LOCUS       NZ_CP115829             4074 bp    DNA     circular CON 07-JAN-2024
DEFINITION  Escherichia coli strain E1 plasmid pE1-Col2, complete sequence.
ACCESSION   NZ_CP115829
VERSION     NZ_CP115829.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN32542048
            Assembly: GCF_034089005.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 4074)
  AUTHORS   Dong,N.
  TITLE     Characterization of E. coli strain E1 from bloodstream infection
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 4074)
  AUTHORS   Dong,N.
  TITLE     Direct Submission
  JOURNAL   Submitted (03-JAN-2023) Department of Medical Microbiology, Soochow
            University, Ren'ai, Suzhou 215123, China
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: unicycler v. v0.5.0
            Assembly Name                     :: E1
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 200.0x
            Sequencing Technology :: Illumina; Oxford Nanopore MinION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 01/06/2024 23:26:36
            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)                     :: 5,530
            CDSs (total)                      :: 5,407
            Genes (coding)                    :: 5,198
            CDSs (with protein)               :: 5,198
            Genes (RNA)                       :: 123
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 90
            ncRNAs                            :: 11
            Pseudo Genes (total)              :: 209
            CDSs (without protein)            :: 209
            Pseudo Genes (ambiguous residues) :: 0 of 209
            Pseudo Genes (frameshifted)       :: 76 of 209
            Pseudo Genes (incomplete)         :: 152 of 209
            Pseudo Genes (internal stop)      :: 37 of 209
            Pseudo Genes (multiple problems)  :: 51 of 209
            Pseudo Genes (short protein)      :: 3 of 209
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP115829.1.
            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..4074
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="E1"
                     /host="Homo sapiens"
                     /db_xref="taxon:562"
                     /plasmid="pE1-Col2"
                     /geo_loc_name="China"
                     /collection_date="2019"
     gene            join(3455..4074,1..82)
                     /locus_tag="PBU98_RS27630"
     CDS             join(3455..4074,1..82)
                     /locus_tag="PBU98_RS27630"
                     /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_001281396.1"
                     /translation="MSDLIAYKSNALIEASYKLTLQEQRFLLVCISRLKSGEDSPSPDE
                     QKTMTITAAEFHDAFPDMGRQHAEARLKEAIDRLWDRSVIIKNEEKREEFRWVQYRAQY
                     FKGEAKVEITFSDAIMPYLTQLKGQFTRVVVKNVSSLSSTYSIRIYELLQQFRSTGDRT
                     IAIDDFRTMLAVEDKYQQFKDLNKMIIKPAIAELNEKSDLVVTVETIKKGRTVVALHFR
                     FKEDKQIKMTI"
                     /name="replication initiation protein"
     gene            complement(324..2489)
                     /gene="mobQ"
                     /locus_tag="PBU98_RS27635"
     CDS             complement(324..2489)
                     /gene="mobQ"
                     /locus_tag="PBU98_RS27635"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001029350.1"
                     /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_001029349.1"
                     /translation="MAIYHLSMKIISRSNGYSAVASAAYRSGSLMLDERTGLTHDYTRK
                     SGVAEAVILTPATAPAWCTNRAELWNAVEKAERRKNSQLAREIELAIPHELPQDAARET
                     VLAFVRENFVSQGMIADVAFHHMDKTNPHAHIMLTTRAVGPAGFGGKVRDWNDRTHAET
                     WRASWADHANRALANAGYQKEIDHRSYERQGLEKTPGIHLGKSACAMETRGIETERGEQ
                     NRLINRLNLEIQISRTELRNSGLTEPARRVADLLNIGLPDNATSYTLRDIIEALPKDSN
                     AAWKLTSNAMSMMADMQATRRRWEELNTERKEAMSHAASLKKSSPFSSGFSRIPLMQWA
                     APEYRSEQGKIQSLSQQMEKLRQHYRKVEKQDIPASQTAFEKQWQQWGESGLAALRAQL
                     LKREDELRRKELEDTERSRAERRAEQLRKNDNAVMDSGVLRAVVTGYGEAPMPGNGEMT
                     CYLLLHNRNGEYTLWGNELEKYRTRIFESVDLIRDRSGYICDRSEIGQHPPLQRIYSSA
                     TFEQLLTQVCQTWPQHTRNLRQPKTWPESFCLGEDRQPAMPSLAARKVDFTQGRLPPTL
                     MPVMSSVDRETRQLQLLLVMGVDDSLGGVVRLNGTLYPAFAVPSADNSQLVISALTDKG
                     LRYAGYGVAVNHDADSHISPAPELMEFHLKTREAPLFAVVNTPEKQPDHLFRSLGFNRT
                     WDEWRREEDARTHATERRPDRGWSQGM"
                     /name="mobQ"
     gene            2668..2922
                     /gene="mobC"
                     /locus_tag="PBU98_RS27640"
     CDS             2668..2922
                     /gene="mobC"
                     /locus_tag="PBU98_RS27640"
                     /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_000091744.1"
                     /translation="MSRTLEQKIADAEARLQRLKAKSRSLDTAQKVIVGAALLAKVRKP
                     EEVQLRAWLLQFLKAEVTRQADVTRILPLINELEALPEQ"
                     /name="mobC"
     Typing          complement(2132..2490)
                     /name="MOBQ"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="97.5"
                     /coverage="100.0"
                     /evalue="8.52e-174"
     Typing          2491..2667
                     /name="MOBQ"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="5.61e-88"
     Typing          3456..4071
                     /name="rep_cluster_1778"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="99.514"
                     /coverage="99.0"
                     /evalue="0.0"
     Typing          complement(334..2576)
                     /name="MOBQ"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="97.46"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 tgagacgatc aaaaaggggc gcacggttgt agccctgcac tttcgcttca aggaagacaa
       61 acagatcaag atgacgatct agaatcgatt ttaaggcacc taaaacgctc actgtcgcgt
      121 ttttcttgtg tcaggaatgc gaaggtacta ttgaagtgaa aagttgcgtc aaaaacgctc
      181 tgatgcagca aaaaaagaac ccccaatttt tgggggcgga aaaacaaaac tatgtttgcg
      241 ctatgtgagt gtgcttcttg cattcatccc tgtcgatgaa catcgacgaa cataacacga
      301 tgttaaacaa aacaaaatat tgttcacatt ccctgtgacc aaccgcgatc aggtctcctc
      361 tcggtggcgt gtgttcgtgc atcttcctcg cgccgccatt cgtcccaggt acgattgaaa
      421 cccagcgagc ggaacagatg atccggctgt ttttctggtg tgttgacgac agcaaaaagc
      481 ggtgcctcac gggttttcag atgaaactcc ataagttccg gtgcaggtga tatgtggctg
      541 tctgcatcat gatttacggc aacaccatac cctgcatacc gtaacccctt atcggtcagt
      601 gcactgataa ccagctggct gttatcggct gagggaacgg caaacgcggg atacagcgta
      661 ccattaagcc ggacaacacc gcccagagag tcatccacgc ccatgaccag caaaagctga
      721 agctggcggg tttcccggtc gacagaactc atgaccggca tcagcgtcgg tggcagacgt
      781 ccctgcgtaa aatccacctt ccttgctgcc agtgatggca tggctggctg gcggtcttct
      841 ccaagacaga aagactccgg ccatgtcttc ggctggcgga gattgcgggt atgttgcggc
      901 catgtctggc aaacctgcgt cagaagttgc tcaaaggtcg cagaggaata aatacgttgc
      961 agtggtggat gttgaccgat ttcgcttcgg tcacagatat aaccactcct gtcacgtatt
     1021 aaatcaacac tctcaaagat cctggtgcgg tatttctcca gctcgttccc ccagagcgtg
     1081 tattctccgt tccggttgtg aagcagaagg taacaagtca tttccccgtt accaggcatg
     1141 ggagcctcgc cataccccgt aacgactgct ctcagcaccc ctgaatccat aacggcattg
     1201 tcatttttcc tgagctgttc cgctcgtcgc tccgcgcgac tacgttctgt atcctccagc
     1261 tccttccggc gtaattcatc ttcacgttta agcaactggg ctctgagagc tgcaaggccg
     1321 gattcccccc actgctgcca ctgtttttca aatgccgtct gactcgcggg aatgtcctgt
     1381 ttctccacct tccggtaatg ctgtcgcaat ttttccattt gctggctcag agactggatt
     1441 tttccctgct cactacggta ttccggtgca gcccattgca tcaggggaat acgggaaaaa
     1501 ccggacgaaa acggcgatga ttttttcagg ctggcagcat ggctcatcgc ttcctttcgt
     1561 tcggtgttca gctcttccca gcgtctgcgc gtcgcctgca tatctgccat catcgacatg
     1621 gcgttactgg tgagtttcca tgccgcgtta ctgtccttcg gcaacgcttc gatgatgtca
     1681 cgtagtgtgt acgaagttgc gttgtcagga agcccgatat tcagaaggtc agccacacgg
     1741 cgggcaggct ctgtcagccc gctgttcctg agttcggtgc gggaaatctg tatttccagg
     1801 ttaagcctgt taatcagacg attctgttcg ccgcgttctg tttcgatacc gcgtgtttcc
     1861 atcgcacagg cagactttcc gaggtgaata cccggcgttt tctcaagccc ctgtcgctcg
     1921 tatgaacgat ggtctatctc tttctgataa ccggcgttcg ccagtgccct gtttgcatgg
     1981 tcagcccatg atgcacgcca cgtctcggca tgtgtccggt cgttccagtc cctgaccttt
     2041 ccgccgaacc ccgcaggtcc gacagccctc gtggtcagca taatgtgcgc atggggattt
     2101 gttttatcca tgtgatggaa cgccacatca gcaatcatgc cctgactgac aaagttttct
     2161 ctgacaaagg cgagaacggt ttcccgtgcg gcatcctgcg gcagttcgtg ggggatggcg
     2221 agttcaattt cccgcgcaag ttgtgagttc ttccggcgtt cggccttctc aacggcattc
     2281 cagagttcgg cacggttcgt acaccaggca ggggctgtcg cgggggtcag aatcacagcc
     2341 tcagccacac cgcttttgcg ggtgtagtcg tgagtcagtc cggtacgctc atcaagcatt
     2401 agtgaaccag aacgataggc agcagaagca acggcgctgt agccgttgct tctggagatg
     2461 attttcatac tgagatgata aatcgccatt tctgccgtaa tgcctttttg cagttttctt
     2521 tcagccccgc agggcgcaca caatcgaaac ggagtggaga ttgtataagt gcgcacttcg
     2581 tgatttgccg tgcattatgc cagctcagtt tttaaactac cagtgacgcg ctaaaatgcg
     2641 atttttcatc gcgcatggag ttacatcatg agcagaacgc tcgaacagaa gattgctgat
     2701 gctgaggcga gattacagcg cctgaaggcg aagagccgga gcctggacac agcgcagaag
     2761 gtcattgtgg gtgcagcatt gctggcaaag gtcagaaagc cggaggaagt gcagttgcga
     2821 gcctggttac tccagttcct gaaggcagag gtgacacggc aggctgatgt gacgcgaata
     2881 ctgccgctga ttaacgagct ggaggcgctg ccagagcagt gattgtatcg tccgctcgcc
     2941 gcagcccagc gaccgagcgt tagcgagcga gtgggcgagg aagcggaagt gaattagtcg
     3001 ccatgttgag cacatacgca cggtttttcg acaggtgata tgcgctgaac ccgcatgaat
     3061 actggatttc cacagggttg gagggggtgt attcggaatc ttcaatcctg gttttttgca
     3121 acacattgtt tttattggat ttttattttc agcaccccaa gttatccaca ggctcgccgt
     3181 taagttttta agatcttatt tttagatctt tttttttaaa acctttttag gtcttgtaac
     3241 cacatgattt taaaggtgtt ctggcgagat aggtggagct tttgggggtg ataggtggag
     3301 cttttggggg tgataggtgg agcttttggg ggtgataagt ggagcttttg ggggtgtaat
     3361 ccacagaaaa aaggggttgc aaaaaaaaaa cttccaccaa tatgataggt ggcgtacagt
     3421 aaaaaaacgc caccaatagc aacgagcaag cgaaatgtca gatctgatag cttacaaatc
     3481 aaacgccctt atcgaggcaa gctacaagct cactttgcag gaacagcgct tcctgctggt
     3541 ctgtatcagc cgcctgaaat ccggagaaga ttccccttcg ccggatgaac aaaaaaccat
     3601 gaccatcacg gctgcagagt ttcatgatgc ctttcctgac atgggacggc agcacgctga
     3661 agctaggctc aaggaagcga tagatcgcct ctgggacagg tcagtaatca tcaagaacga
     3721 ggaaaaacga gaagagttcc gctgggtgca gtaccgggcg cagtatttca aaggtgaggc
     3781 gaaagtagag atcaccttct ccgatgccat catgccgtat ctgacacagc tcaaggggca
     3841 gtttacgcgg gtagtcgtga agaacgtctc cagcctctcc agcacctaca gcatccgcat
     3901 ttacgagctg ctccagcagt tccgcagcac cggtgacaga acgatagcta tcgatgattt
     3961 ccgaaccatg cttgccgttg aagataaata tcaacaattc aaagacttga ataagatgat
     4021 aatcaagcca gccatcgccg aactgaacga aaaaagcgat ctggttgtaa cggt
//
