LOCUS       NZ_CP124402             5153 bp    DNA     circular CON 10-JUN-2024
DEFINITION  Escherichia coli strain AVS0528 plasmid pAVS0528-B, complete
            sequence.
ACCESSION   NZ_CP124402
VERSION     NZ_CP124402.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN34360978
            Assembly: GCF_030039425.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 5153)
  AUTHORS   Biggel,M.
  TITLE     Genomic characteristics of ESBL-producing Escherichia coli ST131
            isolated from the water ecosystem in a defined region in Switzerland
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 5153)
  AUTHORS   Biggel,M.
  TITLE     Direct Submission
  JOURNAL   Submitted (26-APR-2023) Institute for Food Safety and Hygiene,
            University of Zurich, Winterthurerstrasse 272, Zurich 8057,
            Switzerland
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: Unicycler v. 0.5.0
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 100x, 100x
            Sequencing Technology :: Illumina MiniSeq, Oxford Nanopore
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_030039425.1-RS_2024_06_10
            Annotation Date                   :: 06/10/2024 05:21:18
            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)                     :: 4,974
            CDSs (total)                      :: 4,865
            Genes (coding)                    :: 4,655
            CDSs (with protein)               :: 4,655
            Genes (RNA)                       :: 109
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 82
            ncRNAs                            :: 5
            Pseudo Genes (total)              :: 210
            CDSs (without protein)            :: 210
            Pseudo Genes (ambiguous residues) :: 0 of 210
            Pseudo Genes (frameshifted)       :: 83 of 210
            Pseudo Genes (incomplete)         :: 151 of 210
            Pseudo Genes (internal stop)      :: 38 of 210
            Pseudo Genes (multiple problems)  :: 53 of 210
            Pseudo Genes (short protein)      :: 1 of 210
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP124402.1.
            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..5153
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="AVS0528"
                     /isolation_source="wastewater"
                     /db_xref="taxon:562"
                     /plasmid="pAVS0528-B"
                     /geo_loc_name="Switzerland: Kanton Zug"
                     /collection_date="2021-06-17"
                     /collected_by="Amt fuer Verbraucherschutz, Kanton Zug"
     gene            17..154
                     /locus_tag="QJP80_RS24765"
                     /old_locus_tag="QJP80_24765"
     CDS             17..154
                     /locus_tag="QJP80_RS24765"
                     /old_locus_tag="QJP80_24765"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001405930.1"
                     /GO_component="GO:0019867 - outer membrane [Evidence IEA]"
                     /GO_process="GO:0019835 - cytolysis [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="colicin release lysis protein"
                     /protein_id="WP_001329514.1"
                     /translation="MRKRFFVGIFAINLLVGCQANYIRDVQGGTVAPSSSSKLTGISVQ
                     "
                     /name="colicin release lysis protein"
     gene            complement(996..1190)
                     /locus_tag="QJP80_RS24770"
                     /old_locus_tag="QJP80_24770"
     CDS             complement(996..1190)
                     /locus_tag="QJP80_RS24770"
                     /old_locus_tag="QJP80_24770"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001041639.1"
                     /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_001041621.1"
                     /translation="MNKQQQAVLNMAGFIKSQSLTLLEKLDALDADEQATMCEKLHELA
                     EELQNSIQTRFEVENSTER"
                     /name="Rop family plasmid primer RNA-binding protein"
     gene            1474..1797
                     /gene="mobA"
                     /locus_tag="QJP80_RS24775"
                     /old_locus_tag="QJP80_24775"
     CDS             1474..1797
                     /gene="mobA"
                     /locus_tag="QJP80_RS24775"
                     /old_locus_tag="QJP80_24775"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:NP_052604.1"
                     /GO_process="GO:0006355 - regulation of DNA-templated
                     transcription [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="plasmid mobilization protein MobA"
                     /protein_id="WP_001437508.1"
                     /translation="MTKRSGSNTRRRAISRPVRLTAEEEQEIRKRAAECGKTVSGFLRA
                     AALGKKVNSLTDDRVLKEVMRLGALQKKLFIDGKRVGDREYAEVLIAITEYHRALLSRL
                     MAD"
                     /name="mobA"
     gene            complement(2022..2441)
                     /locus_tag="QJP80_RS24780"
                     /old_locus_tag="QJP80_24780"
     CDS             complement(2022..2441)
                     /locus_tag="QJP80_RS24780"
                     /old_locus_tag="QJP80_24780"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_016247941.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="Exc2 family lipoprotein"
                     /protein_id="WP_001254967.1"
                     /translation="MRRTGNKLCLIAMITATVALTACTPKGSVEQHTRHYVYASDDGFD
                     PNFSTQKADTTRMMVPFFRQFWDMGAKDKATGKSRSDVQQRIQQFHSQEFLNSLRGTTQ
                     FAGTDYRSKDLTPKKSRLLADTISAVYLDGYEGRQ"
                     /name="Exc2 family lipoprotein"
     gene            complement(2522..2959)
                     /locus_tag="QJP80_RS24785"
                     /old_locus_tag="QJP80_24785"
     CDS             complement(2522..2959)
                     /locus_tag="QJP80_RS24785"
                     /old_locus_tag="QJP80_24785"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001749514.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_001318234.1"
                     /translation="MGHCNFMAWHTLRDALKMTGRSRSQFYRDMRSGLVSYRTSQDGRR
                     EFETSELIRAYGELKRNETPERHTQGHSEKPHDQQTERILRELNELKQCLTLMLEDKQA
                     QDTERRRQEAERKQLQNEIAQLRQALEQEKKRGFWSRLFGH"
                     /name="hypothetical protein"
     gene            3219..4784
                     /locus_tag="QJP80_RS24790"
                     /old_locus_tag="QJP80_24790"
     CDS             3219..4784
                     /locus_tag="QJP80_RS24790"
                     /old_locus_tag="QJP80_24790"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000447006.1"
                     /GO_component="GO:0016020 - membrane [Evidence IEA]"
                     /GO_function="GO:0140911 - pore-forming activity [Evidence
                     IEA]"
                     /GO_process="GO:0019835 - cytolysis [Evidence IEA];
                     GO:0050829 - defense response to Gram-negative bacterium
                     [Evidence IEA]; GO:0031640 - killing of cells of another
                     organism [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="colicin-like pore-forming protein"
                     /protein_id="WP_083575038.1"
                     /translation="METAVAYYKDGVPYDDKGQVIITLLNGNPDGSGSGGGGGTGGSKS
                     ESSAAIHATAKWSTAQLKKTQAEQAARAKAAAEAQAKAKANRDALTQHLKDIVNEALRH
                     NSTHPEVIDLAHANNAAMQAEAERLRLAKAEEKARKEAEAAEKAFQEAEQRRKEIEKEQ
                     AETERQLKLAEDEEKRLAALSEEARAVEVAQKNLAAAQSELVKVDEEINTLNTRLSSSI
                     HARDAETNTLSGKRNELDQASAKYKELDERVKLLSPRANDPLQSRPFFEATRLRARAGD
                     EMEEKQKQVTASETRLNQISSEINGIQEAISQANNKRSTAVSRIHDAEDNLKTAQTNLL
                     NSQIKDAVDATVSFYQTLSEKYGEKYSKMAQELADKSKGKKISNVNEALAAFEKYKDVL
                     NKKFSKADRDAIFNALEAVKYEDWAKHLDQFAKYLKITGHVSFGYDVVSDILKIKDTGD
                     WKPLFLTLEKKAVDAGVSYVVVLLFSVLAGTTLGIWGIAIVTGILCAFIDKNKLNTINE
                     VLGI"
                     /name="colicin-like pore-forming protein"
     gene            complement(4781..5122)
                     /locus_tag="QJP80_RS24795"
                     /old_locus_tag="QJP80_24795"
     CDS             complement(4781..5122)
                     /locus_tag="QJP80_RS24795"
                     /old_locus_tag="QJP80_24795"
                     /inference="COORDINATES: protein motif:HMM:NF015489.4"
                     /GO_function="GO:0015643 - toxic substance binding
                     [Evidence IEA]"
                     /GO_process="GO:0030153 - bacteriocin immunity [Evidence
                     IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="colicin E1 family microcin immunity protein"
                     /protein_id="WP_000058755.1"
                     /translation="MSLRYYIKNILFGLYCALIYIYLITKNNEGYYFLASDKMLYAIVI
                     STILCPYSKYAIEHIFFKFIKKDFFRKRKNLNNAPVAKLNLFMLYNLLCLVLAIPFGLL
                     GLFISIKNN"
                     /name="colicin E1 family microcin immunity protein"
     Typing          1226..1465
                     /name="MOB_unknown"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="99.585"
                     /coverage="100.0"
                     /evalue="3.54e-121"
     Typing          complement(438..967)
                     /name="rep_cluster_2350"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="94.59"
                     /coverage="97.0"
                     /evalue="0.0"
     Typing          1475..1794
                     /name="MOBF"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="98.131"
                     /coverage="100.0"
                     /evalue="1.3199999999999998e-61"
ORIGIN
        1 ttataaggat cgagttatga ggaaaagatt ttttgtggga atattcgcta taaacctcct
       61 tgttggatgt caggctaact atatacgtga tgttcaggga gggactgtgg ctccatcatc
      121 ttcttctaaa ttgacgggga tctctgttca gtagaaaaga tcaaaggatc ttcttgagat
      181 cctttttttc tgcgcgtaat ctgctgcctg taaacgaaaa aaccgcctgg ggaggcggtt
      241 tgatcgaagg ttaagtcagt tggggaactg cttaaccgag gtaactggct tcagcagagc
      301 gcagatacca aatactgtcc ttccagtgta gccgtagtcg ggccactact tcaagaactc
      361 tgttgcacca tttgcgccat catcgctctg ctaaccaagt taccaacggc tgctgccagt
      421 ggcgctaagt cgtgtcttac cgggttggac tcaagacgat agttaccgga taaggcgcag
      481 cggtcgggct gaacgggggg ttcgtgcaca cagcccagct tggagcgaac gacctacacc
      541 gagccgagat accaacagcg tgagctatga gaaagcgcca cgcttcccga agggagaaag
      601 gcggacaggt atccggtaag cggcagggtc ggaacaggag agcgcacgag ggagcttcca
      661 gggggaaacg cctggtatct ttatagtcct gtcgggtttc gccacctctg gcttgagcgt
      721 cgatttttgt gatgctcgtc aggggggcgg agcctatgga aaaacgcctg cggcgctggc
      781 ttcttccggt gctttgcttt ttgctcacat gttctttccg gctttatccc ctgattctgt
      841 ggataaccgt attaccgctt ttgagtgagc tgacaccgct cgccgcagtc gaacgtccga
      901 gcgtagcgag tcagtgagcg aggaagcgga agagcgcctt atgtgacatt ttctccttac
      961 gctctgttgt gccgttcggc atcctgtcct gagcgttatc tctctgtgct attttctact
     1021 tcaaagcgtg tctggatgct gttctggagt tcttctgcga gttcgtgcag cttctcacac
     1081 atggtagcct gttcgtcagc atcgagtgcg tccagctttt cgagcagcgt caggctttgg
     1141 ctttttatga atcctgccat gttgagtacg gcttgctgct gcttgttcat cttttcgttt
     1201 tctccgttct gtctgtcatc tgcgttgtgt gattatatcg cgtaccactt ttcgactgtt
     1261 ttaccgccgg tattctgccg tctgaagctt tgacgggtat ttctgcctga caatactgtc
     1321 actgccaaaa aactgccgtg cctttgtcgg taattcgaac ttgctgacag gacaggatgt
     1381 gtaattgtta taccgcgcat acatgcacgc tattacaatt accctggtca gggctttgcc
     1441 ccgacaccca tgtcagatac ggagccatgt tttatgacaa aacgaagtgg aagtaatacg
     1501 cgcaggcggg ctatcagtcg ccctgttcgt ctgacggcag aagaagaaca ggaaatcaga
     1561 aaaagggctg ctgaatgcgg caagaccgtt tccggttttt tacgggcggc agctctcggt
     1621 aagaaagtta actcactgac tgatgatcgg gtactgaaag aagttatgag actgggggcg
     1681 ttacagaaaa aactctttat cgacggcaag cgtgtcgggg acagggagta tgcggaggtg
     1741 ctgatcgcta ttacggagta tcaccgtgcc ctgttatcca ggcttatggc agattagctt
     1801 cccggagaga aaactgtcga aaactgacgg tatgaacacc gtaagctccc aaagtgatca
     1861 ccattcgctt tcatgcatag ctatgcagag agctgaaaac gatcctgacg catccttcct
     1921 gtttttccgg ggtaaaacat ctctttttgc ggtgtctgcg tcagaatcgc gttcagcgcg
     1981 tttcagtggt gcgtacaatt aagggattat ggtaaatcca cttactgtct gccctcgtag
     2041 ccatcgagat aaaccgcaga aatcgtgtca gccagcagcc tggatttttt cggggtaagg
     2101 tctttgctgc ggtaatcagt acccgcaaat tgagttgtgc cccggagtga gtttaaaaat
     2161 tcctggctgt gaaactgttg aatgcgttgt tgcacatcac tccgtgattt tcctgtcgct
     2221 ttatctttag ctcccatatc ccagaactgc cgaaaaaaag gcaccatcat tcgtgttgtg
     2281 tcggcttttt gggtggaaaa gttgggatca aaaccgtcat cagaagcata tacgtaatgc
     2341 cgggtatgtt gttccacgct gccctttggg gtacaggctg tgagagctac tgttgctgtt
     2401 atcatggcga taagacaaag tttgtttccg gtacgtctca tgagtgtctc cctaccttaa
     2461 agtatttatt ctcggtgagt tattatccga agattatctt atcatcagtt tctgagcgcg
     2521 ttcagtgacc gaacagcctg gaccagaatc cccgtttctt ttcctgctcc agagcctgcc
     2581 tgagctgggc tatctcattc tgtagctgtt tccgttctgc ttcctggcgc cggcgctccg
     2641 tatcctgggc ttgtttatcc tcaagcatca gcgtcaggca ttgtttcagc tcattcagtt
     2701 cccggagaat gcgttctgtc tgctgatcat gaggtttttc tgagtgtcct tgagtgtgcc
     2761 tttctggtgt ctcattccgc tttaattcgc cgtatgcccg gatcagttca ctggtttcaa
     2821 actcccgtcg tccgtcctgg ctggtacggt aactgacaag acctgagcgc atatcacggt
     2881 aaaactgtga acgcgatctt ccagtcattt tcagtgcgtc ccggagtgtg tgccatgcca
     2941 taaagttaca gtgtcccata ggtgtctcat ctcatggttt cagtaaaaca taatgaggtc
     3001 tgagaacggt aatgtttgtg ctggtttttg tggcatcggg tggaaatagc acgtggtgtg
     3061 ggtggctgtt tttttgatcg ttttcacaaa aatgaaaatc cacagggttg acagggaaaa
     3121 tacagcggcg taatttcaaa ctgtatataa aaccagtgat tatatataca gtatattgct
     3181 tttaactatt tgtttttaat gtcaaagagg attttataat ggaaacagct gtagcgtact
     3241 ataaagatgg tgttccttat gatgataagg ggcaggtaat cattactctt ttgaatggta
     3301 atccagacgg gagtggctct ggcggtggtg gtggaactgg aggtagcaaa agtgaaagtt
     3361 ctgcagccat tcatgccaca gctaaatggt ctactgctca attgaagaaa acgcaggcag
     3421 aacaggctgc ccgagcaaaa gctgccgcag aagcacaggc taaagcaaaa gcaaaccggg
     3481 atgcgctgac tcaacatctg aaggatattg tgaatgaggc gcttcgccat aattccactc
     3541 atccggaggt tattgacctg gctcatgcca ataatgcagc gatgcaggca gaagcagagc
     3601 ggttgcgcct tgcaaaagca gaagaaaaag cccgtaaaga agcggaagct gcggaaaagg
     3661 cttttcagga agcagaacaa cgacgtaaag agatagagaa ggagcaggct gaaacagaac
     3721 gccaattgaa actggctgag gatgaagaga aacgcctggc agcattgagt gaagaggccc
     3781 gggctgtgga ggtggcacaa aaaaatcttg ctgctgcaca atctgagctg gtgaaagtgg
     3841 atgaagagat taatacgctc aatacccgtt taagctccag tattcatgcc cgtgatgcag
     3901 aaacgaatac gctgtccgga aaacgaaatg agttggatca ggcatctgct aaatataaag
     3961 aactggatga aagggttaaa cttttatctc ctagggcgaa tgatccgctt cagagccgtc
     4021 ctttttttga ggccaccaga ctacgggcga gagctggtga tgagatggag gaaaaacaaa
     4081 agcaggtaac agcatcagaa acgcgtctta accagattag ctctgagata aatggaatcc
     4141 aagaggctat ttctcaggct aataataagc gaagtacagc agtttcacgt attcatgatg
     4201 ctgaagataa tttgaaaaca gcacagacta atctcctgaa ctcgcagatt aaggatgctg
     4261 tggatgcaac agttagcttt tatcaaacgc tatctgaaaa atatggtgaa aaatattcaa
     4321 aaatggcaca ggaacttgct gataaatcta aaggtaagaa aatcagcaat gtgaatgaag
     4381 ctctagctgc ttttgagaaa tacaaggatg tattaaataa gaaattcagc aaagcagacc
     4441 gtgatgcaat tttcaatgca ctggaggcgg ttaagtatga agactgggct aagcatttag
     4501 atcagtttgc caagtacttg aagattacgg gacatgtttc ttttggatat gatgtggtat
     4561 ctgatatcct aaaaattaag gatacaggtg actggaagcc gctatttctt acattagaga
     4621 agaaagctgt agatgctgga gttagttatg ttgttgtttt actttttagt gtgcttgctg
     4681 gaactacatt aggtatctgg gggattgcta ttgttacagg cattctatgt gcctttattg
     4741 ataagaataa acttaatact ataaatgagg tgttgggtat ttaattattc tttattgata
     4801 taaacagtcc tagcaatcca aatgggattg ctaggaccaa acaaagtaga ttgtatagca
     4861 taaataggtt taattttgcc acgggggcat tatttaggtt ttttcttttt ctgaaaaaat
     4921 ctttctttat gaacttaaaa aatatgtgtt caatagcata ttttgaatat gggcatagaa
     4981 tagtgcttat cactattgcg tatagcatct tatctgacgc taggaaataa tacccttcgt
     5041 tgttttttgt tataaggtat atatatataa gtgcgcagta taggccaaac aaaatatttt
     5101 ttatgtagta tcttaaactc ataaattaaa cctcgttata tattcttttc att
//
