LOCUS       NZ_CP042498             2495 bp    DNA     circular CON 26-JAN-2024
DEFINITION  Leclercia adecarboxylata strain E61 plasmid pE61_005, complete
            sequence.
ACCESSION   NZ_CP042498
VERSION     NZ_CP042498.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN12289350
            Assembly: GCF_008931385.1
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  JOURNAL   Unpublished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 :: E61_oz_imp.uniclycerAssembly.fsa
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Reference-guided Assembly         :: na
            Genome Coverage                   :: 2671x
            Sequencing Technology             :: Oxford Nanopore MiniION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 01/24/2024 14:25:52
            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)                     :: 5,495
            CDSs (total)                      :: 5,364
            Genes (coding)                    :: 5,236
            CDSs (with protein)               :: 5,236
            Genes (RNA)                       :: 131
            rRNAs                             :: 9, 8, 8 (5S, 16S, 23S)
            complete rRNAs                    :: 9, 8, 8 (5S, 16S, 23S)
            tRNAs                             :: 85
            ncRNAs                            :: 21
            Pseudo Genes (total)              :: 128
            CDSs (without protein)            :: 128
            Pseudo Genes (ambiguous residues) :: 0 of 128
            Pseudo Genes (frameshifted)       :: 49 of 128
            Pseudo Genes (incomplete)         :: 95 of 128
            Pseudo Genes (internal stop)      :: 31 of 128
            Pseudo Genes (multiple problems)  :: 37 of 128
            Pseudo Genes (short protein)      :: 1 of 128
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP042498.1.
            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="E61"
                     /isolation_source="Shower 2"
                     /db_xref="taxon:83655"
                     /plasmid="pE61_005"
                     /geo_loc_name="Australia: Sydney"
                     /collection_date="2014-04-07"
                     /collected_by="Concord Repatriation Hospital Sydney
                     Australia"
     gene            439..657
                     /locus_tag="FR819_RS27815"
                     /old_locus_tag="FR819_27815"
     CDS             439..657
                     /locus_tag="FR819_RS27815"
                     /old_locus_tag="FR819_27815"
                     /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_198129632.1"
                     /translation="MFGFSSGALMTLSDDERHLLVSVVSVWLRRAGGDAGAMMLDAYRQ
                     ILSETEPAVRTVMLEFLESVRIHYISS"
                     /name="hypothetical protein"
     gene            complement(948..1133)
                     /locus_tag="FR819_RS27825"
                     /old_locus_tag="FR819_27825"
     CDS             complement(948..1133)
                     /locus_tag="FR819_RS27825"
                     /old_locus_tag="FR819_27825"
                     /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(1499..1726)
                     /locus_tag="FR819_RS27830"
                     /old_locus_tag="FR819_27830"
     CDS             complement(1499..1726)
                     /locus_tag="FR819_RS27830"
                     /old_locus_tag="FR819_27830"
                     /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"
     Typing          814..901
                     /name="MOB_unknown"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="6.86e-39"
     Typing          complement(2..187)
                     /name="rep_cluster_2335"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="87.766"
                     /coverage="99.0"
                     /evalue="4.2399999999999996e-54"
     Typing          complement(1962..2468)
                     /name="rep_cluster_2358"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="83.774"
                     /coverage="99.0"
                     /evalue="6.33e-132"
ORIGIN
        1 ttgtcagggg ggcggagcct atggaaaaac ggctttggcg cggccttatg ctttcttcgt
       61 taagtatctt cctggcatcc cccaggaaat ttctgatcca tccgtaagcc cgtcccgctc
      121 gccgcagccg aacgaccgag cggagcgagt cagtgagcga ggaagcggaa tatattctgt
      181 atcacatttt ctcctgacgc gttttctttc actttctgcg cctgtcttat gtggcattaa
      241 tgctatgtgt tactgccatg ctacatctta agccagtata cactccgcta gtgctccgtg
      301 actggtccgg cgctgcgccc ggaacccgcc tgtaccggtt cagcagccgt tccggcctga
      361 ctgcaatttt ttttttttca tccctgcccg ctaccctgta aacctttctt ctgcgttgcc
      421 gttaacagta ggtaagccat gtttggtttt tcttccggag ccctgatgac tcttagtgat
      481 gatgagcgac acctgcttgt gtccgttgtt tcggtctggc tacggcgtgc cggaggggat
      541 gccggagcca tgatgctgga tgcataccgg cagattttgt ctgaaaccga accggccgta
      601 aggactgtca tgctcgaatt tcttgaatcc gttcgcattc attacatttc gtcctgagca
      661 ttttctgtat ttctgtccat acttaaacga ggcggccgtc acggacggtg gtcgtcgttc
      721 catgatgctg ttatggacga gtgagagtaa tctaatctaa cttgattgag ttccgggcgt
      781 gccgcccggt tttttttgct gtttcccggt gtccgttccg ggacaggatg tgcatttgta
      841 ataccgcgca cgcgccggca tcacaaatac cctggtcagg gctgcgcccc gacaccccgc
      901 catcgcctca cggccgcgca ctgaattgcg cacccgttca ccgattttca cgcattttcc
      961 tcgcctatct gtgcgttcag catggcgtaa agcgcttcgg cctgatcgtg caggtgctca
     1021 cagcagccgg cagcctcatc cagatccatc tgctcgagcc gctcaaggag gagaagtgtc
     1081 tgtgcgcgga taaatttggc catattgagg gcggcggatt cctgtctggt cactggtgat
     1141 tttccccgtc tggtgatgat ttttgcgtga aaagagcatg gcgtcattct ggtgcatagt
     1201 catgcatgcc gttaaaattt aacaggcgcg tttctgacgg gttccggggt ggtttgttgt
     1261 ggtttttgtc atggtttcgt caggaacgcg ctgaacgcgt ctcaggcggt gcgggcaacg
     1321 gatgttatgg taaattcttg ggggcttgat tataaaatac cgcacttcct cttatgtctt
     1381 gtgcttttta gacaaccctg aaagctttta gctttggtga tgcaatttgc tgggattttg
     1441 gcggagaacc acaggtaaag aaaaaggcca cattagcggc ctttttcgga gaagatgctc
     1501 agtgcggaat ttcggagact tctttaacgt cggttttatt gatctgctgt ttgacaccat
     1561 tcgcgtctgt atagccaagc aggcctgagt ctgattcttt aggtttgccg tcgctgacaa
     1621 tagtgcgacc gtcattggtg tgtatggcat agcttgtgcg cgtgcagccg gtgagggctg
     1681 aaagcgcaac tgccgctgcg aacactgaaa caaaaatctt tttcaaagcc agctcctttt
     1741 atccatatca gttttggtca ctaaccatct aactataggt cattttttat gtgaaaagag
     1801 gcttgatggt gggctgtata tcgagttagg cgcgaggtgc tatggtcaaa gtgtggtgtc
     1861 aggcggggag gaggcttata tgagatgtaa tccggccgat acatatacca agatgattta
     1921 agtattcctc tttgtgaggt tggatgtcta atttataaag gatcttcttg agatcctttt
     1981 tttccgcgcg taatctcttg ccctgtaaac gaaaaaacca ccctggcagg tggtttttcg
     2041 aaggttaggt aatcctggca gatcccctaa ccgtggtaac agtcttgtgc gagacatgtc
     2101 accaaatttg tcctttcagt gtagcctcac taaggccgcc acttcaagaa ctcttgagac
     2161 atctctcgca catcctgttt gccaatggcc gttgccaatg gcgattagtc gtgtctttcc
     2221 gggttggact caagttgata gttaccggat aaggcgcagc ggtcggactg aacggggggt
     2281 tcgtgcatac agtccatcct ggagcgaact gccttcccgg aactgagtgt caggcgtgga
     2341 atgagaaacc gcggccataa cagcggagtg acaccggtaa accgaaaggc aggaatgcgg
     2401 gggagcacga gggagccacc agggggaaac gcctggtatc tttaagccgc atcgggtttc
     2461 gccaccactg atttgagcgt cagattctgt gatgc
//
