LOCUS       NZ_CP042510             4678 bp    DNA     circular CON 26-JAN-2024
DEFINITION  Leclercia adecarboxylata strain E1 plasmid pE1_005, complete
            sequence.
ACCESSION   NZ_CP042510
VERSION     NZ_CP042510.1
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 4678)
  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  JOURNAL   Unpublished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 4678)
  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
            CP042510.1.
            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..4678
                     /organism="Leclercia adecarboxylata"
                     /mol_type="genomic DNA"
                     /strain="E1"
                     /isolation_source="Shower 3"
                     /db_xref="taxon:83655"
                     /plasmid="pE1_005"
                     /geo_loc_name="Australia: Sydney"
                     /collection_date="2012-06-13"
                     /collected_by="Concord Repatriation Hospital Sydney
                     Australia"
     gene            514..1005
                     /locus_tag="FR773_RS26780"
                     /old_locus_tag="FR773_26785"
     CDS             514..1005
                     /locus_tag="FR773_RS26780"
                     /old_locus_tag="FR773_26785"
                     /inference="COORDINATES: protein motif:HMM:NF016710.4"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MbeB family mobilization protein"
                     /protein_id="WP_172748097.1"
                     /translation="MSSLLTLAKDLEQKSKAQQQSTGEMLRAAFSEHEQSVRAELSASA
                     KRISDDIRAHEQSMNSAMEKNRRSVLRTAGRTWLTILMTSALLIATSGGVLWWQGHQIT
                     DNYTAIRQQEDTLKKLTVRTWGVRYQESSDGRKFLILPPGMQSEAIPYDGTTWIRLKQE
                     "
                     /name="MbeB family mobilization protein"
     gene            1012..1227
                     /locus_tag="FR773_RS26785"
                     /old_locus_tag="FR773_26790"
     CDS             1012..1227
                     /locus_tag="FR773_RS26785"
                     /old_locus_tag="FR773_26790"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000137422.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MbeD family mobilization/exclusion protein"
                     /protein_id="WP_172748098.1"
                     /translation="MTELEKQLLSALEQLQQDYSQRLDEWESAFAEWRRMSGLMQRENA
                     MLSERVTDLSEQVQSLSEQLRRLYGS"
                     /name="MbeD family mobilization/exclusion protein"
     gene            complement(2003..2485)
                     /locus_tag="FR773_RS27370"
     CDS             complement(2003..2485)
                     /locus_tag="FR773_RS27370"
                     /inference="COORDINATES: protein motif:HMM:TIGR02607.1"
                     /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="HigA family addiction module antitoxin"
                     /protein_id="WP_225988015.1"
                     /translation="MRTILRLVSGQKRLQISSGLDSNEHPKAYCFFCQYQTLAPCAMRT
                     LKDNKTFVLSNTKNIEEGMINLYDPVHPGEFIREMFMEPFEIPAAELADKLEVSQSTLS
                     RLLNGKTDLSYEMALRLSKVIGRSAESWVNMQAQFSLSKSRKALANELAHLHPMFP"
                     /name="HigA family addiction module antitoxin"
     gene            2634..2915
                     /locus_tag="FR773_RS26795"
                     /old_locus_tag="FR773_26800"
     CDS             2634..2915
                     /locus_tag="FR773_RS26795"
                     /old_locus_tag="FR773_26800"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000594459.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="type II toxin-antitoxin system RelE/ParE family
                     toxin"
                     /protein_id="WP_149287371.1"
                     /translation="MIKNIKHKGLRSFAEEGNTAGIQPSMAKRLRMILTTLSTATCIQD
                     IVDVKALRCHPLKGERKGEYSVEVNGNWRVVFKVEEPNVLDVDLEDYH"
                     /name="type II toxin-antitoxin system RelE/ParE family
                     toxin"
     gene            complement(3374..3520)
                     /locus_tag="FR773_RS27375"
                     /old_locus_tag="FR773_26805"
     CDS             complement(3374..3520)
                     /locus_tag="FR773_RS27375"
                     /old_locus_tag="FR773_26805"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001354639.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="replication initiation protein"
                     /protein_id="WP_172748099.1"
                     /translation="MHEPPVQSDYCAFSGNYRLESKPERHDKAPLAAATGKRVYKRLLM
                     QSS"
                     /name="replication initiation protein"
     gene            4191..4514
                     /locus_tag="FR773_RS26810"
                     /old_locus_tag="FR773_26815"
     CDS             4191..4514
                     /locus_tag="FR773_RS26810"
                     /old_locus_tag="FR773_26815"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000957083.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MobC family plasmid mobilization relaxosome
                     protein"
                     /protein_id="WP_202190168.1"
                     /translation="MLTMWVTEDEHRRLLERCDGKQLASWMRQTCLGEKPARAGKLPSI
                     SPALLLQLAGMGNNLNQIARRVNAGGGTGQDRVQIVAALMAIDAGLEQLRHAVLEKGSD
                     DDR"
                     /name="MobC family plasmid mobilization relaxosome protein"
     Typing          complement(3389..3768)
                     /name="rep_cluster_2335"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="95.026"
                     /coverage="82.0"
                     /evalue="1.3e-168"
     Typing          4..1325
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="82.619"
                     /coverage="99.0"
                     /evalue="0.0"
     Typing          4192..4508
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="90.566"
                     /coverage="99.0"
                     /evalue="1.0800000000000001e-58"
     Typing          4505..4677
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="94.828"
                     /coverage="97.0"
                     /evalue="1.74e-18"
ORIGIN
        1 ctttcgcgga ggccgacctg ccgcccgggc agcgtgaaaa actgatggcc agcttcgagc
       61 gggttctgat gcccggactc gataaggacc agtacagcgt gctgtgggtg gagcacaccg
      121 acaaggggcg tctggagctg aatttcctga tccccaatac cgagctgctg acgggaaaac
      181 gcctgcagcc gtactttgac cgcgccgacc ggccgcgcat cgatgcctgg cagacggtgg
      241 tcaacggccg gctggggtta catgacccga acgcgccgga gaaccggcgc gcactggtca
      301 cggcatcagc cctgccagaa acgaagcagg aagccgcaca ggccatcacg cagggattac
      361 tggccttggc ctcatccggg gagctgaaat cgcgccagga cgtcactgag gcgctggagc
      421 ggtcaggttt tgaggtggtg cgcaccacca gaagcagtat cagcattgcc gacccggacg
      481 gggggcgaaa catccgactg aagggggcca tctatgagca gtcttttaac gctggcgaag
      541 gacttagagc agaaatcgaa agcgcagcag cagagtaccg gcgagatgct gagagccgca
      601 ttcagcgagc acgagcagtc tgtcagggcg gaactgagcg caagcgcgaa gagaatcagc
      661 gacgacatcc gcgcccacga gcagagtatg aactcggcca tggagaagaa ccggcggagc
      721 gtgctgcgca cggccggccg gacatggctc accatcctga tgacctcggc gctgctgatc
      781 gcaacgagcg ggggcgtgct gtggtggcag ggccaccaga taaccgacaa ttacacggcc
      841 attcgccagc aggaggatac gctgaagaaa ctcaccgtcc ggacgtgggg ggtgcgctat
      901 caggagagca gcgacggccg gaaattcctt atcctgccgc cggggatgca atccgaagct
      961 atcccctacg acgggacgac ctggatccgc ctgaaacagg agtagcggaa aatgacagag
     1021 ctggaaaagc agttgctgag cgcattagag cagctacagc aggactactc gcaaaggctg
     1081 gacgaatggg agagcgcctt cgcggaatgg cggaggatgt ctgggcttat gcaacgggag
     1141 aacgcgatgc tgagcgagcg cgtgacggac ttgagcgagc aggtgcagag tttgagcgaa
     1201 cagctgcgcc gcttgtacgg gagctgactg ccgccgagcg ccggcaacgg gagcaggagc
     1261 atgaatatca gaaaacgctc gagctgcagc gccagccgca gaaaacctac aaaggaccaa
     1321 cgctgggctg acagatgccg gcccgtgaca aaccccaaga agaagggctc ttatctctcc
     1381 cgctaaatag gttcgtgatc aaaaaggtca cgacttatcg ggagtcagaa aatgaatgtc
     1441 ttaaaactgt tcgagcagct tcttaactgc ctgtatctgg cggcagagct gtgggagtgg
     1501 ctggagaagc atttgcctgt ttttaaggcg ttcgcgctga ttttagggtg actttaacat
     1561 ccaggcatct ggctgcatga ctatgcacca gtgtaatatt cagcggctgc gtttctggtg
     1621 ttttttcgtt atgtctgtcg ccactttctc gcgtctggca ccggaaacgc agccaacccc
     1681 ctttcagcgg tgcgggcaac ggatgttatg gtaaatcatc gactaactaa gggtcttagc
     1741 tttctcgatg ccagcagggg ttaaaacgcc agggaacact ctccgggacc tcacattacc
     1801 tgccaccact tttgtgactt gatagcagct tagcccctgt ccccatagtt tgttcagacc
     1861 gtcgaagttc tcagtcgcaa agcttataga tagagattcg ccggcttcgt gtaggcgtag
     1921 catttcgact aacagtgttt tttcgttcat tttgagcctc gtccagggac acaacaaaaa
     1981 gcccgcttta tgcgggcttt tctcatggaa acatcggatg caggtgagcc agctcgttcg
     2041 ctaaagcttt gcggcttttc gataggctga actgagcctg catatttacc cacgactctg
     2101 cagagcggcc tatgaccttg gatagtctta acgccatttc gtaacttaag tctgtttttc
     2161 catttaacag tctgctcaag gtagactgag acacttcaag tttatcagct aactctgcgg
     2221 caggtatttc gaacggttcc atgaacattt ctctgatgaa ttcaccagga tgcacaggat
     2281 cgtaaagatt tatcatgcct tcctctatgt tttttgtatt tgataataca aaagttttat
     2341 tgtctttcag cgtgcgcatt gcacaaggtg caagtgtctg atattgacaa aaaaagcagt
     2401 acgccttagg atgctcgttg gagtcaaggc cactgctgat ttgaagcctt ttctggccgc
     2461 ttacaaggcg cagtattgta cgcattgtat ttgttgaagt caattgaggt aattgacctc
     2521 caaaacaaac ttacgtcaat tgttttaata aagcaagggg acaaaatgga agttattaaa
     2581 atgattttaa attatagaag caggtatcga cgaaaaatgt atggagatca tcgatgataa
     2641 aaaacataaa acataaagga cttcggagtt ttgctgaaga aggtaacacc gccggtattc
     2701 agcccagtat ggcgaaaaga cttcgcatga ttttgactac gctaagcacc gcgacatgta
     2761 tacaagacat tgttgatgtg aaagcgctac ggtgtcatcc ccttaaaggg gagcgtaaag
     2821 gcgagtattc cgtggaagtt aacgggaact ggcgggtagt gttcaaggtt gaagaaccta
     2881 acgtcttaga cgtcgatctt gaagattacc actagcaacg aataagtaag ttactaatcc
     2941 atccaagtga aagtacggat ggattaggga ctttattaaa aaagtaacct ctggaggaag
     3001 tatgagagcc tttatggttt tattgttccc gctaataagc gtaactatcg caggaatcct
     3061 ggctttccgt ggtcttgatg ggtggggatg gttcttgttc gctgcacttt gctgtgctgg
     3121 agctgacact gtgcagaaac atgtctcgtc taataagaag gactcggcta gcgaatgagc
     3181 ccggaggggt tcttccttga ctgctttaaa ggataaagcg tatcttactg cctgaaacga
     3241 aaaaaccgcc tggggaggcg gttttttcga gggttcagta agttggggaa cttctgaacc
     3301 gtggtaacag ggtgtacaag accgctgaaa ccaaattctg tcctttcagt ttagccgtag
     3361 ttgggctgag acttcaagaa ctctgcatca gtaatctctt gtacaccctc ttaccagtgg
     3421 ctgctgccag tggcgctttg tcgtgtcttt ccggcttgga ctcaagtcga tagttaccgg
     3481 aaaaggcgca gtagtcggac tgaacggggg gttcgtgcat acagtccagc ttggagcgaa
     3541 ctgccttccc ggaaccgagt gtcaggcgtg gaatgagaaa ccgcggccat aacagcggaa
     3601 tgacaccggt acaccgaaag gcaggaacag gagagcgcac gagggagccg ccagggggaa
     3661 actcctggta tctttatagt cctgtcgggt ttcgccacca ctgatttgag cgtcagattt
     3721 tgtgatgctt gtcagggggg cggagcctat ggaaaaccgg caacgccggg atccttttcc
     3781 ggttccgctt tcttacgcac atcttctctt gccgcttatc ccctgaatct gtggataacg
     3841 tagcttcctc cccgggcttg ctggacccgc tcgccgcagc cgaacgaccg agcgtagcga
     3901 gtcagtgagc gaggaagcgg catgtctccg gcagtgcatc ttctgctgac gcatccgacc
     3961 ctgatttttc acctgcttta tgtggcagct atgcccggcg tttctgcggt gttacatttt
     4021 gagccagtat acactccgct agcgctacgt gactggttca gggctgcgcc ccgaaacccg
     4081 ccaaaaccac tgacgcgcct gcggcttgcc caacgccgcg ccgcccggga agcttttccc
     4141 gcacgtcccg gcgttatcag gaggccggtt tgtcagagaa acggaacaag atgctcacca
     4201 tgtgggtgac ggaggacgaa caccgccggc tgctcgaacg ctgcgacggg aagcaactgg
     4261 cttcctggat gcgtcagacg tgcctcggtg agaagccggc ccgcgccgga aaacttccct
     4321 cgatctcgcc ggcgttgctg ctacagcttg ccggcatggg caataacctg aaccagatag
     4381 cccgccgggt taacgccggc ggcggtaccg gccaggaccg ggtgcagatt gtcgcagcgc
     4441 tgatggcgat cgatgccggc ctcgagcagc tgcgccacgc ggttctggaa aaaggatcgg
     4501 acgatgatcg ttaaattcca cccgcgcggc cgcggcggtg gcgccgggcc ggtggattac
     4561 ctgctcggga aagatcggct gcgtgagggt gccagcgttc tgcagggacg gccggaagag
     4621 gtcagggagc ttatcgacgc ctcgccgtac gtgaagaaat acacctccgg ggtgctgt
//
