LOCUS       NZ_CP018114             5310 bp    DNA     circular CON 12-JUN-2024
DEFINITION  Escherichia coli strain MRSN346595 plasmid pMRSN346595_5.3, complete
            sequence.
ACCESSION   NZ_CP018114
VERSION     NZ_CP018114.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN06029894
            Assembly: GCF_001886755.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 5310)
  AUTHORS   Snesrud,E., Ong,A.C., Corey,B., Kwak,Y.I., Clifford,R., Gleeson,T.,
            Wood,S., Whitman,T.J., Lesho,E.P., Hinkle,M. and Mc Gann,P.
  TITLE     Analysis of Serial Isolates of mcr-1 positive Escheriichia coli
            Reveals a Highly Active ISApl1 Transposon
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 5310)
  AUTHORS   Snesrud,E., Ong,A.C., Corey,B., Kwak,Y.I., Clifford,R., Gleeson,T.,
            Wood,S., Whitman,T.J., Lesho,E.P., Hinkle,M. and Mc Gann,P.
  TITLE     Direct Submission
  JOURNAL   Submitted (18-NOV-2016) Multidrug Resistant Organism Repository and
            Surveillance Network, Walter Reed Army Institute of Research, 503
            Robert Grant Ave., Silver Spring, MD 20910, USA
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: HGAP v. 2.0
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 300.0x
            Sequencing Technology             :: PacBio; Illumina MiSeq
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_001886755.1-RS_2024_06_12
            Annotation Date                   :: 06/12/2024 04:09:30
            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)                     :: 5,033
            CDSs (total)                      :: 4,909
            Genes (coding)                    :: 4,659
            CDSs (with protein)               :: 4,659
            Genes (RNA)                       :: 124
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 89
            ncRNAs                            :: 13
            Pseudo Genes (total)              :: 250
            CDSs (without protein)            :: 250
            Pseudo Genes (ambiguous residues) :: 0 of 250
            Pseudo Genes (frameshifted)       :: 77 of 250
            Pseudo Genes (incomplete)         :: 178 of 250
            Pseudo Genes (internal stop)      :: 47 of 250
            Pseudo Genes (multiple problems)  :: 47 of 250
            CRISPR Arrays                     :: 1
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP018114.1.
            Bacteria and source DNA available from WAIR.
            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..5310
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="MRSN346595"
                     /isolation_source="Clinical"
                     /host="Homo sapiens"
                     /db_xref="taxon:562"
                     /plasmid="pMRSN346595_5.3"
                     /geo_loc_name="USA"
                     /collection_date="2016-07"
                     /collected_by="MRSN"
     gene            complement(join(5077..5310,1..297))
                     /locus_tag="BSG21_RS27930"
                     /old_locus_tag="BSG21_25420"
     CDS             complement(join(5077..5310,1..297))
                     /locus_tag="BSG21_RS27930"
                     /old_locus_tag="BSG21_25420"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001673158.1"
                     /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_001673158.1"
                     /translation="MSNLLQTGAEFEKKLKERAESTEKMLNDEFRKLEESVNRELTSNE
                     SLIRNAINDHTTALKELLERYQKTTVDTMDAHWKTVLKMSVKRWLWLIIVSVLMFATTG
                     SLLWYQGMKINANMNILREQKESLEKLNAKTWGVRYHEDSNGRFLVLPKGMKAETNWTK
                     DNGKLNAVRLVQE"
                     /name="MbeB family mobilization protein"
     gene            complement(<335..1033)
                     /locus_tag="BSG21_RS29575"
                     /pseudo=""
     CDS             complement(<335..1033)
                     /locus_tag="BSG21_RS29575"
                     /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(975..1298)
                     /locus_tag="BSG21_RS27085"
                     /old_locus_tag="BSG21_25425"
     CDS             complement(975..1298)
                     /locus_tag="BSG21_RS27085"
                     /old_locus_tag="BSG21_25425"
                     /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_000955999.1"
                     /translation="MLTIRVTDDEHARLLERCEGKQLAVWMRRVCLGEPVARSGKLPTL
                     APPLLRQLAAIGNNLNQTARKVNSGQWSSGDRVQVVAALMAIGDELRRLRLAVREQGAR
                     DDS"
                     /name="MobC family plasmid mobilization relaxosome protein"
     gene            1363..1554
                     /locus_tag="BSG21_RS27090"
                     /old_locus_tag="BSG21_25430"
     CDS             1363..1554
                     /locus_tag="BSG21_RS27090"
                     /old_locus_tag="BSG21_25430"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000165975.1"
                     /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_000165975.1"
                     /translation="MTKQEKTALNMARFIRGQTLTLLEKLNELDADEQADICESLHDHA
                     DELYRSCLARFGDDGENR"
                     /name="Rop family plasmid primer RNA-binding protein"
     gene            <2739..>3011
                     /locus_tag="BSG21_RS27105"
                     /old_locus_tag="BSG21_25435"
                     /pseudo=""
     CDS             <2739..>3011
                     /locus_tag="BSG21_RS27105"
                     /old_locus_tag="BSG21_25435"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_021138877.1"
                     /note="incomplete; partial in the middle of a contig;
                     missing N-terminus and C-terminus; Derived by automated
                     computational analysis using gene prediction method:
                     Protein Homology."
                     /pseudo=""
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /name="hypothetical protein"
     gene            complement(3021..3836)
                     /locus_tag="BSG21_RS27110"
                     /old_locus_tag="BSG21_25440"
     CDS             complement(3021..3836)
                     /locus_tag="BSG21_RS27110"
                     /old_locus_tag="BSG21_25440"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_032492145.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="aminoglycoside O-phosphotransferase APH(3')-Ia"
                     /protein_id="WP_000018330.1"
                     /translation="MSHIQRETSCSRQRLNSNLDADLYGYKWARDNVGQSGATIYRLYG
                     KPDAPELFLKHGKGSVANDVTDEMVRLNWLTEFMPLPTIKHFIRTPDDAWLLTTAIPGK
                     TAFQVLEEYPDSGENIVDALAAFLRRLHSIPVCNCPFNSDRVFRLAQAQSRMNNGLVDA
                     SDFDDERNGWPVEQVWKEMHKLLPFSPDSVVTHGDFSLDNLIFDEGKLIGCIDVGRVGI
                     ADRYQDLAILWNCLGEFSPSLQKRLFQKYGIDNPDMNKLQFHLMLDEFF"
                     /name="aminoglycoside O-phosphotransferase APH(3')-Ia"
     gene            complement(<3982..>4077)
                     /locus_tag="BSG21_RS28885"
                     /pseudo=""
     CDS             complement(<3982..>4077)
                     /locus_tag="BSG21_RS28885"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_013356662.1"
                     /note="incomplete; partial in the middle of a contig;
                     missing N-terminus and C-terminus; Derived by automated
                     computational analysis using gene prediction method:
                     Protein Homology."
                     /pseudo=""
                     /codon_start=1
                     /transl_table=11
                     /product="amino acid ABC transporter substrate-binding
                     protein"
                     /name="amino acid ABC transporter substrate-binding
                     protein"
     gene            complement(4837..5070)
                     /locus_tag="BSG21_RS27945"
                     /old_locus_tag="BSG21_25455"
     CDS             complement(4837..5070)
                     /locus_tag="BSG21_RS27945"
                     /old_locus_tag="BSG21_25455"
                     /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_000137437.1"
                     /translation="MTELERHLLNALEQLQQDYMQRLNEWENAFVELQKMFSLTQRDNA
                     MLNGRVMQLSQQVQHLSERTERLSQLYSENRR"
                     /name="MbeD family mobilization/exclusion protein"
     ARG             complement(3025..3836)
                     /name="aph(3')-Ia"
                     /gene="aph(3')-Ia"
                     /gene_name="aminoglycoside O-phosphotransferase APH(3')-Ia"
                     /tool="amrfinderplus"
                     /drug_class="AMINOGLYCOSIDE"
                     /identity="100.0"
                     /coverage="100.0"
     Typing          complement(1649..1730)
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="1.3400000000000002e-35"
     Typing          complement(2187..2374)
                     /name="rep_cluster_2401"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="4.63e-94"
     Typing          complement(3..985)
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="99.0"
                     /evalue="0.0"
     Typing          complement(4734..5308)
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="99.0"
                     /evalue="2.59e-97"
ORIGIN
        1 catcagtact gagacgataa tcagccacag ccagcgtttc acgctcattt tcagtacggt
       61 tttccagtgc gcgtccatcg tatcgacggt cgttttctga tacctctcca gcagttcttt
      121 cagggctgtt gtatggtcgt tgatagcgtt cctgattaaa gattcgtttg aggtcagttc
      181 cctgtttaca gattcttcga gcttcctgaa ctcgtcgttc agcattttct ctgtagattc
      241 ggctctctct ttcagctttt tctcgaactc cgcgcccgtc tgtaaaagat tgctcataaa
      301 acgctccttt cagtctgata ttcctcccgc cgttcgggtc tgcaatgctg atactgcttc
      361 gcgtcaccct gaccacttca agccccgcct ctgtgagcgc ctgaatcaca tcctgacggc
      421 cttttatctc tccggcatgg taaagcgcgt ctatcccgcg tgtgacgccc tcagcaagcg
      481 cctgtttcgt ttccggcagg ttatcaggaa gggtcagcgt ccggcggttc tccggggcgt
      541 tggggtcatg cagaccgtaa tggtgattca ccagcgtctg ccaggcatca attctcggcc
      601 tgtctgcccg gtcgtagtac ggctggaggc gttttccggt ctgtagctcc atgttcggaa
      661 tgacaaaatt cagctcaagc cgtcccttgt cctggtgctc cacccacagg atgctgtact
      721 gatttttctc gagaccgggc atcagtacac gctcaaagct cgccatcact ttttcacgcc
      781 ctccaggcgg cagctccttc tccgcgaacg acagaacacc tgacgtgtat ttcttcgcaa
      841 atggcgtggc atcgatgagt tcccggacct cttccggatt cccctgaagc accgttgccc
      901 cttcccggtt acgctccctt cccagcaggt aatcaaccgg accactgcca ccaccttttc
      961 ccctggcatg aaacttaact atcatcccgc gccccctgtt ccctgaccgc cagacgcagc
     1021 cggcgcagct catccccgat ggccatcagt gcggccacca cctgaacccg gtcaccggaa
     1081 gaccactgcc cgctgttcac cttcctcgct gtctggttaa ggttattccc gatggcggcc
     1141 agctgacgca gtaacggcgg tgccagtgtc ggcagcttcc cggaacgggc aaccggctca
     1201 cccaggcaga cccgccgcat ccataccgcc agttgtttac cctcacagcg ttccagtaac
     1261 cgggcatgtt catcatcagt aacccgtatc gtgagcatcc tctcgcgttt catcggtatc
     1321 attaccccca tgaacagaac ccccccttac acggaggcat cagtgaccaa acaggaaaaa
     1381 accgccctta acatggcccg cttcatcaga ggccagacat taacgctgct ggagaagctc
     1441 aacgaactgg acgcggatga acaggcagac atctgtgaat cgcttcacga ccacgccgat
     1501 gagctttacc gcagttgcct cgcacgcttc ggggatgacg gtgaaaaccg ctgacacatg
     1561 cagctcccgg agacggtcac agcttgtctg tgagcggatg ccgggagcag acaagcccgc
     1621 cagggcgcgt caggccgttg acctttgggg tgtcggggcg aagccctgac ccagtcacgt
     1681 agcgatagcg gagtgtatac tggcttaacc attcggcatc agtgcggatt gtatgaaaag
     1741 tgcgccatgt ccggtgtgaa atgccgcaca gatgcgtaag gagaaaatgc cagttcaggc
     1801 gctcttccgc ttcctcgctc actgactcgc tacgctcggt cgttcggctg cggcgagcgg
     1861 actctccttt ctcaaaaacg ctaaccctgt tatccacaga acccggggat aaaccaggaa
     1921 agaacatgtg cgcaaaaaac gaaaccccgg gaaaggccgc gccggaggcg ctttttccat
     1981 aggctccgcc cccctgacgg acttcacaaa acagacactt tttcggtgca tctgtgggag
     2041 ccttgcggct caaccatgaa atccgccagc ggtggcgaaa cccgacgtgg cttaaagatc
     2101 atcaccgttt ccggtgaatc gctccctcct gcgcccccac gttcccgcca tatcgattac
     2161 cggatacctt ttccgccttt ctcccttacg ggacacgtgg cgctttctca tagctcacgt
     2221 cttctggtat ctcggggcga cttaggcagt tcgctccggg ctgggctgta tgcaggaacc
     2281 ccccgttcag cccgactgct gcgccttctc cggtaactgt tctcttgggt ccaacccgga
     2341 aaagacacca caaagcgcca ctggcagcag ccattggtaa aagtcatgtg cgagatattt
     2401 agagagtact tgaagtggct gccggagtgc ggctacacta gaagaacaat tttggtgact
     2461 cgtctcgcat aagacagtta cctggttaag cagtctgcaa gctgacttaa ccttcgatca
     2521 aaccgccctg caaggcggtt ttttcgttta caggcagcag attacgcgca gaaaaaaagg
     2581 atctcaagag gatcctttga tctttttgtt acaaacgtct ctatttgact cccctgagag
     2641 cgttttagcg cgcctctgac ccccttggtt acattccgac accagaaacg ctcccgtttt
     2701 ttacgtgcat ttggcacggt atcgatggag gctggggggc aatcctcgag gccgttatgc
     2761 cctgggacac cttcgccgcc agcgtcaccg aagcgcaaac attggcgcgg cctgccgact
     2821 ttgatttcct gcaccacatc ggtgaaagct atgccacgct acgccgctac gcgccgcagt
     2881 tcctgggcgt gctcaaattg cgggctgcgc ccgccgccaa gggtgtgctc gatgccatcg
     2941 acatgctgcg cggcatgaac agcgacagcg cgcgcaaggt gcccgccgat gcgccaaccg
     3001 cattcattaa agactaacta tcagaaaaac tcatcgagca tcaaatgaaa ctgcaattta
     3061 ttcatatcag gattatcaat accatatttt tgaaaaagcc gtttctgtaa tgaaggagaa
     3121 aattcaccga ggcagttcca tagaatggca agatcctggt atcggtctgc gattccgact
     3181 cgtccaacat caatacaacc tattaatttc ccctcgtcaa aaataagatt atcaagtgag
     3241 aaatcaccat gagtgacgac tgaatccggt gagaatggca aaagcttatg catttctttc
     3301 cagacttgtt caacaggcca gccattacgc tcatcatcaa aatcactcgc atcaaccaaa
     3361 ccgttattca ttcgtgattg cgcctgagcg agacgaaata cgcgatcgct gttaaaagga
     3421 caattacaaa caggaatcga atgcaaccgg cgcaggaacg ctgccagcgc atcaacaata
     3481 ttttcacctg aatcaggata ttcttctaat acctggaatg ctgttttccc ggggatcgca
     3541 gtggtgagta accatgcatc atcaggagta cggataaaat gcttgatggt cggaagaggc
     3601 ataaattccg tcagccagtt tagtctgacc atctcatctg taacatcatt ggcaacgcta
     3661 cctttgccat gtttcagaaa caactctggc gcatcgggct tcccatacaa tcgatagatt
     3721 gtcgcacctg attgcccgac attatcgcga gcccatttat acccatataa atcagcatcc
     3781 aggttggaat ttaatcgctg cctcgagcaa gacgtttccc gttgaatatg gctcataaca
     3841 ccccttgtat tactgtttat gtaagcagac agttttattg ttcatgatga tatattttta
     3901 tcttgtgcaa tgtaacatca gagattttga gacacaacgt ggttcccgcc atatgaaaat
     3961 ccggccagac caacatcatt ctggcgctcc gaaagaaggg atattcgccg ccgtgaccag
     4021 cctggagcgg gtcgcataat ctttggccgc ttcgtagtcg aggaacatgg catgaactct
     4081 ttcattacgc aaaaaatcaa acaaatgacc atcatcatta tatagttggg ggctatttac
     4141 aatagataaa tggaaatcaa gccctttaat tttcttgctt gccaatttac caaatacaca
     4201 gggctgattg cctgacaccc attttcttag taaatcttca attttatctt tagaagtttc
     4261 gttaaagata aatgaatgaa tattatcaat atcttttcca aatgaaaaac tggatgataa
     4321 ttgtggtagt ttatttatac gttgttgaag attcatgaaa gctcccacaa gacacctcat
     4381 atattttttt atatactgaa actacattat atttattacc ggcgtaaaac gaaataattt
     4441 attatcgtta ccgatatttt aaaaaaatca ttatttgcac agtgttcgag ttgttagtat
     4501 cactccttcc tgaaaatccg ctccatttac cataacgtcg cattgtacgc accgccaaaa
     4561 cgcgttcggt gcgatcacgg cagcagacag gtaaaaatgg caacaaacca cccgaaaaac
     4621 tgccgcgatc gcacctgata aattttaacc gcatgaatac ctatgcaacc agatgctaca
     4681 ggccacatta gcccgcctta atccactgaa cacgtcattt ttcatggttt caccatccca
     4741 gcgaagggcc atccagtgtc cgctcctgga tttccggctg acgctcccgc tccagagata
     4801 actcatgttc gcgttcctgc atcagccgtt catcccttat ctcctgttct cgctgtataa
     4861 ctggctcaag cgttctgtcc gctcgctcaa gtgctgcacc tgctgactca actgcatgac
     4921 tcgcccgttc agcatcgcgt tgtcccgttg cgtaagcgaa aacattttct gcaattccac
     4981 gaaggcgttc tcccattcgt tcagccgctg catatagtcc tgttgcagtt gctctaatgc
     5041 gttcagcaaa tgtctttcca gctccgtcat gctctgtcac tcctgcacca gtctcactgc
     5101 gttcagtttg ccgttgtcct tcgtccagtt cgtttcggct ttcatcccct tcggcaacac
     5161 cagaaaacgt ccgttgctgt cctcgtgata acgcacgccc catgtcttcg cgttcagctt
     5221 ctccagactc tctttctgct cgcggagaat attcatattc gcgtttatct tcatgccctg
     5281 gtaccacagc agactcccgg tcgtggcaaa
//
