LOCUS       NZ_CP040890             5065 bp    DNA     circular CON 26-JAN-2024
DEFINITION  Leclercia adecarboxylata strain Z96-1 plasmid pZ96-1_6, complete
            sequence.
ACCESSION   NZ_CP040890
VERSION     NZ_CP040890.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN11950933
            Assembly: GCF_006171285.1
KEYWORDS    RefSeq.
SOURCE      Leclercia adecarboxylata
  ORGANISM  Leclercia adecarboxylata
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Leclercia.
REFERENCE   1  (bases 1 to 5065)
  AUTHORS   Sun,Q., Wang,H., Shu,L., Dong,N., Yang,F., Zhou,H., Chen,S. and
            Zhang,R.
  TITLE     Intestinal colonization of mcr-4.6 and blaIMP-4 bearing Leclercia
            adcarboxglata in an inpatient in China
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 5065)
  AUTHORS   Sun,Q., Wang,H., Shu,L., Dong,N., Yang,F., Zhou,H., Chen,S. and
            Zhang,R.
  TITLE     Direct Submission
  JOURNAL   Submitted (05-JUN-2019) Clinical Laboratory, Second Affiliated
            Hospital of Zhejiang University, School of Medicine, 88 Jiefang
            Road, Hangzhou, Zhejiang 310009, China
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: Unicycler v. 0.3.9
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 100.0x
            Sequencing Technology             :: Oxford Nanopore MiniION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 01/24/2024 14:18:00
            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)                     :: 5,565
            CDSs (total)                      :: 5,444
            Genes (coding)                    :: 5,267
            CDSs (with protein)               :: 5,267
            Genes (RNA)                       :: 121
            rRNAs                             :: 9, 8, 8 (5S, 16S, 23S)
            complete rRNAs                    :: 9, 8, 8 (5S, 16S, 23S)
            tRNAs                             :: 88
            ncRNAs                            :: 8
            Pseudo Genes (total)              :: 177
            CDSs (without protein)            :: 177
            Pseudo Genes (ambiguous residues) :: 0 of 177
            Pseudo Genes (frameshifted)       :: 74 of 177
            Pseudo Genes (incomplete)         :: 106 of 177
            Pseudo Genes (internal stop)      :: 31 of 177
            Pseudo Genes (multiple problems)  :: 31 of 177
            Pseudo Genes (short protein)      :: 1 of 177
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP040890.1.
            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..5065
                     /organism="Leclercia adecarboxylata"
                     /mol_type="genomic DNA"
                     /strain="Z96-1"
                     /isolation_source="stool"
                     /host="Homo sapiens"
                     /db_xref="taxon:83655"
                     /plasmid="pZ96-1_6"
                     /geo_loc_name="China: Hangzhou"
                     /collection_date="2018-11"
     gene            complement(4..1179)
                     /locus_tag="FHN83_RS26185"
                     /old_locus_tag="FHN83_26185"
     CDS             complement(4..1179)
                     /locus_tag="FHN83_RS26185"
                     /old_locus_tag="FHN83_26185"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_011217640.1"
                     /GO_function="GO:0005525 - GTP binding [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="GTPase"
                     /protein_id="WP_114447050.1"
                     /translation="MASSYEDFLGDSYDYNSQTFDADKAKQEAEEKKERFNIILFGATG
                     VGKSSLVNAVFGEEIVKSGVGKPVTQHLSKIKVPKKGMVLWDTKGIESKDYEETINQLK
                     KEIKSSFDNYSHLDDVPHLGWMCIDASGARVEPRDIELIGILKEYDIPIVIVFTKTLED
                     DTDEFVREAINEIDSHHGSYVSGNYVCVNSRERKIGKFTVPVSGLDELVDSSFKCLPEA
                     KRGAKQALKKAQMVKMGERLEAMKSGARNIVHGASAAAGAVGASPIPGSDAPLIAAVQS
                     GMIYKINSEFELDTSTSTTTSVVAGILGITAVAQVGKAVVSNALKFIPGVGSLIGGAIS
                     AATAVALTQAVGHAYIQVLVSYYNKETGIVELPESTTSILSVFKEHFSFKK"
                     /name="GTPase"
     gene            complement(1182..2084)
                     /locus_tag="FHN83_RS26190"
                     /old_locus_tag="FHN83_26190"
     CDS             complement(1182..2084)
                     /locus_tag="FHN83_RS26190"
                     /old_locus_tag="FHN83_26190"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001517860.1"
                     /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_139565497.1"
                     /translation="MHNAALTLFNDRLPHKPYFSDDLHFGVRIAGKERAILAKYIQFNQ
                     PHAMFWLGFDVDRAGAAIDWSDRNAPAPTLTITNPDNGHAHLLYALKTSIRTAPDGKIK
                     PLRYAAAVENALRKKLEADAGYSGLICKNPNHGHWKIAVWQPELYTLDWLADFLDLNAA
                     NDKEIVADYGLGRNCTLFDRTRKWAYRAIRQGWPEYDQWLQACYERASAYNLQFAAPLD
                     DNEVNGIAKSIAKWTSIKITESSFKEYVEKTHTSDIQSLRGKKSKGGGRPFNPESLTSK
                     KPWLSMGISRSTYYRQLKR"
                     /name="replication initiation protein"
     gene            complement(2278..2562)
                     /gene="nadS"
                     /locus_tag="FHN83_RS26195"
                     /old_locus_tag="FHN83_26195"
     CDS             complement(2278..2562)
                     /gene="nadS"
                     /locus_tag="FHN83_RS26195"
                     /old_locus_tag="FHN83_26195"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000007431.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="NadS family protein"
                     /protein_id="WP_001697687.1"
                     /translation="MSFFDELKASLEEAVEIKNGVREPARVTRYELADVKAIRAQLNVS
                     QSEMAKVLGTSLDTIKSWETGRRNPTGLAAKVLATIQANPKFFQELAAH"
                     /name="nadS"
     gene            complement(2564..2896)
                     /locus_tag="FHN83_RS26200"
                     /old_locus_tag="FHN83_26200"
     CDS             complement(2564..2896)
                     /locus_tag="FHN83_RS26200"
                     /old_locus_tag="FHN83_26200"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_015873600.1"
                     /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_001715142.1"
                     /translation="MSHTIEFIETPMFTRQIKQIATDEELRELQKTLIESPDKGDLIQK
                     TGGLRKVRMATGNQGKSGSARVIYFLATAEVIYLVMAYPKSTKDSLTDAEKAALKTLTQ
                     QLKDEV"
                     /name="type II toxin-antitoxin system RelE/ParE family
                     toxin"
     gene            complement(3052..3330)
                     /locus_tag="FHN83_RS26205"
                     /old_locus_tag="FHN83_26205"
     CDS             complement(3052..3330)
                     /locus_tag="FHN83_RS26205"
                     /old_locus_tag="FHN83_26205"
                     /inference="COORDINATES: protein motif:HMM:NF016769.4"
                     /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_327062116.1"
                     /translation="MKRHSMFLTPRMTKTMTEMEKQLLSALESLQAGYEQQQQAWQDSY
                     SSLQHMFEATSQALTHSDRVCQHLSSQVDSLRAQVESLSRNVSRLMR"
                     /name="MbeD family mobilization/exclusion protein"
     gene            complement(3346..3831)
                     /locus_tag="FHN83_RS26210"
                     /old_locus_tag="FHN83_26210"
     CDS             complement(3346..3831)
                     /locus_tag="FHN83_RS26210"
                     /old_locus_tag="FHN83_26210"
                     /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_139565498.1"
                     /translation="MSEILNLAKGFEEKSKQQAQDTEQSVKREFARLETSISAELQSSA
                     QSISNAIREQNGRLTGMLRKSVSTAMAWIFICFALLIGIMGGIIWFQGTIITSRLSEMD
                     SYSQQLASLKAKSGAGVTIYSDEKNRNTYLAVLPKQAHGVETYTSQAGNTVVKYTAK"
                     /name="MbeB family mobilization protein"
     gene            complement(<3878..4300)
                     /locus_tag="FHN83_RS28740"
                     /pseudo=""
     CDS             complement(<3878..4300)
                     /locus_tag="FHN83_RS28740"
                     /inference="COORDINATES: protein motif:HMM:NF015397.4"
                     /note="incomplete; partial in the middle of a contig;
                     missing C-terminus; Derived by automated computational
                     analysis using gene prediction method: Protein Homology."
                     /pseudo=""
                     /codon_start=1
                     /transl_table=11
                     /product="relaxase/mobilization nuclease domain-containing
                     protein"
                     /name="relaxase/mobilization nuclease domain-containing
                     protein"
     gene            complement(4509..4835)
                     /locus_tag="FHN83_RS26220"
                     /old_locus_tag="FHN83_26220"
     CDS             complement(4509..4835)
                     /locus_tag="FHN83_RS26220"
                     /old_locus_tag="FHN83_26220"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_006674374.1"
                     /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_114505637.1"
                     /translation="MEKRTKEIKIRLTETEHQRLLDRCDRAHLAEWLRQLGLGEHTSRR
                     RRVPEVAPELLRQVSGIGNNLNQIARRLNQTDSLTPSERASLLVVLTSLDRQLGDLLEQ
                     NRDR"
                     /name="MobC family plasmid mobilization relaxosome protein"
     Typing          4510..4701
                     /name="Col(Ye4449)"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="80.412"
                     /coverage="99.0"
                     /evalue="6.72e-33"
     Typing          complement(2961..4519)
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="92.529"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 acgctatttt ttgaaggaaa aatgctcttt aaagacagag agtattgaag tggtactttc
       61 cggcaactcg acgatcccgg tttctttgtt gtagtaggaa accagaactt ggatgtaagc
      121 atgacctacg gcttgggtaa gagctacagc agtagctgca gaaatggcac caccaataag
      181 ggaacctaca ccaggaataa attttaacgc attagaaaca acagccttac ctacttgagc
      241 aacagctgta ataccaagaa tgcctgctac aacagatgta gttgttgatg tagatgtgtc
      301 caattcaaac tcagagttta ttttatatat cattccactt tgtacagctg caattaacgg
      361 cgcatcagac cccggaatag gagaagctcc gacagctcca gctgctgctg acgctccatg
      421 aacgatgttt ctcgcgccac ttttcatggc ttcaagccgt tctcccatct taaccatttg
      481 agcctttttt aaggcttgct ttgcacctct cttagcttct ggaagacatt taaaactcga
      541 gtcaactaac tcatccaaac cacttactgg aacagtaaac ttccctattt ttctttctct
      601 tgaattaaca caaacatagt taccagaaac ataacttcca tgatggctat caatttcatt
      661 gatagcctcg cgaacaaatt catcagtgtc atcttcaaga gttttagtga atacaattac
      721 aataggtatg tcatattctt ttaatatccc gataagctct atatctcttg gttcaactct
      781 ggcgccagaa gcatcaatgc acatccaacc aaggtgagga acatcatcca agtgtgagta
      841 gttatcaaag ctagatttaa tttctttttt taattgattt attgtttctt cataatcttt
      901 agattcaatc cctttagtgt cccataatac cattcctttt ttgggaactt taattttact
      961 cagatgctga gtaactggtt tacccactcc agacttgact atttcctccc caaaaacagc
     1021 attaactaag gagcttttcc caacgccagt ggcaccgaac aatataatat taaatctttc
     1081 ttttttttct tctgcttcct gttttgcttt gtcagcatcg aaagtttgtg agttgtagtc
     1141 ataagaatcg cctaaaaagt cttcataaga actagccata gttacctctt taattgtcga
     1201 taatacgtgc ttctacttat ccccatgctt agccatggtt tttttgatgt taaggactca
     1261 ggattaaaag gtcgtccacc acctttactc tttttacccc gtaaagactg gatatcggat
     1321 gtatgtgttt tttctacata ctctttaaaa gatgattctg ttatttttat actcgtccac
     1381 ttagcaatgc ttttagcaat accgttcacc tcattatcat ccagtggtgc tgcaaattgc
     1441 aggttatagg cactggcgcg ttcgtagcag gcttgaagcc actggtcata ctcaggccag
     1501 ccctgacgga tagcgcggta tgcccacttg cgggttctgt cgaacagggt gcagttacgg
     1561 cctaaaccgt agtcagcaac gatttctttg tcgttcgccg cattcaggtc gagaaagtca
     1621 gccagccagt ccagcgtgta aagttcaggt tgccatacgg caattttcca gtggccgtgg
     1681 ttcggatttt tgcagattag ccccgaatac cccgcgtcag cctctaattt tttgcgtagc
     1741 gcgttctcaa cggcggcggc gtagcgcaat ggctttattt ttccgtccgg tgcggtgcgt
     1801 atcgaggttt tcaacgcgta cagcaggtgc gcatgtccgt tgtcggggtt ggtgatggtc
     1861 aacgtaggcg cgggggcgtt gcgatcgctc cagtcgatgg cggcaccggc gcgatcgacg
     1921 tcgaatccca gccagaacat ggcgtgaggc tgattaaact ggatgtattt cgccagaatg
     1981 gcgcgttcct taccggcaat ccgtacacca aaatgcagat cgtccgaaaa gtacggcttg
     2041 tgcggtaagc ggtcgttgaa gagtgtgagt gcggcgttat gcaatgcgcc ctgcgcttat
     2101 ggcgggctgt tgtctggcac gtttcatgtg ctaatatcct ttcaaggttt cgtacctggc
     2161 cctggttatc atgcggatcc gccaagattt gagcatgatg ccggggcttt gttttttctg
     2221 ttgccgttaa attacacgcg aacggcctcg cctgtcgaat ccttctgtca caacggctta
     2281 gtgcgccgcc agctcctgga agaatttcgg gttcgcctgg atggttgcca gcaccttcgc
     2341 cgccagtccg gtcggattac ggcgtccggt ttcccagctt tttatggtgt cgaggctggt
     2401 tcccagcact ttcgccatct cactctgtga aacgttcagt tgtgccctga tagccttcac
     2461 gtctgccagc tcgtaacggg tgacgcgggc aggctctctg acgccgtttt tgatttcaac
     2521 ggcttcttcc agcgatgctt tcagctcgtc aaaaaaactc atgtcacacc tcgtctttca
     2581 gttgttgggt cagcgtcttc agcgcggctt tctccgcgtc cgtcaggctg tctttggtgc
     2641 ttttcgggta ggccatcacc agataaatca cctcggcggt ggccagaaaa taaatcaccc
     2701 tcgcgctgcc gctttttccc tggttgcccg tcgccattct gacttttcgc agcccgccgg
     2761 ttttctggat gagatcgcct ttgtccggcg actcaatcag cgtcttttgc agctccctga
     2821 gctcttcatc cgtggcgatc tgttttatct gacgggtaaa catcggggtc tcgataaatt
     2881 caatcgtgtg actcacggtt gtctcctgta tttaacggag tacatagtac acttaattct
     2941 gattccggaa aagaggtcac atcgaggggc catagtaccg ggtcggcttt ttctgcggct
     3001 ccggctgttg ctcgcgcagc ttttccgcac gggcgcggtc atgctgcgca atcagcgcat
     3061 caagcggctg acgttcctgc tcaagctctc gacctgcgcg cgcaagctgt ccacctgact
     3121 gctcaagtgc tgacacaccc ggtcgctgtg cgtcagcgcc tgtgaggtag cctcgaacat
     3181 gtgctgcaaa ctgctgtagc tgtcctgcca cgcctgctgc tgttgctcgt agcctgcctg
     3241 taagctctct aaggcgctca gaagctgttt ttccatctcg gtcatggttt tggtcatcct
     3301 cggtgttaaa aacatgctgt ggcgtttcat ggcgctctga tgaggttatt tcgccgtgta
     3361 tttcaccacg gtattcccgg cctgcgaggt gtaggtttcc acgccgtgcg cctgcttcgg
     3421 cagcaccgcc aggtaggtgt tccggttctt ttcgtcgctg taaatcgtca cgcccgcgcc
     3481 gcttttcgct ttcaggctcg ccagctgctg gctgtagctg tccatctcgc tcaggcgtga
     3541 ggtgatgatc gtgccctgaa accagattat cccgcccatg atgccgatca gcagggcgaa
     3601 gcagatgaat atccacgcca ttgctgttga gactgacttc ctgagcatgc ccgtcagcct
     3661 gccgttctgc tcgcggatag cgttgctgat gctctgcgcg cttgattgca gttccgcgct
     3721 gatagacgtc tccagcctcg cgaactcgcg cttcacgctc tgctcggtat cctgcgcctg
     3781 ctgcttcgat ttctcctcga agcccttcgc caaatttaaa atctcgctca tagatcattc
     3841 ctttcagccg gatatttcgg ccgccgtccg gatcggcaat gctgatactg cttttagttt
     3901 cccgcgccac ggtcaggccg tagctttcca gctgcgtcac cacgtcctgc cggctgcgga
     3961 tcacgccctg ctgcatcagg ttcatcaggc cggcggtgat tttctctgcc gcctgctgtt
     4021 tgtcgcgggg cagatcactg gcctgcgtca gcgggcggcg gtaagtcggg tcgttcgggt
     4081 cgcgcagccc cagtcggtcg ttggtcaggg tctgccaggc attgacacgg gggcggtcag
     4141 cgcggtcaaa gtagggttgc aggcgtttgc cgctctgcaa ttcgatgttc gggatgacaa
     4201 aattcagctc aagccgtccc ttgtcgcggt gctccaccca caggcaggtg tactggtcgc
     4261 ggtcgaggcc ggtcagcagc gtgtgctccc attcatccat caggcgcgat ttctccgcgt
     4321 ctgcaatgtc aggttcctgg aatgacagca cgccggaggt gtaggcgcgg gcaaagtcgc
     4381 agccgtcgat cagttcgcgc acatgttcag ggttgccgcg cagtacgctg gcctgttcgc
     4441 gctgccggtc tttacccagc aggtaatcca ccggaccact gccggaaccc gcaccgcgtg
     4501 agtgaatttt aacgatcacg gttctgctcc agcaggtcgc caagctgccg gtcaaggctg
     4561 gtcagtacga caagcagcga ggcacgttca gacggcgtca gggaatcagt ctggttcagg
     4621 cggcgggcta tctggttcag gttgttgcca atcccgctga cctgtcgcag cagttcgggc
     4681 gcaacctctg gcacacggcg cctgcgtgag gtgtgttctc ccaaaccaag ctgacgcagc
     4741 cactccgcaa gatgagcccg gtcgcagcga tcaagcagtc gctgatgctc agtttcagta
     4801 agacggattt tgatctcttt cgttcgcttt tccataggct ccgctgagaa aaaattcgca
     4861 ccaccgtgag aatttttcgc agtggatgcc aggggtttcg gggggcggcg agccccctga
     4921 accagtcacg gtggcacctc gctagagggg acgctgtgtg tactggctta aagagtaatg
     4981 cagtatgtca gattctgtgc tgactgcaaa aaaaaaagcc ccgcttatac ggggctgtta
     5041 tctgatatag gttgttattg tctca
//
