgtgtgtag atacatttat tacatagcta
      301 gaaccagtgt tggtaggaat atatggactt ctgatcctat cctcaatata tccagatatt
      361 gtctttctct gtattgctga atgaatctgg tttagtgtgt tttcgccatt tatcattcca
      421 ccaagtaaca tagaggacga gttcgcttgt gggcacaggt caaccaccag gaccttttta
      481 gtagggttct gtctggcata ttcagaggct aactgaaaag taaggtaact tttccctaca
      541 ccacccttgt tattccatac ggcatagatc gccatctata actcctaatc tagttttgtt
      601 gttagcttag attcagggta ctagagatta ttgttctact gttagtttct ttcagctgac
      661 tgcctttttt tggaacgata ttcagtcgaa ggggttggct ggctcaccat gacttatctg
      721 gagttgtcga attccgatta aaaggatctt cttgagatcc taacctgcgg gatgtaatct
      781 tttgctctgt aaacgaaaaa accacctggg gaggtggttt ttcgaaggat cagtaagttg
      841 gggaacttct gaaccgtggt aacagggtgt acaagaccgc tgccaccaaa tctgtccttt
      901 cagtttagct gtagttaggc tgtaacttca agaactctgc accagtaatt cttgtacacc
      961 ccttaccagt ggctgctgcc agtggcgttt tgtcgtgcct tccgggttgg actcaagtcg
     1021 aaagttaccg gaacaggcgc agcagtcgga ctgaacgggg ggttcgtgca tacagtccag
     1081 cttggagcga actgcctacc cggaactgag tgtcaggcgt ggaatgagac aaacgcggcc
     1141 ataacagcgg aatgacaccg gtaaaccgaa aggcaggaac aggagagcgc acgagggagc
     1201 catcaggggg aaacgcctga tatctttata gtcctgtcgg gtttcgccac cactgatttg
     1261 agcgtcagct tctgtgatgc ttgtcagggg ggcggagcct atggaaaaac ggccgctaag
     1321 cggcctttcc ttttccccgt cacgcgaccg ctcggttttc tcgagctttt acacgcatgc
     1381 tcctgccgct cgccgcagcc gaacggcagg agcatagcga ctgagtgagc gaggaagcgg
     1441 aaaagagaac atccctgcac tgagcactga cgctctgagg cctcttatga cgaaacaaca
     1501 gaaaacagcg ctgaacatgg ctaaattcat ccagaatcag tctctgctcc tgctggagaa
     1561 gcttaacgag cttaatcttg atgtagaggc cgacctttgt gagaaactcc acgatgatgc
     1621 ggagcatctt ttccgtacac tgtcctcgag actggatgca ttacaggatg gtaactgatg
     1681 gccagagtgt ctattagtga ggctgcccga ctgacgggta agagtagaac aacactgcac
     1741 aggttaatta aagcaggtga cctgtccacc tgtagcggtg agcgcaatgc aaaaatggta
     1801 gatacttcag agcttttacg tgtctttggc ccctttgagc aaccgaaggg tgaacaccat
     1861 tctggacagg tctctggaca gcgtgataca gcctctgctg accagagtga acaggtgatc
     1921 cgtcatctga aacaggagat tgaacacctg aacaccttac ttttgtccaa ggattcgcac
     1981 attgacagcc tgaaacaggc catgctcctt cttgaaaatc accaggcaaa attaactgaa
     2041 tccccggcgc catggtggaa attctggaaa aaatcctgac cctgtcatgc ttcagttttc
     2101 ctctccggcc atcccggcga gttcctgaac cttcccaaaa atagtcagat ctctgaacgc
     2161 tcctcaccac taaaaatacc cacaccccac gcaaaattaa aattttgcag atttgtattt
     2221 aatatcagta gtttactttt ctgaaatttc gttttttaaa ttttatttat atagatccga
     2281 ctctatgacg actcgtcata gagtccccgg cgagtcgtca tagagtcggt aacgactcag
     2341 ggctataaaa acaatgagtt aataacgacc cgactctaga cccgactccc cgtttggttg
     2401 ttttttagtc gcggcgactc taggtacgac tctagtgcag agtcgccggt gaatcgtgtg
     2461 gtgagtcgtc cggcgacttg ccataacgtg attgccggcc gtcgacgaac ccgattcctg
     2521 aacgtgctga aaaccggttt tccggctgcg ccggcaacgc ttcacggcca cgcaataaat
     2581 tgcgtccccg ttcaccgttt tcggatggga agaacgccgg aaacaggact taccctgtct
     2641 gaatggcgtg aatattcgcg ctatgcactt gcgtgcatac tcatgcatgc cataaaaaca
     2701 gagcctgcgc gtttctggcg ggttttcggg tggtttgttg cctgttttac cggtttcccg
     2761 tcagaaacgc cctcagcgcg tttctgacga tgctgataac ggatgttatg gtaaattcgt
     2821 ctgtgaagta ggtagacatt tctaaagcta gttttaatag ccaagtctct tcaattcagt
     2881 cgagaggcgt ttgaggctta catcaagatt gcttttattt tgttttaact cttttttcat
     2941 aaactcagtg tgatgtgcta gctcagggtt atcagttgag cgagtcacgg gaaaatcatc
     3001 actggatgaa agtcgcccat ttttactgta gtctatggtg atacagatca gagttgcaag
     3061 gtcgattacc cggtgaagag gcagctcttc tgattgtctt gaccattttt ctcctgtgtt
     3121 tcgccaaacc tttgccgaaa gctcagtcca tccaggagtg ttccattgag caatacctac
     3181 agatagcccc atagcatcag tgtcatcggc atgtgggccg tcaatgcggt cgtaattttc
     3241 gacttgaata attggtttat gcttcaaatg cgcgggtatt ttcatcagtt cgtccttagg
     3301 taatgtttgt gattattaaa ttacattgtt tttctaatta taaaactcac taaatgtaag
     3361 taaatattaa tatctattgt tatcatgtgc ttgtgatttt gtttttccaa ttttatgttt
     3421 tttgcttgga gagtagcggt gtttttttgt gtcaagtgtt atgataagcc gtacgttttt
     3481 tttctggttt atagttcggt tattcacagc aatgggcgtg gttttctatg actacagata
     3541 acgttaggaa tattggcgac tataaaaaga aagatgtcgg ggtggatgct gactgtaatc
     3601 cagtctcagg aaacacacca ccagtcagac taagtgagaa acttagaaat ggaattcctc
     3661 ctggtttgaa aactcagatg cgccaacaaa tgaggaaaaa acatgggctc taacaataat
     3721 cagaataaag atctgcagga taagcaagct gatcttttgg accaaacgta tactcttggt
     3781 tggatggatg gctatgccga agggtatgat gatgctattg aagatactca gaacgctttg
     3841 aataaactgg aaaacgaaaa cgagttgctt actgagattg ttgaaagtaa agataatgta
     3901 atcaaagagt tggcctctag tgctggcagg gcgctgcaag cagtaaagaa aaacaaataa
     3961 aaaaaggccc ttttaagggc cttgctattt tattcgatca taccagcgag agctacaatg
     4021 ttggggactt gtttatctag ctgcgtctga ttaaccttta ttatttttcc tgaaacagtt
     4081 ttatttcctg cagttaatgt cgcgattgga atacctaagg ctccagatac gacagatgct
     4141 gtgtttgcat catttacttc atactgaaac atattcctga aagatctttt attatttggc
     4201 gttgagctcc catttgggtg aatacaaaac agacttggtt ttgtttgcca tactttccaa
     4261 atttcatcac caatttcggt tactaccgtc ttaaatgcac tggcagatga attgttcatt
     4321 tgcgttaatc tatttccaac atacatatat atttgtggta gcgacataga ataacgattg
     4381 ctattaagat agaaatctga ttgtggttca ttctgatggc gacgctcacc ataaactaaa
     4441 gaaagtacag ccttaactgc tctctttgat gaa
//
