LOCUS       NZ_CP109881             4063 bp    DNA     circular CON 22-NOV-2023
DEFINITION  Escherichia coli strain EC488 plasmid pEC488-7, complete sequence.
ACCESSION   NZ_CP109881
VERSION     NZ_CP109881.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN30088785
            Assembly: GCF_025946585.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 4063)
  AUTHORS   He,X.
  TITLE     Carbapenemase - producing -Escherichia coli EC488
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 4063)
  AUTHORS   He,X.
  TITLE     Direct Submission
  JOURNAL   Submitted (02-AUG-2022) Clinical Laboratory, Sir Run Run Shaw
            Hospital, Zhejiang University School of Medicine, Qingchun,
            Hangzhou, Zhejiang 310000, China
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: SPAdes v. v0.4.8
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 100.0x
            Sequencing Technology             :: Oxford Nanopore
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 11/22/2023 18:08:23
            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)                     :: 5,510
            CDSs (total)                      :: 5,391
            Genes (coding)                    :: 5,160
            CDSs (with protein)               :: 5,160
            Genes (RNA)                       :: 119
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 92
            ncRNAs                            :: 5
            Pseudo Genes (total)              :: 231
            CDSs (without protein)            :: 231
            Pseudo Genes (ambiguous residues) :: 0 of 231
            Pseudo Genes (frameshifted)       :: 78 of 231
            Pseudo Genes (incomplete)         :: 160 of 231
            Pseudo Genes (internal stop)      :: 44 of 231
            Pseudo Genes (multiple problems)  :: 46 of 231
            Pseudo Genes (short protein)      :: 5 of 231
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP109881.1.
            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..4063
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="EC488"
                     /isolation_source="urine"
                     /host="Homo sapiens"
                     /db_xref="taxon:562"
                     /plasmid="pEC488-7"
                     /geo_loc_name="China"
                     /lat_lon="27 N 110 E"
                     /collection_date="2021-08-04"
                     /collected_by="Xianhong He"
     gene            complement(join(2322..4063,1..406))
                     /gene="mobQ"
                     /locus_tag="NQ150_RS27370"
                     /old_locus_tag="NQ150_27370"
     CDS             complement(join(2322..4063,1..406))
                     /gene="mobQ"
                     /locus_tag="NQ150_RS27370"
                     /old_locus_tag="NQ150_27370"
                     /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_001029354.1"
                     /translation="MAIYHLSMKIISRSSGYSAVASAAYRSGSLMLDERTGLTHDYTRK
                     SGVAEAVILTPATAPAWCTNRAELWNAVEKAERRKNSQLAREIELAIPHELPQDAARET
                     VLAFVRENFVSQGMIADVAFHHMDKTNPHAHIMLTTRAIGPAGFSGKVRDWNDRTHAET
                     WRASWADHANRALANAGYQEEIDHRSYERQGLEKTPGIHLGKSACAMETRGIETERGEQ
                     NRLINRLNLEIQISRTELRNGGLTEPARRVADLLNIGLPDNATSYTLRDIIEALPKDSN
                     SAWKLTSNAMSMMADMQATRRRWEELNTERKEAMSHAASLKKSSPFSSGFSRIPLMQWA
                     APEYRSEQGKIQSLSQQMEKLRQHYRKVEKQDIPASQMAFEKQWQQWGESGLAALRAQL
                     LKREEELRRKEQEDTERSRAEQLRKNDNAVMDSGVLRAVVTGYGEAPMPGNGEMTCYLL
                     LHNRNGEYTLWGNELEKYRTRIFESVDLMRDRSGYICDRSEIGQRPPLQRVYSSATFEQ
                     LLTQVCQTWPQHTRNLRQPKTWPESFCLGEDRQPAMPSPAARKVDFMQGRLPPTLMPVM
                     SSVDRETRQLQLLLVMGVDDSLGGVIRLNGTLYPAFAVPSADNRHLVISALTDKGLRYA
                     GYGVAVNHDADSHISPAPELMQFHLKTREAPLFAAVNTPEKQPDHLFRSLGFNRTWEEW
                     QREEDARTHTTERRHDRGWSQ"
                     /name="mobQ"
     gene            585..839
                     /gene="mobC"
                     /locus_tag="NQ150_RS27375"
                     /old_locus_tag="NQ150_27375"
     CDS             585..839
                     /gene="mobC"
                     /locus_tag="NQ150_RS27375"
                     /old_locus_tag="NQ150_27375"
                     /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            1373..2074
                     /locus_tag="NQ150_RS27380"
                     /old_locus_tag="NQ150_27380"
     CDS             1373..2074
                     /locus_tag="NQ150_RS27380"
                     /old_locus_tag="NQ150_27380"
                     /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(49..407)
                     /name="MOBQ"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="0.0"
     Typing          408..584
                     /name="MOBQ"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="5.61e-88"
     Typing          1374..2074
                     /name="rep_cluster_1778"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="0.0"
     Typing          complement(2326..4061)
                     /name="MOBQ"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="95.54"
                     /coverage="99.0"
                     /evalue="0.0"
ORIGIN
        1 tgtgcgcatg gggatttgtt ttatccatgt gatggaacgc cacatcagca atcatgccct
       61 gactgacaaa gttttctctg acaaaggcga gaacggtttc ccgtgcggca tcctgcggca
      121 gttcgtgggg gatggcgagt tcaatttccc gcgcaagttg tgagttcttc cggcgttcgg
      181 ccttctcaac ggcattccag agttcggcac ggttcgtaca ccaggcaggg gcggtggcgg
      241 gggtcagaat cacagcctca gccacaccgc ttttgcgggt gtagtcgtga gtcagtccgg
      301 tacgctcatc aagcatcagt gaaccggaac gataggcagc ggaagctacg gcgctgtagc
      361 cgctgcttct ggagataatt ttcatgctga gatgataaat cgccatttct gccgtaatgc
      421 ctttttgtag ttttctttca gccccgcagg gcgcacacaa tcgaaacgga gtggagattg
      481 tataagtgcg cacttcgtga tttgccgtgc attatgccag ctcagttttt aaactaccag
      541 tgacgcgcta aaatgcgatt tttcatcgcg cacggagtta catcatgagc agaacgctcg
      601 aacagaagat tgctgatgct gaggcgagat tacagcgcct gaaggcgaag agccggagcc
      661 tggacacagc gcagaaggtt gttgtgggtg ctgcattgct ggcaaaggtc agaaagccgg
      721 aggaggtgca gttgcgtgcc tggttactcc agttcctgaa ggcagaggtg acacgacagg
      781 ctgatgtgac gcgcatactg ccgctgatta acgagctgga ggcgctgcca gaacagtgat
      841 tgtatcgtcc gctcgccgca gccccagcga ccgagcgtta gcgagcgagt gggcgaggaa
      901 gcggaagtga atcagtcgcc aggttgagca catacgcacg gtttttcggc aggtgatatg
      961 cgctgaaccc gcatgaatac tgggtttcca cagggttgga gggggtgtat tcgaaacttg
     1021 caattctgct ttattgcaac gcattgtttt tattggtttt ttgttttcag caccccaagt
     1081 tatccacagg ctcgccgtta agtttttaag atcttatttt tagatctttt tttttaaaac
     1141 ctttttaggt cttgtaacac catgatttta aagatgttct ggcaagataa gtggagcttt
     1201 tgggggtgaa aggtggagct tttgggggtg aaaggtggag cttttggggg tgaaaggtgg
     1261 agcttttggg ggtgtaatcc acagaaaaag ggggttgcaa aaaaaaaact tccacccata
     1321 tgataagtgg cgtacagtaa aaaaacgcca ccaatagcaa cgagcaagcg aaatgtcaga
     1381 tctgatagct tacaaatcaa acgcccttat cgaggcaagc tacaagctca ctttgcagga
     1441 acagcgcttc ctgctggtct gtatcagccg cctaaaatcc ggagaagatt ccccttcgcc
     1501 ggatgaacaa aaaaccatga ccatcacggc tgcagagttt catgatgcct ttcctgacat
     1561 gggacggcag cacgctgaag ctaggctcaa ggaagcgata gatcgcctct gggacaggtc
     1621 agtaatcatc aagaacgagg aaaaacgaga agagttccgc tgggtgcagt accgggcgca
     1681 gtatttcaaa ggtgaggcga aagtagatat caccttctcc gatgccatca tgccgtatct
     1741 gacacagctc aaggggcagt ttacgcgggt agtcgtgaag aacgtctcca gcctttccag
     1801 cacctacagc atccgcattt acgagctgct ccagcagttc cgcagcaccg gtgacagaac
     1861 gatagctatc gatgatttcc gaaccatgct tgccgttgaa gataaatatc aacaattcaa
     1921 agacttgaat aagatgataa tcaagccagc catcgccgaa ctgaacgaaa aaagcgatct
     1981 ggttgtaact gttgagacga tcaaaaaggg gcgcacggtt gtagccctgc attttcgctt
     2041 caaggaagac aaacagatca agatgacgat ctaaaatcga ttttaaggca cctaaaacgc
     2101 tccctgctgc gttttttttg tgttagtagt gcgaaggtac tattgaagtg aaaaatcgcg
     2161 tcaaaaacgc tctgatgcag cgaaaaaaga ccccccaatt tttgggggcg gaaaaacaaa
     2221 actatgcttg cgttatgtga gtgtgcttct tgcattcatc cctgtcgatg aacatcgacg
     2281 aacataacac gatgttaaac aaaacaaaat attgttcaca ttcactgtga ccaaccgcga
     2341 tcatgtctcc tctcggtggt gtgtgttcgt gcatcttcct cgcgctgcca ttcctcccag
     2401 gtacgattaa aacccagcga gcggaacaga tgatccggct gtttttctgg tgtgttgacg
     2461 gcagcaaaaa gcggtgcctc acgggttttc agatgaaact gcatcagttc tggtgcaggt
     2521 gatatgtggc tgtctgcatc gtgatttacg gcaacaccat accctgcata ccgtaacccc
     2581 ttatcggtca gcgcactgat gaccagatgc ctgttatcgg ctgagggaac ggcaaacgcg
     2641 ggatacagcg taccattaag ccggataaca ccgcccagag agtcatccac gcccatgacc
     2701 agcaaaagct gaagctggcg ggtttcccgg tcgacagaac tcatgaccgg catcagcgtc
     2761 ggtggcagac gtccctgcat aaaatccacc ttccttgccg ctggtgatgg catggctggc
     2821 tggcggtctt ctccaagaca gaaagactcc ggccatgtct tcggctggcg gagattgcgg
     2881 gtatgttgcg gccatgtctg gcaaacctgc gtcagcagtt gctcaaaggt tgcagaggaa
     2941 taaacacgtt gcagtggcgg acgttggccg atttcgcttc ggtcacagat ataaccactc
     3001 ctgtcacgca ttaaatcaac actctcaaag attctggtgc ggtatttctc cagctcgttc
     3061 ccccagagcg tatattctcc gttccggttg tgaagcagaa ggtaacaggt catttccccg
     3121 ttaccaggca tgggagcctc gccatacccc gtaacgactg ctctcagcac ccctgaatcc
     3181 ataacggcat tgtcattttt cctgagctgc tccgcgcgac tacgttcagt atcttcctgt
     3241 tccttccggc gcaattcctc ttcacgttta agcaactggg ctctgagagc tgcaaggccg
     3301 gattcccccc actgctgcca ctgtttttca aatgccatct gactcgcggg aatgtcctgt
     3361 ttctccacct tccggtaatg ctgtcgtaat ttttccattt gctggctcag agactggatt
     3421 tttccctgct cactacggta ttccggtgcc gcccattgca tcaggggaat acgggaaaaa
     3481 ccggacgaaa acggcgatga ttttttcagg ctggcagcat ggctcatcgc ttcctttcgt
     3541 tcggtgttca gctcttccca gcgtctgcgc gtcgcctgca tatctgccat catcgacatg
     3601 gcattactgg tgagtttcca tgccgagtta ctgtccttcg gcaacgcttc gataatgtca
     3661 cgtagtgtgt acgaagttgc gttgtcagga agcccgatat tcagaaggtc agccacacgg
     3721 cgggcaggct ctgtcagccc tccgttcctg agttcggtgc gggaaatctg tatttccagg
     3781 ttaagcctgt taatcagacg attctgttcg ccgcgttctg tttcgatacc gcgtgtttcc
     3841 atcgcacagg cagactttcc gaggtgaata ccaggcgttt tctcaagccc ctgtcgctcg
     3901 tatgaacgat ggtctatctc ttcctgataa ccggcgttcg ccagtgccct gtttgcatgg
     3961 tcagcccatg atgcccgcca cgtctcggca tgtgtccggt cgttccagtc cctgaccttt
     4021 ccgctgaacc cagcaggtcc gatagccctc gtggtcagca tga
//
