LOCUS       NZ_CP042511             2495 bp    DNA     circular CON 26-JAN-2024
DEFINITION  Leclercia adecarboxylata strain E1 plasmid pE1_006, complete
            sequence.
ACCESSION   NZ_CP042511
VERSION     NZ_CP042511.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN12289304
            Assembly: GCF_008931445.1
KEYWORDS    RefSeq.
SOURCE      Leclercia adecarboxylata
  ORGANISM  Leclercia adecarboxylata
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Leclercia.
REFERENCE   1  (bases 1 to 2495)
  AUTHORS   Phan,H.T.T., Stoesser,N., Gordon,K.A., Crook,D., Walker,S.A.,
            Mathers,A.J., Peto,T.E.A., George,S. and Lipworth,S.I.
  TITLE     Genomic Dynamics of Species and Mobile Genetic Elements in a
            Prolonged blaIMP-4-associated Carbapenemase Outbreak in an
            Australian Hospital
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 2495)
  AUTHORS   Phan,H.T.T.
  TITLE     Direct Submission
  JOURNAL   Submitted (01-AUG-2019) Nuffield Department of Micriobiology,
            University of Oxford, Headley Way, Oxford, Oxford OX3 7BN, United
            Kingdom
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Date                     :: SEP-2017
            Assembly Method                   :: Unicycler v. SEP-2017
            Assembly Name                     :: E1_oz_imp.uniclycerAssembly.fsa
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Reference-guided Assembly         :: na
            Genome Coverage                   :: 3841x
            Sequencing Technology             :: Oxford Nanopore MiniION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 01/24/2024 14:22:27
            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)                     :: 5,297
            CDSs (total)                      :: 5,171
            Genes (coding)                    :: 5,048
            CDSs (with protein)               :: 5,048
            Genes (RNA)                       :: 126
            rRNAs                             :: 9, 8, 8 (5S, 16S, 23S)
            complete rRNAs                    :: 9, 8, 8 (5S, 16S, 23S)
            tRNAs                             :: 86
            ncRNAs                            :: 15
            Pseudo Genes (total)              :: 123
            CDSs (without protein)            :: 123
            Pseudo Genes (ambiguous residues) :: 0 of 123
            Pseudo Genes (frameshifted)       :: 45 of 123
            Pseudo Genes (incomplete)         :: 90 of 123
            Pseudo Genes (internal stop)      :: 29 of 123
            Pseudo Genes (multiple problems)  :: 32 of 123
            Pseudo Genes (short protein)      :: 1 of 123
            CRISPR Arrays                     :: 1
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP042511.1.
            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..2495
                     /organism="Leclercia adecarboxylata"
                     /mol_type="genomic DNA"
                     /strain="E1"
                     /isolation_source="Shower 3"
                     /db_xref="taxon:83655"
                     /plasmid="pE1_006"
                     /geo_loc_name="Australia: Sydney"
                     /collection_date="2012-06-13"
                     /collected_by="Concord Repatriation Hospital Sydney
                     Australia"
     gene            complement(217..402)
                     /locus_tag="FR773_RS26820"
                     /old_locus_tag="FR773_26825"
     CDS             complement(217..402)
                     /locus_tag="FR773_RS26820"
                     /old_locus_tag="FR773_26825"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000165998.1"
                     /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_013772937.1"
                     /translation="MTRQESAALNMAKFIRAQTLLLLERLEQMDLDEAAGCCEHLHDQA
                     EALYAMLNAQIGEENA"
                     /name="Rop family plasmid primer RNA-binding protein"
     gene            complement(768..995)
                     /locus_tag="FR773_RS26825"
                     /old_locus_tag="FR773_26830"
     CDS             complement(768..995)
                     /locus_tag="FR773_RS26825"
                     /old_locus_tag="FR773_26830"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_010615788.1"
                     /GO_component="GO:0005886 - plasma membrane [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="YgdI/YgdR family lipoprotein"
                     /protein_id="WP_021243043.1"
                     /translation="MKKIFVSVFAAAVALSALTGCTRTSYAIHTNDGRTIVSDGKPKES
                     DSGLLGYTDANGVKQQINKTDVKEVSEIPH"
                     /name="YgdI/YgdR family lipoprotein"
     gene            2230..2421
                     /locus_tag="FR773_RS26840"
                     /old_locus_tag="FR773_26845"
     CDS             2230..2421
                     /locus_tag="FR773_RS26840"
                     /old_locus_tag="FR773_26845"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001046776.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_021243041.1"
                     /translation="MTLSDDERHLLVSVVSVWLRRAGGDAGAMMLDAYRQILSETEPAV
                     RTVMLEFLESVRIHYISS"
                     /name="hypothetical protein"
     Typing          83..170
                     /name="MOB_unknown"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="6.86e-39"
     Typing          complement(1411..1939)
                     /name="rep_cluster_2335"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="88.598"
                     /coverage="88.0"
                     /evalue="0.0"
ORIGIN
        1 tatggacgag tgagagtaat ctaatctaac ttgattgagt tccgggcgtg ccgcccggtt
       61 ttttttgctg tttcccggtg tccgttccgg gacaggatgt gcatttgtaa taccgcgcac
      121 gcgccggcat cacaaatacc ctggtcaggg ctgcgccccg acaccccgcc atcgcctcac
      181 ggccgcgcac tgaattgcgc acccgttcac cgattttcac gcattttcct cgcctatctg
      241 tgcgttcagc atggcgtaaa gcgcttcggc ctgatcgtgc aggtgctcac agcagccggc
      301 agcctcatcc agatccatct gctcgagccg ctcaaggagg agaagtgtct gtgcgcggat
      361 aaatttggcc atattgaggg cggcggattc ctgtctggtc actggtgatt ttccccgtct
      421 ggtgatgatt tttgcgtgaa aagagcatgg cgtcattctg gtgcatagtc atgcatgccg
      481 ttaaaattta acaggcgcgt ttctgacggg ttccggggtg gtttgttgtg gtttttgtca
      541 tggtttcgtc aggaacgcgc tgaacgcgtc tcaggcggtg cgggcaacgg atgttatggt
      601 aaattcttgg gggcttgatt ataaaatacc gcacttcctc ttatgtcttg tgctttttag
      661 acaaccctga aagcttttag ctttggtgat gcaatttgct gggattttgg cggagaacca
      721 caggtaaaga aaaaggccac attagcggcc tttttcggag aagatgctca gtgcggaatt
      781 tcggagactt ctttaacgtc ggttttattg atctgctgtt tgacaccatt cgcgtctgta
      841 tagccaagca ggcctgagtc tgattcttta ggtttgccgt cgctgacaat agtgcgaccg
      901 tcattggtgt gtatggcata gcttgtgcgc gtgcagccgg tgagggctga aagcgcaact
      961 gccgctgcga acactgaaac aaaaatcttt ttcaaagcca gctcctttta tccatatcag
     1021 ttttggtcac taaccatcta actataggtc attttttatg tgaaaagagg cttgatggtg
     1081 ggctgtatat cgagttaggc gcgaggtgct atggtcaaag tgtggtgtca ggcggggagg
     1141 aggcttatat gagatgtaat ccggccgata catataccaa gatgatttaa gtattcctct
     1201 ttgtgaggtt ggatgtctaa tttataaagg atcttcttga gatccttttt ttccgcgcgt
     1261 aatctcttgc cctgtaaacg aaaaaaccac cctggcaggt ggtttttcga aggttaggta
     1321 atcctggcag atcccctaac cgtggtaaca gtcttgtgcg agacatgtca ccaaatttgt
     1381 cctttcagtg tagcctcact aaggccgcca cttcaagaac tcttgagaca tctctcgcac
     1441 atcctgtttg ccaatggccg ttgccaatgg cgattagtcg tgtctttccg ggttggactc
     1501 aagttgatag ttaccggata aggcgcagcg gtcggactga acggggggtt cgtgcataca
     1561 gtccatcctg gagcgaactg ccttcccgga actgagtgtc aggcgtggaa tgagaaaccg
     1621 cggccataac agcggagtga caccggtaaa ccgaaaggca ggaatgcggg ggagcacgag
     1681 ggagccacca gggggaaacg cctggtatct ttaagccgca tcgggtttcg ccaccactga
     1741 tttgagcgtc agattctgtg atgcttgtca ggggggcgga gcctatggaa aaacggcttt
     1801 ggcgcggcct tatgctttct tcgttaagta tcttcctggc atcccccagg aaatttctga
     1861 tccatccgta agcccgtccc gctcgccgca gccgaacgac cgagcggagc gagtcagtga
     1921 gcgaggaagc ggaatatatt ctgtatcaca ttttctcctg acgcgttttc tttcactttc
     1981 tgcgcctgtc ttatgtggca ttaatgctat gtgttactgc catgctacat cttaagccag
     2041 tatacactcc gctagtgctc cgtgactggt ccggcgctgc gcccggaacc cgcctgtacc
     2101 ggttcagcag ccgttccggc ctgactgcaa tttttttttt ttcatccctg cccgctaccc
     2161 tgtaaacctt tcttctgcgt tgccgttaac agtaggtaag ccatgtttgg tttttcttcc
     2221 ggagccctga tgactcttag tgatgatgag cgacacctgc ttgtgtccgt tgtttcggtc
     2281 tggctacggc gtgccggagg ggatgccgga gccatgatgc tggatgcata ccggcagatt
     2341 ttgtctgaaa ccgaaccggc cgtaaggact gtcatgctcg aatttcttga atccgttcgc
     2401 attcattaca tttcgtcctg agcattttct gtatttctgt ccatacttaa acgaggcggc
     2461 cgtcacggac ggtggtcgtc gttccatgat gctgt
//
