LOCUS       NZ_CP085078             4071 bp    DNA     circular CON 22-NOV-2023
DEFINITION  Escherichia coli strain P21_SE1_04.20 plasmid unnamed2, complete
            sequence.
ACCESSION   NZ_CP085078
VERSION     NZ_CP085078.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN22252057
            Assembly: GCF_020541025.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 4071)
  AUTHORS   Turton,J.F. and Turton,J.A.
  TITLE     Wide distribution of IncF plasmids carrying blaNDM-5 and rmtB in
            Escherichia coli from hospitals in England similar to those found in
            other countries and continents
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 4071)
  AUTHORS   Turton,J.F. and Turton,J.A.
  TITLE     Direct Submission
  JOURNAL   Submitted (13-OCT-2021) HCAI, Fungal, AMR, AMU & Sepsis Division,
            United Kingdom Health Security Agency, 61 Colindale Avenue, London,
            London NW9 5EQ, United Kingdom
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Date                     :: 05-OCT-2021
            Assembly Method                   :: Unicycler v. 0.4.9
            Assembly Name                     :: RR20_BC11_Ecol_P21_SE1_04.20
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 680.0x
            Sequencing Technology :: Oxford Nanopore MinION; Illumina
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 11/22/2023 14:30:59
            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)                     :: 5,179
            CDSs (total)                      :: 5,059
            Genes (coding)                    :: 4,774
            CDSs (with protein)               :: 4,774
            Genes (RNA)                       :: 120
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 87
            ncRNAs                            :: 11
            Pseudo Genes (total)              :: 285
            CDSs (without protein)            :: 285
            Pseudo Genes (ambiguous residues) :: 0 of 285
            Pseudo Genes (frameshifted)       :: 87 of 285
            Pseudo Genes (incomplete)         :: 197 of 285
            Pseudo Genes (internal stop)      :: 57 of 285
            Pseudo Genes (multiple problems)  :: 52 of 285
            Pseudo Genes (short protein)      :: 4 of 285
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP085078.1.
            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..4071
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="P21_SE1_04.20"
                     /isolation_source="sputum"
                     /host="Homo sapiens"
                     /db_xref="taxon:562"
                     /plasmid="unnamed2"
                     /geo_loc_name="United Kingdom"
                     /collection_date="2020-04"
                     /genotype="ST1702"
     gene            complement(join(2890..4071,1..966))
                     /gene="mobQ"
                     /locus_tag="LH372_RS25695"
                     /old_locus_tag="LH372_25695"
     CDS             complement(join(2890..4071,1..966))
                     /gene="mobQ"
                     /locus_tag="LH372_RS25695"
                     /old_locus_tag="LH372_25695"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_016240513.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MobQ family relaxase"
                     /protein_id="WP_021526521.1"
                     /translation="MAIYHLSMKIISRSSGYSAVASAAYRSGSLMLDERTGLTHDYTRK
                     SGVAEAVILTPATAPAWCTNRAELWNAVEKAERRKNSQLAREIELAIPHELPQDAARET
                     VLAFVRENFVSQGMIADVAFHHMDKTNPHAHIMLTTRAVGPAGFSGKVRDWNDRTHAET
                     WRASWADHANRALANAGYQEEIDHRSYERQGLEKTPGIHLGKSACAMETRGIETERGEQ
                     NRLINRLNLEIQISRTELRNGGLTEPARRVADLLNIGLPDNATSYTLRDIIEALPKDSN
                     SAWKLTSNAMSMMADMQATRRRWEELNTERKEAMSHAASLKKSSPFSSGFSRIPLMQWA
                     APEYRSEQGKIQSLSQQMEKLRQHYRKVEKQDIPASQMAFEKQWQQWGESGLAALRAQL
                     LKREEELRRKEQEDTERSRAEQLRKNDNAVMDSGVLRAVVTGYGEAPMPGNGEMTCYLL
                     LHNRNGEYTLWGNELEKYRTRIFESVDLMRDRSGYICDRSEIGQRPPLQRVYSSATFEQ
                     LLTQVCQTWPQHTRNLRQPKTWPESFCLGEDRQPAMPSPAARKVDFMQGRLPPTLMPVM
                     SSVDRENRQLQLLLVMGVDDSLGGVIRLNGTLYPAFAVPSADNRHLVISALTDKGLRYA
                     GYGVAVNHDADSHISPAPELMQFHLKTREAPLFAAVNTPEKQPDHLFRSLGFNRTWEEW
                     QREEDARTHTTERRHDRGWSQ"
                     /name="mobQ"
     gene            1145..1399
                     /gene="mobC"
                     /locus_tag="LH372_RS25700"
                     /old_locus_tag="LH372_25700"
     CDS             1145..1399
                     /gene="mobC"
                     /locus_tag="LH372_RS25700"
                     /old_locus_tag="LH372_25700"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000091747.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="relaxase accessory protein MobC"
                     /protein_id="WP_000091746.1"
                     /translation="MSRTLEQKIADAEARLQRLKAKSRSLDTAQKVVVGAALLAKVRKP
                     EEVQLRAWLLQFLKAEVTRQADVTRILPLINELEALPEQ"
                     /name="mobC"
     gene            1932..2633
                     /locus_tag="LH372_RS25705"
                     /old_locus_tag="LH372_25705"
     CDS             1932..2633
                     /locus_tag="LH372_RS25705"
                     /old_locus_tag="LH372_25705"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001281399.1"
                     /GO_function="GO:0003887 - DNA-directed DNA polymerase
                     activity [Evidence IEA]"
                     /GO_process="GO:0006270 - DNA replication initiation
                     [Evidence IEA]"
                     /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_001281395.1"
                     /translation="MSDLIAYKSNALIEASYKLTLQEQRFLLVCISRLKSGEDSPSPDE
                     QKTMTITAAEFHDAFPDMGRQHAEARLKEAIDRLWDRSVIIKNEEKREEFRWVQYRAQY
                     FKGEAKVDITFSDAIMPYLTQLKGQFTRVVVKNVSSLSSTYSIRIYELLQQFRSTGDRT
                     IAIDDFRTMLAVEDKYQQFKDLNKMIIKPAIAELNEKSDLVVTVETIKKGRTVVALHFR
                     FKEDKQIKMTI"
                     /name="replication initiation protein"
     Typing          complement(609..967)
                     /name="MOBQ"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="0.0"
     Typing          968..1144
                     /name="MOBQ"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="5.61e-88"
     Typing          1933..2633
                     /name="rep_cluster_1778"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="99.858"
                     /coverage="100.0"
                     /evalue="0.0"
     Typing          complement(2..1053)
                     /name="MOBQ"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="97.721"
                     /coverage="100.0"
                     /evalue="0.0"
     Typing          complement(3353..4071)
                     /name="MOBQ"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="95.082"
                     /coverage="83.0"
                     /evalue="1.12e-137"
ORIGIN
        1 tttcaggctg gcagcatggc tcatcgcttc ctttcgttcg gtgttcagct cttcccagcg
       61 tctgcgcgtc gcctgcatat ctgccatcat cgacatggca ttactggtga gtttccatgc
      121 cgagttactg tccttcggca acgcttcgat aatgtcacgt agtgtgtacg aagttgcgtt
      181 gtcaggaagc ccgatattca gaaggtcagc cacacggcgg gcaggctctg tcagccctcc
      241 gttcctgagt tcggtgcggg aaatctgtat ttccaggtta agcctgttaa tcagacgatt
      301 ctgttcgccg cgttctgttt cgataccgcg tgtttccatc gcacaggcag actttccgag
      361 gtgaatacca ggcgttttct caagcccctg tcgctcgtat gaacgatggt ctatctcttc
      421 ctgataaccg gcgttcgcca gtgccctgtt tgcatggtca gcccatgatg cccgccacgt
      481 ctcggcatgt gtccggtcgt tccagtccct gacctttccg ctgaacccag caggtccgac
      541 agccctcgtg gtcagcatga tgtgcgcatg gggatttgtt ttatccatgt gatggaacgc
      601 cacatcagca atcatgccct gactgacaaa gttttctctg acaaaggcga gaacggtttc
      661 ccgtgcggca tcctgcggca gttcgtgggg gatggcgagt tcaatttccc gcgcaagttg
      721 tgagttcttc cggcgttcgg ccttctcaac ggcattccag agttcggcac ggttcgtaca
      781 ccaggcaggg gcggtggcgg gggtcagaat cacagcctca gccacaccgc ttttgcgggt
      841 gtagtcgtga gtcagtccgg tacgctcatc aagcatcagt gaaccggaac gataggcagc
      901 ggaagctacg gcgctgtagc cgctgcttct ggagataatt ttcatgctga gatgataaat
      961 cgccatttct gccgtaatgc ctttttgtag ttttctttca gccccgcagg gcgcacacaa
     1021 tcgaaacgga gtggagattg tataagtgcg cacttcgtga tttgccgtgc attatgccag
     1081 ctcagttttt aaactaccag tgacgcgcta aaatgcgatt tttcatcgcg cacggagtta
     1141 catcatgagc agaacgctcg aacagaagat tgctgatgct gaggcgagat tacagcgcct
     1201 gaaggcgaag agccggagcc tggacacagc gcagaaggtt gttgtgggtg ctgcattgct
     1261 ggcaaaggtc agaaagccgg aggaggtgca gttgcgtgcc tggttactcc agttcctgaa
     1321 ggcagaggtg acacgacagg ctgatgtgac gcgcatactg ccgctgatta acgagctgga
     1381 ggcgctgcca gaacagtgat tgtatcgtcc gctcgccgca gccccagcga ccgagcgtta
     1441 gcgagcgagt gggcgaggaa gcggaagtga atcagtcgcc aggttgagca catacgcacg
     1501 gtttttcggc aggtgatatg cgctgaaccc gcatgaatac tgggtttcca cagggttgga
     1561 gggggtgtat tcgaaacttg caattctgct ttattgcaac gcattgtttt tattggtttt
     1621 ttgttttcag caccccaagt tatccacagg ctcgccgtta agtttttaag atcttatttt
     1681 tagatctttt ttttaaaacc tttttaggtc ttgtaacacc atgattttaa agatgttctg
     1741 gcaagataag tggagctttt gggggtgaaa ggtggagctt ttgggggtga aaggtggagc
     1801 ttttgggggt gaaaggtgga gcttttgggg gtgtaatcca cagaaaaagg gggttgcaaa
     1861 aaaaaaactt ccacccatat gataagtggc gtacagtaaa aaaacgccac caatagcaac
     1921 gagcaagcga aatgtcagat ctgatagctt acaaatcaaa cgcccttatc gaggcaagct
     1981 acaagctcac tttgcaggaa cagcgcttcc tgctggtctg tatcagccgc ctgaaatccg
     2041 gagaagattc cccttcgccg gatgaacaaa aaaccatgac catcacggct gcagagtttc
     2101 atgatgcctt tcctgacatg ggacggcagc acgctgaagc taggctcaag gaagcgatag
     2161 atcgcctctg ggacaggtca gtaatcatca agaacgagga aaaacgagaa gagttccgct
     2221 gggtgcagta ccgggcgcag tatttcaaag gtgaggcgaa agtagatatc accttctccg
     2281 atgccatcat gccgtatctg acacagctca aggggcagtt tacgcgggta gtcgtgaaga
     2341 acgtctccag cctttccagc acctacagca tccgcattta cgagctgctc cagcagttcc
     2401 gcagcaccgg tgacagaacg atagctatcg atgatttccg aaccatgctt gccgttgaag
     2461 ataaatatca acaattcaaa gacttgaata agatgataat caagccagcc atcgccgaac
     2521 tgaacgaaaa aagcgatctg gttgtaactg ttgagacgat caaaaagggg cgcacggttg
     2581 tagccctgca ttttcgcttc aaggaagaca aacagatcaa gatgacgatc taaaatcgat
     2641 tttaaggcac ctaaaacgct ccctgctgcg ttttttttgt gttagtagtg cgaaggtact
     2701 attgaagtga aaaattgcgt caaaaacgct ctgatgcagc gaaaaaagac ccccaatttt
     2761 tgggggcgga aaaacaaaac tatgcttgcg ttatgtgagt gtgcttcttg cattcatccc
     2821 tgtcgatgaa catcgaagaa catcgacgaa cataacacga tgttaaacaa aacaaaatat
     2881 tgttcacatt cactgtgacc aaccgcgatc atgtctcctc tcggtggtgt gtgttcgtgc
     2941 atcttcctcg cgctgccatt cctcccaggt acgattaaaa cccagcgagc ggaacagatg
     3001 atccggctgt ttttctggtg tgttgacggc agcaaaaagc ggtgcctcac gggttttcag
     3061 atgaaactgc atcagttctg gtgcaggtga tatgtggctg tctgcatcgt gatttacggc
     3121 aacaccatac cctgcatacc gtaacccctt atcggtcagc gcactgatga ccagatgcct
     3181 gttatcggct gagggaacgg caaacgcggg atacagcgta ccattaagcc ggataacacc
     3241 gcccagagag tcatccacgc ccatgaccag caaaagctga agctgacggt tttcccggtc
     3301 gacagaactc atgaccggca tcagcgtcgg tggcagacgt ccctgcataa aatccacctt
     3361 ccttgccgct ggtgatggca tggctggctg gcggtcttct ccaagacaga aagactccgg
     3421 ccatgtcttc ggctggcgga gattgcgggt atgttgcggc catgtctggc aaacctgcgt
     3481 cagcagttgc tcaaaggttg cagaggaata aacacgttgc agtggcggac gttggccgat
     3541 ttcgcttcgg tcacagatat aaccactcct gtcacgcatt aaatcaacac tctcaaagat
     3601 tctggtgcgg tatttctcca gctcgttccc ccagagcgta tattctccgt tccggttgtg
     3661 aagcagaagg taacaggtca tttccccgtt accaggcatg ggagcctcgc cataccccgt
     3721 aacgactgct ctcagcaccc ctgaatccat aacggcattg tcatttttcc tgagctgctc
     3781 cgcgcgacta cgttcagtat cttcctgttc cttccggcgc aattcctctt cacgtttaag
     3841 caactgggct ctgagagctg caaggccgga ttccccccac tgctgccact gtttttcaaa
     3901 tgccatctga ctcgcgggaa tgtcctgttt ctccaccttc cggtaatgct gtcgtaattt
     3961 ttccatttgc tggctcagag actggatttt tccctgctca ctacggtatt ccggtgccgc
     4021 ccattgcatc aggggaatac gggaaaaacc ggacgaaaac ggcgatgatt t
//
