LOCUS       NZ_CP086226             5773 bp    DNA     circular CON 21-MAY-2024
DEFINITION  Escherichia coli strain 779 plasmid p779-6, complete sequence.
ACCESSION   NZ_CP086226
VERSION     NZ_CP086226.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN22826253
            Assembly: GCF_023024425.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 5773)
  AUTHORS   Bao,D., Xu,X., Wang,Y. and Zhu,F.
  TITLE     Emergence of a Multidrug-Resistant Escherichia coli Co-Carrying a
            New mcr-1.33 Variant and blaNDM-5 Genes Recovered from a Urinary
            Tract Infection
  JOURNAL   Infect Drug Resist 15, 1499-1503 (2022)
   PUBMED   35411158
  REMARK    Publication Status: Online-Only
REFERENCE   2  (bases 1 to 5773)
  AUTHORS   Bao,D.
  TITLE     Direct Submission
  JOURNAL   Submitted (01-NOV-2021) Department of Clinical Laboratory, Sanmen
            People's Hospital, Taihe Road, Taizhou, Zhejiang 317100, China
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: Unicycler v. 0.4.8
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 100.0x
            Sequencing Technology :: Oxford Nanopore GridION; Illumina HiSeq
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_023024425.1-RS_2024_05_21
            Annotation Date                   :: 05/21/2024 03:58:14
            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)                     :: 5,658
            CDSs (total)                      :: 5,531
            Genes (coding)                    :: 5,280
            CDSs (with protein)               :: 5,280
            Genes (RNA)                       :: 127
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 96
            ncRNAs                            :: 9
            Pseudo Genes (total)              :: 251
            CDSs (without protein)            :: 251
            Pseudo Genes (ambiguous residues) :: 0 of 251
            Pseudo Genes (frameshifted)       :: 87 of 251
            Pseudo Genes (incomplete)         :: 172 of 251
            Pseudo Genes (internal stop)      :: 48 of 251
            Pseudo Genes (multiple problems)  :: 49 of 251
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP086226.1.
            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..5773
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="779"
                     /isolation_source="urine"
                     /host="Homo sapiens"
                     /db_xref="taxon:562"
                     /plasmid="p779-6"
                     /geo_loc_name="China: Zhejiang"
                     /collection_date="2016-11-03"
                     /collected_by="Danni Bao"
     gene            complement(156..244)
                     /locus_tag="LMB17_RS28105"
                     /old_locus_tag="LMB17_28110"
     tRNA            complement(156..244)
                     /locus_tag="LMB17_RS28105"
                     /old_locus_tag="LMB17_28110"
                     /product="tRNA-Lys"
                     /inference="COORDINATES: profile:tRNAscan-SE:2.0.12"
                     /note="Derived by automated computational analysis using
                     gene prediction method: tRNAscan-SE."
                     /anticodon=(pos:complement(208..210),aa:Lys,seq:ctt)
                     /name="tRNA-Lys"
     gene            421..1311
                     /locus_tag="LMB17_RS28110"
                     /old_locus_tag="LMB17_28115"
     CDS             421..1311
                     /locus_tag="LMB17_RS28110"
                     /old_locus_tag="LMB17_28115"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_015376142.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_223045840.1"
                     /translation="MPDLEIMPLQSPDFYKKNKRAIYEGYKCNCTKDWKKEDRFVVYKA
                     DCTGIDEIINTEISDDNIDTVIKLAEKYTSDKIIISGGHTVVNLNDRFSVSNEVEKSAK
                     FCIDYIIKSTHELNIKPDFLMEINDFYMEKSNGEDIDGGNIYRKLATSPYIIPEVINNY
                     IIEKQNQHNIKINCFYVSEKNMADRFKRHIKRKEKEKPFFKENNSVFMNVDGSSFEVIK
                     NNKPTCAAGNAATFRSIRYKISSNKTFDNYTSHIGVFPLCSMANVINGYKAPASFYSNF
                     NLPCLLIFFGTSCFK"
                     /name="hypothetical protein"
     gene            1323..2456
                     /locus_tag="LMB17_RS28115"
                     /old_locus_tag="LMB17_28120"
     CDS             1323..2456
                     /locus_tag="LMB17_RS28115"
                     /old_locus_tag="LMB17_28120"
                     /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_123863911.1"
                     /translation="MKINSIQWPVTFFATSFGAGIFFLPQTVGPKVIGTHGTITILILS
                     SLASLLGQFTFYRFILITDKKEYVSSAILFIGKKAANAISIAFLLSMLLIAIINITTMI
                     NIICFSLSLNGSERIFVSLIISATLGSSFIFFNSKIEHLASGIAFPSLLIVLFLSIYFY
                     SHPAHPHSTEIQNISTSNLLTLFPVVLFSFNFSPCIQRFAQNKKDTAGDLRFFMFGILL
                     ILIFISFIVFSLSNIFSPSDIKNMREINSDALSYSANVTKNSFVAYISILTMILITSGA
                     YTGTLTGVVDTIVSLGFKNKTLIVFVVSVITFIAGEANFEIIKVIAALSTPIIAITVFI
                     IPSAFFLKTNCNSIFRKIMMTLNLLIGIGICFLAIIL"
                     /name="hypothetical protein"
     gene            complement(2850..3083)
                     /locus_tag="LMB17_RS28120"
                     /old_locus_tag="LMB17_28125"
     CDS             complement(2850..3083)
                     /locus_tag="LMB17_RS28120"
                     /old_locus_tag="LMB17_28125"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000137438.1"
                     /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_004026237.1"
                     /translation="MTELEIHLLNALEQLQQDYMQRLSEWESAFVELQKMFSLTQRDNA
                     MLNERVMQLSQQVQHLSEQTERLSQLYSENWR"
                     /name="MbeD family mobilization/exclusion protein"
     gene            complement(3090..3608)
                     /locus_tag="LMB17_RS28125"
                     /old_locus_tag="LMB17_28130"
     CDS             complement(3090..3608)
                     /locus_tag="LMB17_RS28125"
                     /old_locus_tag="LMB17_28130"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001447511.1"
                     /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_072665564.1"
                     /translation="MSNLLQTGAEFEKKLKERAESTEKMLNDEFRKLGESVSEAVTSNE
                     TKIRDAIALFTASTEKSLEKHREGVKEAMMQHRKDVLKLAGNTGMMLLGIVFLLFTTSG
                     GTLWYLGGRIQTNLEEIRKQEETLQKLNAKTWGVEFVQDGNRKFLVLPYGKSAEVIPFQ
                     GKEWVHLKE"
                     /name="MbeB family mobilization protein"
     gene            complement(<3646..4344)
                     /locus_tag="LMB17_RS28380"
                     /old_locus_tag="LMB17_28135"
                     /pseudo=""
     CDS             complement(<3646..4344)
                     /locus_tag="LMB17_RS28380"
                     /old_locus_tag="LMB17_28135"
                     /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(4286..4609)
                     /locus_tag="LMB17_RS28135"
                     /old_locus_tag="LMB17_28140"
     CDS             complement(4286..4609)
                     /locus_tag="LMB17_RS28135"
                     /old_locus_tag="LMB17_28140"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000956000.1"
                     /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_001430281.1"
                     /translation="MLTIRVTDDEHARLLERCEGKQLAVWMRRVCLGEPVARSGRLPTL
                     APPLLRQLAAIGNNLNQTARKVNSGQWSSGDRVQVVAALMAIGDELRRLRLAVREQGAR
                     DDS"
                     /name="MobC family plasmid mobilization relaxosome protein"
     gene            4673..4864
                     /locus_tag="LMB17_RS28140"
                     /old_locus_tag="LMB17_28145"
     CDS             4673..4864
                     /locus_tag="LMB17_RS28140"
                     /old_locus_tag="LMB17_28145"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000165985.1"
                     /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_100783622.1"
                     /translation="MTKQEKTALNMARFIRGQTLTLLEKLNELDADEQADICESLHDHA
                     DELYRSCLARFGDDGETL"
                     /name="Rop family plasmid primer RNA-binding protein"
     gene            5534..5692
                     /locus_tag="LMB17_RS28385"
     CDS             5534..5692
                     /locus_tag="LMB17_RS28385"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_005761324.1"
                     /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_072672540.1"
                     /translation="MHEPPVQPDRCALSGNYRLESNPVRHALTPLAAAIGNWTRWIEIL
                     RVLEVVA"
                     /name="replication initiation protein"
     Typing          complement(4950..5035)
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="8.58e-38"
     Typing          5048..5606
                     /name="rep_cluster_2350"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="93.929"
                     /coverage="100.0"
                     /evalue="0.0"
     Typing          complement(2747..4296)
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="96.374"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 ttgattccgg caaacgaacc accgttggta gcggtggttt ttttgtttac aggcagcaga
       61 ttacgcgcag aaaaaaagga tctcaagagg atcctttgat cttttttcaa aacccctctc
      121 aattcaacaa atggtggggg aaacgatcaa caaaatggcg gagagggtag gattcgaacc
      181 tacgatacgc ttgtcgcata tggcctcaag agagccctga cttagaccac tcgcccacct
      241 ctccacaaaa aacaatacat atttaacaaa taacatccaa gacactataa gagaaaaaat
      301 agagacgcat cacataaata aaggagacat caatgatcaa acactaacat gatctctatc
      361 attgatatgt ataagtcata attagcaaaa tattttcttt gtgacaaagg aagcataact
      421 atgccagacc tagaaataat gcccttacaa agtccagatt tttataaaaa aaacaaaaga
      481 gcaatatacg agggctataa atgtaattgt acaaaagact ggaaaaaaga agacagattt
      541 gttgtataca aagcagattg cacaggaatc gatgagataa taaacacaga aatatcagat
      601 gacaacatag atactgtaat aaaactagcc gaaaaataca catcagacaa gatcattata
      661 tctggtggac atactgttgt gaatttgaat gaccgttttt cagttagtaa tgaagttgaa
      721 aaatcggcta aattttgcat tgactacata ataaaatcaa cacatgagct aaatataaaa
      781 cctgatttcc tcatggaaat aaatgatttc tacatggaaa aatcaaatgg cgaagatatc
      841 gatggtggta atatttatag aaaactagcc acatcaccct atataatacc agaagtaata
      901 aataactata ttatagagaa acagaatcag cataatataa aaataaattg tttctatgtt
      961 agtgaaaaaa acatggcaga tcgttttaaa cgacacatta aaagaaaaga aaaagaaaag
     1021 ccatttttta aagaaaacaa ctctgttttt atgaatgtcg atggttcatc atttgaagtg
     1081 ataaaaaata acaaaccgac ttgtgcagca ggtaacgcag ctacatttcg ctcgattcga
     1141 tataaaattt catcgaacaa gacatttgac aattacacat cacacatagg tgtattccca
     1201 ttgtgctcaa tggctaatgt aattaatggc tataaagcac cagcatcttt ttatagtaat
     1261 tttaatcttc catgtttact tattttcttt ggaacatcat gcttcaaatg aaaggttcaa
     1321 aaatgaagat aaatagcatc caatggccag taacattctt tgcaacatca tttggggcag
     1381 ggattttttt cctaccccag actgtaggcc ccaaagtcat aggaactcac ggaacaataa
     1441 caatactgat tttatcatct ttggcatctt tattagggca atttacattt tatagattca
     1501 ttttaattac agacaaaaaa gaatacgtta gttctgccat attatttatc ggaaaaaaag
     1561 ccgcaaatgc tatcagtatt gcattcctat tatcaatgct gttaatagca attataaaca
     1621 taacaacaat gataaatatt atttgcttta gcctaagtct aaatggttca gagcgaatat
     1681 ttgtgtcact gattatttct gcaacccttg gttcttcttt tatctttttt aattcaaaga
     1741 tagagcatct cgcatcagga atagcatttc catctttgct tattgtactg ttcttatcta
     1801 tatatttcta ttcacatcca gcacatccac attctacaga aatacaaaat attagtacaa
     1861 gtaatttact tactctattt ccagttgttt tatttagttt taatttttca ccatgtatac
     1921 aacgctttgc tcaaaacaaa aaagatacag ccggtgattt acgttttttc atgtttggga
     1981 tactattaat tttaatattt atctcattca tcgtgttctc attaagcaat atattctcac
     2041 cttcagacat aaaaaacatg cgcgagatta acagcgatgc attatcatat agcgccaacg
     2101 taacaaaaaa tagtttcgtt gcttacattt ccatattaac catgatttta attaccagcg
     2161 gtgcatatac aggtacacta acaggcgttg ttgatacaat agtatccctt ggatttaaaa
     2221 acaaaacatt aatcgttttt gtcgtatctg ttatcacatt tatagcaggc gaagccaatt
     2281 tcgaaattat aaaagttatt gctgcattat caaccccaat tatagcaata acagtattca
     2341 ttatcccatc agcattcttt ttaaaaacaa attgtaacag tatttttaga aaaataatga
     2401 tgacgttaaa cctgctcata ggtattggaa tatgcttcct agccatcata ttatgattat
     2461 tcctcaccca aatattctga cgagtttatc ttaatcgtca caaccaaatg tggaaaatgg
     2521 ggggatcatc caaaccattt aacataacaa caatattgta cgcaccgcta aaacgcgttc
     2581 agcgcgatca cggcagcaga caggtaaaaa tggcaacaaa ccacccgaaa aaatgccgcg
     2641 atcgcgcctg ataaatttta accgtatgaa tacctatgca accagatggt acaggccaca
     2701 ttccccccac ttaatccact gaagctgcca tttttcatgg tttcaccatc ccagcgaagg
     2761 gccatccagc gtgcgttcct gtatttccgg ctgacgctcc cgttccaggg ataacacatg
     2821 ttcgcgctcc tgtatcaacc gttcctctct tatctccagt tctcgctgta taactggctc
     2881 aagcgttctg tctgctcgct caagtgctgc acctgctgac tcaactgcat gacccgctcg
     2941 ttcagcatcg cgttgtcccg ttgcgtaagc gaaaacatct tctgcaattc cacgaaggcg
     3001 ctctcccatt cgctcagccg ctgcatatag tcctgttgca gctgctctaa ggcgttcagc
     3061 aaatgtattt ccagctctgt cactctgtgt cactccttca gatgtaccca ctctttcccc
     3121 tgaaagggaa tcacctccgc tgatttcccg tacggaagga caaggaattt cctgttcccg
     3181 tcctgcacaa actccacgcc ccatgtcttc gcgttcagtt tctgcaatgt ctcttcctgc
     3241 ttcctgattt cttccaggtt cgtctgtatc cgtccgccaa gataccagag cgtcccgcca
     3301 ctcgtggtaa acaggagaaa gactatcccc agtaacatca tgcccgtatt ccctgccagc
     3361 tttaacacgt ccttcctgtg ctgcatcatc gcctctttca ccccttcccg gtgtttttcc
     3421 agcgatttct ctgtcgaggc tgtgaacagg gctatagcgt ctctgatttt cgtctcgttt
     3481 gaggtcacag cctcgctgac agactcgccg agcttcctga actcgtcgtt cagcattttc
     3541 tctgtagatt cggctctctc tttcagcttt ttctcgaact ccgcgcccgt ctgtaaaaga
     3601 ttgctcataa aatgctcctt tcagcctgat attcctcccg ccgttcgggt ctgcaatgct
     3661 gatactgctt cgcgtcaccc tgaccacttc aagccccgcc tctgtgagcg cctgaatcac
     3721 atcctgacgg ccttttatct ctccggcatg gtaaagtgcg tctataccgc gtgtaacgct
     3781 ctcagcaagt gcctgtttcg tttccggcag gttatcagga agggtcagcg tccggcggtt
     3841 ctccggggcg ttggggtcat gcagtccgta atggtgattc accagcgtct gccaggcatc
     3901 aattctcggc ctgtctgcgc ggtcgtagta cggctggagg cgttttccgg tctgtagctc
     3961 catgttcgga atgacaaaat tcagctcaag ccgtcccttg tcctggtgct ccacccacag
     4021 gatgctgtac tgattttttt cgagaccggg catcagtaca cgctcaaagc tcgccatcac
     4081 tttttcacgt cctcccggcg gcagttcctt ctccgcgaac gacagaacac cggacgtgta
     4141 tttcttcgca aatggcgtgg catcgatgag ttcccggact tcttccggat taccctgaag
     4201 caccgttgcg ccttcgcgat tacgctccct ccccagcagg taatcaaccg gaccactgcc
     4261 accacctttt cccctggcat gaaatttaac tatcatcccg cgccccctgt tccctgacgg
     4321 ccagacgcag ccggcgcagc tcatccccga tggccatcag tgcggccacc acctgaaccc
     4381 ggtcaccgga agaccactgc ccgctgttca ccttacgggc tgtctgattc aggttatttc
     4441 cgatggcggc cagctgacgc agtaacggcg gtgccagtgt cggcagcctc ccggaacggg
     4501 caaccggctc ccccaggcag acccgccgca tccataccgc cagttgttta ccctcacagc
     4561 gttcaagtaa ccgggcatgt tcatcatcag taacccgtat cgtgagcatc ctctcgcgtt
     4621 tcatcggtat cattacccca tgaacagaaa tcccccttac acggaggcat cagtgactaa
     4681 acaggaaaaa accgccctta acatggcgcg cttcatcaga ggccagacat taacgctgct
     4741 ggagaagctc aacgaactgg acgcggatga acaggcagat atctgtgaat cgcttcacga
     4801 ccacgccgat gagctttacc gcagctgcct tgcacgcttc ggggatgacg gtgaaaccct
     4861 ctgacacaag cagcttccgg agacgctcac agcttgcctg tgagtggatg ccgggagcag
     4921 acaagccctc cagggcgcgt cagcaggttt tagcgggtgt cggggcgcag ccatgaccca
     4981 gtcacgtagc gatagcggag tgtatactgg cttaactatg cggcatcagt gcagattgta
     5041 tgaaaagtgc ctcatgccgg gtgtgaaatt ccgcacagat gcgtaaggag aaaatgcgcg
     5101 tccaggcgct tttccgcttc ctcgctcact gactcgctac gctcggtcgt tcgactgcgg
     5161 cgagcggtgt cagctcactc aaaggcgata atacgattat ccacagaatc aggggataac
     5221 gccggaaaga acatgtgagc aaaaagcaaa gcaccggaac aagccagcgc cgatgccgtt
     5281 tttccatagg ctccgccccc ctgacgagca tcacaaaaat cgacgctcaa gtcagaggtg
     5341 gcgaaacccg acaggactat aaagatacca ggcgtttccc cctggaagct ccctcgtgcg
     5401 ctctcctgtt ccgaccctgc cgcttaccgg atacctgtcc gcctttctcc cttcgggaag
     5461 cgtggcgctt tctcatagct cacgctgttg gtatctcagt tcggtgtagg tcgttcgctc
     5521 caagctgggc tgtgtgcacg aaccccccgt tcagcccgac cgctgcgcct tatccggtaa
     5581 ctatcgtctt gagtccaacc cggtaagaca cgccttaacg ccactggcag cagccattgg
     5641 taactggaca aggtggattg agatattaag agttcttgaa gtggtggcct aactgaggct
     5701 acactagaag gacagtattt ggtatctgcg ctccaccaag ccagttacct tcgggaaaaa
     5761 gagttggtag ctc
//
