LOCUS       NZ_CP120566             4077 bp    DNA     circular CON 24-MAY-2024
DEFINITION  Escherichia coli strain H22 plasmid pH22_4077, complete sequence.
ACCESSION   NZ_CP120566
VERSION     NZ_CP120566.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN33748625
            Assembly: GCF_029536635.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 4077)
  AUTHORS   Fedrova,P., Hrala,M., Micenkova,L., Tom,N., Bosak,J. and Smajs,D.
  TITLE     Complete genome sequences of five Escherichia coli strains with
            probiotic features
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 4077)
  AUTHORS   Fedrova,P., Hrala,M., Micenkova,L., Tom,N., Bosak,J. and Smajs,D.
  TITLE     Direct Submission
  JOURNAL   Submitted (16-MAR-2023) Department of Biology, Masaryk University,
            Kamenice 5, Brno 62500, Czech Republic
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: Unicycler v. v0.4.8
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 368x
            Sequencing Technology :: Illumina; Oxford Nanopore MinION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_029536635.1-RS_2024_05_24
            Annotation Date                   :: 05/24/2024 04:38:59
            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)                     :: 5,062
            CDSs (total)                      :: 4,945
            Genes (coding)                    :: 4,743
            CDSs (with protein)               :: 4,743
            Genes (RNA)                       :: 117
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 89
            ncRNAs                            :: 6
            Pseudo Genes (total)              :: 202
            CDSs (without protein)            :: 202
            Pseudo Genes (ambiguous residues) :: 0 of 202
            Pseudo Genes (frameshifted)       :: 86 of 202
            Pseudo Genes (incomplete)         :: 125 of 202
            Pseudo Genes (internal stop)      :: 45 of 202
            Pseudo Genes (multiple problems)  :: 48 of 202
            Pseudo Genes (short protein)      :: 2 of 202
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP120566.1.
            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..4077
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="H22"
                     /isolation_source="feces"
                     /host="Homo sapiens"
                     /db_xref="taxon:562"
                     /plasmid="pH22_4077"
                     /geo_loc_name="Czech Republic"
                     /collection_date="1978"
     gene            complement(join(3560..4077,1..190))
                     /locus_tag="P5708_RS25295"
                     /old_locus_tag="P5708_25295"
     CDS             complement(join(3560..4077,1..190))
                     /locus_tag="P5708_RS25295"
                     /old_locus_tag="P5708_25295"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001296720.1"
                     /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_001296720.1"
                     /translation="MTSNPLIAYKSNALVEASYKLTLQEQRFLLLCISRLNSGTDVASP
                     ELQKTMTITAAEYFDSFPDMGRKNAEVQLQEAIDRLWDRSIILKDDEKREEFRWIQYRA
                     QYARGEGKAQITFSDAVMPYLTQLKGQFTRVVIKNISNLSRSYSIRIYEILQQFRSTGE
                     RIIALDDFKSSLMLDGKYKDFKTLNRDLIKPCVDELNKKSDLAVTVETIKKGRTVVALH
                     FRFKEDKQIKMTI"
                     /name="replication initiation protein"
     gene            complement(721..975)
                     /gene="mobC"
                     /locus_tag="P5708_RS25300"
                     /old_locus_tag="P5708_25300"
     CDS             complement(721..975)
                     /gene="mobC"
                     /locus_tag="P5708_RS25300"
                     /old_locus_tag="P5708_25300"
                     /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_000091749.1"
                     /translation="MSRTLEQKIAEAEARLQRLKAKSRSLDTAQKVIVGAALLAKVRKP
                     EEVQLRAWLLQFLKAEVTRQADVTRILPLINELEALPEQ"
                     /name="mobC"
     gene            1154..3301
                     /gene="mobQ"
                     /locus_tag="P5708_RS25305"
                     /old_locus_tag="P5708_25305"
     CDS             1154..3301
                     /gene="mobQ"
                     /locus_tag="P5708_RS25305"
                     /old_locus_tag="P5708_25305"
                     /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_221693518.1"
                     /translation="MAIYHLSMKIISRSNGYSAVASAAYRSGSLMLDERTGLTHDYTRK
                     SGVAEAVILTPATAPAWCTNRAELWNAVEKAERRKNSQLAREIELAIPRELPQDAARET
                     VLAFVRENFVSQGMIADVAFHHMDKTNPHAHIMLTTRAVGPAGFGGKVRDWNDRTHAET
                     WRASWADHANRALANADYQEEIDHRSYERQGLEKTPGIHLGKSACAMETRGIETERGEQ
                     NRLINRLNLEIQISRTELRNSGLTEPVRRVADLLNIGLPDNATSYTLRDIIEALPKDSN
                     SAWKLTSNAMSMMADMQATRRRWEELNTERKEAMSHAASLKKSSPFSSGFSRIPLMQWA
                     APEYRSEQGKIQSLSQQMEKLRQHYRKVEKQDIPASQMAFEKQWQQWGESGLAALRAQL
                     LKREEELRRKEQEDTERSRAEQLRKNDNAVMDSGVLRAVVTGYGEAPMPGNGEMTCYLL
                     LHNRNGEYTLWGNELEKYRTRIFESVDLMRDRSGYICDRSEIGQRPPLQRVYSSATFEQ
                     LLTQVCQTWPQHTRNLRQPKTWPESFCLGEDRQPAMPSLAARKVDFTQGRLPPTLMPVM
                     SSVDRETRQLQLLLVMGVDDSLGGVVRLNGTLYPAFAVPSADNSQLVISALTDKGLRYA
                     GYGVAVNHDADSHISPAPELMEFHLKTREAPLFAAVNTPEKQPDHLFRSLGFNRTWDEW
                     RREEDARTHTTERRHDRGWSQ"
                     /name="mobQ"
     Typing          complement(980..1153)
                     /name="MOBQ"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="98.286"
                     /coverage="98.0"
                     /evalue="2.6299999999999998e-81"
     Typing          1154..1512
                     /name="MOBQ"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="97.222"
                     /coverage="100.0"
                     /evalue="3.97e-172"
     Typing          complement(3561..4077)
                     /name="rep_cluster_1778"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="0.0"
     Typing          1068..3298
                     /name="MOBQ"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="97.193"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 cagggaatga atcaaaatat tccgcagctg taatggtcat tgtcttttgc aattcaggtg
       61 aagctacgtc agtaccggag ttaagtcggc ttatgcagag caataagaaa cgctgttctt
      121 gtaaagttag cttgtaactg gcctcaacca gcgcattgga cttataggct atcagagggt
      181 ttgatgtcat tttaaccacc aggccaaaaa tgaggtgaaa taaaaaccta tcacctttag
      241 cattggtgag caattatatt ttcacccccc attttcctgt gaatattacc ttaaatctcc
      301 tcacctttac cttaaattac ctcacccaag caccttaaat tatatcacct ttaccttaaa
      361 tttccccacc tatgcacgtg taacgtattg tttttaatca ggaatttcga ccctaaaaca
      421 agtattaaaa acaagatctt aaaaacaaga tctaaaaact taacggcgag cctgtggata
      481 acttggggtg ctgaaaataa aaatcaaata aaaacaatgt attgcaaaaa atcaggattg
      541 aaaattccga atacaccccc tccaaccctg tggaaatcca gtattcatgc gggttcagcg
      601 catatcacct gtcgaaaaac cgtgcgtatg tgctcaacct ggcgactgat tcacttccgc
      661 ttcctcgccc actcgctcgc taacgttcgg tcgctgggct gcggcgagcg gacgatacaa
      721 tcactgctct ggcagcgcct ccagctcgtt aatcagcggc agtattcgcg tcacatcagc
      781 ctgccgtgtc acctctgcct tcaggaactg gagtaaccaa gctcgcaact gcacttcctc
      841 cggctttctg acctttgcca gcaatgctgc acccacaatg accttctgcg ctgtgtccag
      901 gctccggctc ttcgccttca ggcgctgtaa tctggcctca gcttcggcaa tcttctgttc
      961 gagtgttctg ctcatttcgt gactccgtgc gcggtgaaaa atcgcatttt agcgcgtcac
     1021 tggtagttta aaaactgagc tggcataatg cacggcaaat cacgaagtgc gcacttatac
     1081 aatctccact ccgtttcgat tgtgtgcgcc ctgcggggct gaaagaaaac tgcaaaaagg
     1141 cattacggca gaaatggcga tttatcatct cagtatgaaa atcatctcca gaagcaacgg
     1201 ctacagcgcc gttgcttctg ctgcctatcg ttctggttca ctaatgcttg atgagcgtac
     1261 cggactgact cacgactaca cccgcaaaag cggtgtggct gaggctgtga ttctgacccc
     1321 cgcgacagcc cctgcctggt gtacgaaccg tgccgaactc tggaatgccg ttgagaaggc
     1381 cgaacgccgg aagaactcac aacttgcgcg ggaaattgaa ctcgctatcc cccgtgaact
     1441 gccgcaggat gccgcacggg aaaccgttct cgcctttgtc agagaaaact ttgtcagtca
     1501 gggcatgatt gctgatgtgg cgttccatca catggataaa acaaatcccc atgcgcacat
     1561 catgctgacc acgagggctg tcggacctgc tgggttcggc ggaaaggtca gggactggaa
     1621 cgaccggaca catgccgaga cgtggcgtgc atcatgggct gaccatgcaa acagagcact
     1681 ggcgaacgcc gattatcagg aagagataga ccatcgttca tacgagcgac aggggcttga
     1741 gaaaacgcct ggtattcacc tcggaaagtc tgcctgtgcg atggaaacac gcggtatcga
     1801 aacagaacgc ggcgaacaga atcgtctgat taacaggctt aacctggaaa tacagatttc
     1861 ccgcactgaa ctcaggaaca gcgggctgac agagcctgtc cgccgtgtgg ctgaccttct
     1921 gaatatcggg cttcctgaca acgcaacttc gtacacacta cgtgacatta tcgaagcgtt
     1981 gccgaaggac agtaactcgg catggaaact caccagtaat gccatgtcga tgatggcaga
     2041 tatgcaggcg acgcgcagac gctgggaaga gctgaacacc gaacgaaagg aagcgatgag
     2101 ccatgctgcc agcctgaaaa aatcatcgcc gttttcgtcc ggtttttccc gtattcccct
     2161 tatgcaatgg gcggcaccgg aataccgtag tgagcaggga aaaatccagt ctctgagcca
     2221 gcaaatggaa aaattacgac agcattaccg gaaggtggag aaacaggaca ttcccgcgag
     2281 tcagatggca tttgaaaaac agtggcagca gtggggggaa tccggccttg cagctctcag
     2341 agcccagttg cttaaacgtg aagaggaatt gcgccggaag gaacaggaag atactgaacg
     2401 tagtcgcgcg gagcagctca ggaaaaatga caatgccgtt atggattcag gggtgctgag
     2461 agcagtcgtt acggggtatg gcgaggctcc catgcctggt aacggggaaa tgacctgtta
     2521 ccttctgctt cacaaccgga acggagaata tacgctctgg gggaacgagc tggagaaata
     2581 ccgcaccaga atctttgaga gtgttgattt aatgcgtgac aggagtggtt atatctgtga
     2641 ccgaagcgaa atcggccaac gtccgccact gcaacgtgtt tattcctctg caacctttga
     2701 gcaactgctg acgcaggttt gccagacatg gccgcaacat acccgcaatc tccgccagcc
     2761 gaagacatgg ccggagtctt tctgtcttgg agaagaccgc cagccagcca tgccatcact
     2821 ggcagcaagg aaggtggatt ttacgcaggg acgtctgcca ccgacgctga tgccggtaat
     2881 gagttctgtc gaccgggaaa cccgccagct tcagcttttg ctggtcatgg gcgtggatga
     2941 ctctctgggc ggtgttgtcc ggcttaatgg tacgctgtat cccgcgtttg ccgttccctc
     3001 agccgataac agccagctgg tcatcagtgc actgaccgat aaggggttac ggtatgcagg
     3061 gtatggtgtt gccgtaaatc acgatgcaga cagccacata tcacctgcgc cggaacttat
     3121 ggagtttcat ctgaaaaccc gtgaggcacc gctttttgct gccgtcaaca caccagaaaa
     3181 acagccggat catctgttcc gctcgctggg tttcaatcgt acctgggacg aatggcggcg
     3241 cgaggaagat gcaagaacac acaccaccga gaggagacat gatcgcggtt ggtcacagtg
     3301 aatgtgaaca atattttgtt ttgtttaaca tcgtgttatg ttcgtcgatg ttcttcgatg
     3361 ttcatcgaca gggatgaatg caagaagcac actcacataa tgcaagcata gttttgtttt
     3421 tccgccccca aaaattgggg gttctttttt ttgctgcatc agagcgtttt tgacgcaact
     3481 tttcacttca atagtacctt cgtattcctg acacaagaaa aacgcgacag tgagcgtttt
     3541 aggtgcctta aaatcgattc tagatcgtca tcttgatctg tttgtcttcc ttgaagcgaa
     3601 aatgcagggc tacaaccgtg cgcccctttt tgatcgtctc aaccgttaca gccaggtcgc
     3661 tttttttgtt cagttcgtca acacagggtt ttattagatc cctgtttaac gttttgaaat
     3721 ctttatattt accatcaagc atcagtgatg atttaaaatc atcgagggcg ataatacgtt
     3781 ccccagtact gcggaattgc tggagaattt cgtatattct tatgctgtaa cttcttgata
     3841 aattagaaat atttttaatg acgactctgg tgaattgccc cttcaactgt gtcagataag
     3901 gcattaccgc gtcagaaaaa gtgatttgtg ctttcccctc tcccctcgcg tactgtgccc
     3961 gatactgaat ccagcggaac tcctcgcgct tctcgtcgtc cttgagaatg atcgacctgt
     4021 cccacaaacg atcgatcgct tcctgtagct gaacctcggc atttttccgc cccatat
//
