LOCUS       NZ_CP017223             5828 bp    DNA     circular CON 05-MAR-2024
DEFINITION  Escherichia coli strain FAM21845 plasmid pFAM21845_3, complete
            sequence.
ACCESSION   NZ_CP017223
VERSION     NZ_CP017223.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN05762409
            Assembly: GCF_002077195.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 5828)
  AUTHORS   Marti,R., Schmid,M., Kulli,S., Schneeberger,K., Naskova,J.,
            Knochel,S., Ahrens,C.H. and Hummerjohann,J.
  TITLE     Biofilm Formation Potential of Heat-Resistant Escherichia coli Dairy
            Isolates and the Complete Genome of Multidrug-Resistant,
            Heat-Resistant Strain FAM21845
  JOURNAL   Appl Environ Microbiol 83 (15), e00628-17 (2017)
   PUBMED   28550056
  REMARK    Publication Status: Online-Only
REFERENCE   2  (bases 1 to 5828)
  AUTHORS   Marti,R., Schmid,M., Kulli,S., Schneeberger,K., Naskova,J.,
            Ahrens,C.H. and Hummerjohann,J.
  TITLE     Direct Submission
  JOURNAL   Submitted (07-SEP-2016) Institute for Food Sciences IFS, Agroscope,
            Schwarzenburgstrasse 161, Bern, Bern 3003, Switzerland
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: HGAP v. v3; SPAdes v. v3.9.0
            Genome Coverage                   :: not specified
            Sequencing Technology             :: Illumina; PacBio
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 03/05/2024 02:40:10
            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)                     :: 5,124
            CDSs (total)                      :: 5,004
            Genes (coding)                    :: 4,741
            CDSs (with protein)               :: 4,741
            Genes (RNA)                       :: 120
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 88
            ncRNAs                            :: 10
            Pseudo Genes (total)              :: 263
            CDSs (without protein)            :: 263
            Pseudo Genes (ambiguous residues) :: 0 of 263
            Pseudo Genes (frameshifted)       :: 70 of 263
            Pseudo Genes (incomplete)         :: 177 of 263
            Pseudo Genes (internal stop)      :: 47 of 263
            Pseudo Genes (multiple problems)  :: 29 of 263
            Pseudo Genes (short protein)      :: 4 of 263
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP017223.1.
            Source DNA/strain available from Noam Shani, Agroscope Culture
            Collection, Schwarzenburgstrasse 161, 3003 Bern, Switzerland.
            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/
            This genome has a base modification file available.
            COMPLETENESS: full length.
FEATURES             Location/Qualifiers
     source          1..5828
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="FAM21845"
                     /serovar="O68:H14"
                     /isolation_source="raw milk cheese"
                     /db_xref="taxon:562"
                     /plasmid="pFAM21845_3"
                     /geo_loc_name="Switzerland"
                     /collection_date="2010-11"
     gene            complement(32..1171)
                     /gene="dcm"
                     /locus_tag="BHT24_RS27095"
                     /old_locus_tag="BHT24_25830"
     CDS             complement(32..1171)
                     /gene="dcm"
                     /locus_tag="BHT24_RS27095"
                     /old_locus_tag="BHT24_25830"
                     /EC_number="2.1.1.37"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000131511.1"
                     /GO_function="GO:0003886 - DNA
                     (cytosine-5-)-methyltransferase activity [Evidence IEA]"
                     /GO_process="GO:0006304 - DNA modification [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="DNA (cytosine-5-)-methyltransferase"
                     /protein_id="WP_000131511.1"
                     /translation="MTDNIAATIKEKRERLHMTQKEFADALGLSKYGDRTIRRWERGET
                     KPTGAELKAVIDFPDTPPYPNNENGRYRMIDLFAGIGGTRLGFHQTNAVNVVFSSEWDK
                     FAQKTYHANYGDFPDGDITKIDEKDIPDHEILVGGFPCVAFSQAGLKKGFNDTRGTLFF
                     DIARIIKEKKPHAFLLENVKNLLGHDKGRTFSIIKNTLEELNYTVYYNIFAAKDFGVPQ
                     NRERIYIVGFNKEKVRNHEHFTFPTPLKTKTRVGDILEKSVDNKYTLSDALWNGHQRRK
                     LVNAAAGKGFGYGLFNENSPYTNTISARYYKDGSEILIEQKGSNPRKITPREASRLQGF
                     PSDFIIPVSDTQAYKQFGNSVAVPVINAIAEKIISTLDS"
                     /name="dcm"
     gene            1281..2198
                     /locus_tag="BHT24_RS27100"
                     /old_locus_tag="BHT24_25835"
     CDS             1281..2198
                     /locus_tag="BHT24_RS27100"
                     /old_locus_tag="BHT24_25835"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001189381.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="type-2 restriction enzyme SsoII"
                     /protein_id="WP_001189381.1"
                     /translation="MQRLSPGEFKTLISKERKSHFITPFALVYKTFCDLGYDQKNSDYF
                     LNNPSEYIIAMRKNCWKEFEPFEKEFTTRMLSYLIDEERIKDMSPYDAIRDFTMEYPTH
                     IYDLALSNTQSRRSRAGKEFESILELLMMGAGIPVDVQGAIGKSFFQKNQIGKLVDLVM
                     PGVVQYTSNKRNTMLISAKTTLRERWQEVPEEVNRTGIREMYLATLDDSFSEETINILY
                     EANVVVVTTIENKNFKYKNNNRVLTFEDMLQSAMELSRKWNNVSYTDSEKEEIQRSILK
                     QIEKYSDFPYVVNYYRNRLSALFD"
                     /name="type-2 restriction enzyme SsoII"
     gene            complement(2390..2551)
                     /locus_tag="BHT24_RS28695"
     CDS             complement(2390..2551)
                     /locus_tag="BHT24_RS28695"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001354639.1"
                     /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_071596883.1"
                     /translation="MHEPPVQPDRCALSGNYRLESNPVRHALTPLAAATGNRISRARFI
                     QMLTEFLK"
                     /name="replication initiation protein"
     gene            complement(3225..3416)
                     /locus_tag="BHT24_RS27115"
                     /old_locus_tag="BHT24_25840"
     CDS             complement(3225..3416)
                     /locus_tag="BHT24_RS27115"
                     /old_locus_tag="BHT24_25840"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000165985.1"
                     /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_000165985.1"
                     /translation="MTKQEKTALNMARFIRSQTLTLLEKLNELDADEQADICESLHDHA
                     DELYRSCLARFGDDGENL"
                     /name="Rop family plasmid primer RNA-binding protein"
     gene            3481..3804
                     /locus_tag="BHT24_RS27120"
                     /old_locus_tag="BHT24_25845"
     CDS             3481..3804
                     /locus_tag="BHT24_RS27120"
                     /old_locus_tag="BHT24_25845"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000956000.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MobC family plasmid mobilization relaxosome
                     protein"
                     /protein_id="WP_052994485.1"
                     /translation="MLTIRVTDDEHARLLERCEGKQLAVWMRRVCLGEPVARSGRLPTL
                     APPLLRQLAAIGNNLNQTARKVNSGQWSSGDRVQVVAALMAIERELRSLRQMVREQRVQ
                     DDS"
                     /name="MobC family plasmid mobilization relaxosome protein"
     gene            4013..>4444
                     /locus_tag="BHT24_RS28495"
                     /pseudo=""
     CDS             4013..>4444
                     /locus_tag="BHT24_RS28495"
                     /inference="COORDINATES: protein motif:HMM:NF015397.4"
                     /note="incomplete; partial in the middle of a contig;
                     missing C-terminus; Derived by automated computational
                     analysis using gene prediction method: Protein Homology."
                     /pseudo=""
                     /codon_start=1
                     /transl_table=11
                     /product="relaxase/mobilization nuclease domain-containing
                     protein"
                     /name="relaxase/mobilization nuclease domain-containing
                     protein"
     gene            4482..5012
                     /locus_tag="BHT24_RS27875"
                     /old_locus_tag="BHT24_25850"
     CDS             4482..5012
                     /locus_tag="BHT24_RS27875"
                     /old_locus_tag="BHT24_25850"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001673158.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MbeB family mobilization protein"
                     /protein_id="WP_052994484.1"
                     /translation="MSNLLQTGAEFEKKLKERAESTETMLNDEFSKLEKSVSKAVTSNE
                     TKIKDAIALFTASTEESLKKHREGVKEAMMQHRKDVLKLAGNTGMMLLGMVIFLFTVSG
                     GTLWYLGGMIQANLEEIRKQNENLEKLNAKTWGVRYHEGSNGRFLVLPKGMKAETNWTM
                     ENGKQNAVRLVQE"
                     /name="MbeB family mobilization protein"
     gene            5019..5252
                     /locus_tag="BHT24_RS27880"
                     /old_locus_tag="BHT24_25855"
     CDS             5019..5252
                     /locus_tag="BHT24_RS27880"
                     /old_locus_tag="BHT24_25855"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000137438.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MbeD family mobilization/exclusion protein"
                     /protein_id="WP_052994483.1"
                     /translation="MTELERYLLNALEQLQQDYMQRLNEWESAFVELQKMFSLTQRDNA
                     MLNERVMQLSQQVQHLSEQTERLSQLYSENRR"
                     /name="MbeD family mobilization/exclusion protein"
     Typing          3050..3131
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="1.3400000000000002e-35"
     Typing          complement(2480..3030)
                     /name="rep_cluster_2350"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="94.033"
                     /coverage="100.0"
                     /evalue="0.0"
     Typing          3795..5356
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="98.848"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 tctgggccgc attgtgtcct tatgacttag tttatgaatc taaggtcgat atgatttttt
       61 ctgctattgc attgataaca gggactgcga ctgaattccc aaattgctta taagcctgtg
      121 tatccgatac agggataata aaatcactag gaaacccttg aagtcttgac gcttcccgcg
      181 gagttatttt tcttgggtta cttccttttt gctctattaa tatttcgcta ccatctttat
      241 agtacctcgc acttatggta ttagtatatg ggctattttc attaaataaa ccatacccaa
      301 agcctttacc ggctgctgca tttacaagtt tcctgcgttg gtgtccattc cagagcgcat
      361 ctgatagcgt atatttattg tctacgctct tttcaagaat atctccaact cttgtttttg
      421 tttttaatgg ggttggaaaa gtaaaatgtt catgatttct tactttttct ttattaaagc
      481 ctacaatgta tatgcgctct ctattttgtg gaacaccaaa gtcttttgca gcgaagatat
      541 tgtaatacac agtgtaattc aattcttcaa gtgtgttttt tattattgaa aaagttctac
      601 ctttatcatg tcctagcaag ttttttacat tttcaagtaa aaaagcatga ggtttttttt
      661 cctttattat ccttgctata tcaaaaaaca aagttcctct tgtatcatta aatccttttt
      721 tgaggcctgc ttgagagaat gctacacaag gaaacccacc gacaagaatt tcatgatcag
      781 gaatatcttt ttcatcgatt tttgttatgt ccccatcagg gaaatcacca taatttgcat
      841 gatatgtctt ttgagcaaac ttatcccatt cgctggaaaa aacaacattt acagcgttag
      901 tttgatgaaa tccaagtctg gttccaccga ttccagcaaa taaatcgatc atgcgatatc
      961 tgccattctc gttgtttggg taaggtggtg tgtctggaaa gtctataact gcttttagtt
     1021 ccgccccagt aggttttgtt tccccgcgct cccatcttct tatggttctg tctccatatt
     1081 ttgaaagacc aagggcgtct gcaaactctt tttgagtcat atgaagtctt tctctttttt
     1141 ctttgattgt tgctgcgata ttatcagtca tgcatgtcta ccagaattaa gtgttggttt
     1201 taggacaatt tgtcctgttt tgattccaat tatgaacgtg catgaaaaaa ctttcaagta
     1261 gatataaaag gttatttttt atgcaaagat taagtcctgg tgaatttaaa actctaattt
     1321 ctaaagagag aaaatcgcat tttattacac catttgcttt ggtttataaa acattttgtg
     1381 atttagggta tgatcaaaaa aatagtgatt attttttgaa taatccaagt gaatatataa
     1441 ttgcaatgag aaaaaactgt tggaaagaat ttgaaccatt tgaaaaagaa ttcacaacaa
     1501 gaatgttatc atatcttatt gatgaagaaa gaataaaaga tatgagtcct tatgatgcca
     1561 ttcgtgattt tacgatggaa taccctacac acatatatga tttggcactg tctaacactc
     1621 aatccagacg tagcagggca ggaaaagagt ttgagtctat tcttgagcta ttaatgatgg
     1681 gggcaggaat tcctgttgat gtgcaggggg ctattgggaa gtcatttttt caaaaaaacc
     1741 aaataggtaa acttgtagat cttgttatgc caggtgtagt ccagtacaca tctaacaaaa
     1801 gaaatacaat gttgatttcc gctaaaacaa cgctgaggga gcgatggcaa gaagtacctg
     1861 aagaggttaa tagaacagga attagagaaa tgtatctagc tacactagat gattctttta
     1921 gcgaggagac aataaatata ttgtacgagg ctaatgtggt cgttgtaacg acgatagaaa
     1981 ataaaaattt caaatataaa aataataata gggtgctaac ctttgaagat atgcttcagt
     2041 cagcaatgga attatcaaga aagtggaata atgtaagtta cacagactct gaaaaagagg
     2101 aaattcaacg gtcaatatta aaacaaatag aaaaatatag tgatttccct tatgttgtta
     2161 attattatag aaataggctt agtgctcttt ttgactaaaa aactaaaagg atctcttgag
     2221 atcctttttt tctgcgcgta atcttggacc tgtaaacgaa aaaaccaccc tggcaggtgg
     2281 ttttttcgaa ggttagctaa tcctggcaga ttatctaacc gaggtaatct ggcttcagca
     2341 gagcacagat accaaatact gtccttccag tgtagccgta gttaggccat cacttcaaga
     2401 actctgtaag catctggata aatctcgctc tgctaatccg gttaccagtg gctgctgcca
     2461 gtggcgttaa ggcgtgtctt accgggttgg actcaagacg atagttaccg gataaggcgc
     2521 agcggtcggg ctgaacgggg ggttcgtgca cacagcccag cttggagcga acgacctaca
     2581 ccgaactgag ataccaacag cgtgagctat gagaaagcgc cacgcttccc gaagggagaa
     2641 aggcggacag gtatccggta agcggcaggg tcggaacagg agagcgcacg agggagcgac
     2701 cagggggaaa cgcctgggat ctttatagtc ctgtcgggtt tcgccacctc tgacttgagc
     2761 gtcgattttt gtgatgctcg tcaggggggc ggagcctatg gaaaaacgcc agcggcgcgg
     2821 cctttttcct tggttttgcc tttttgttca catgttcttt ccggccttat cccctgattc
     2881 tgtggataac cgcattaccg tctttgcgtg agctgatacc gctcgccgca gccgaacgac
     2941 cgagcgtagc gagtcagtga gcgaggaagc ggaagagcgc ctgatgcggt attttctcct
     3001 tacgcatctg tgcggtattt cacaccgcat atggtgctct tttcttataa tccgcactga
     3061 tgccacatag ttaagccagt atacactccg ctatcgctac gtgactgggt catggctgcg
     3121 ccccgacacc cgcaaggtca acggcctgac gcgccctgac gggcttgtct gctcccggca
     3181 tccgctcaca gacaagctgt gaccgtctcc gggagctgta tgtgtcagag gttttcaccg
     3241 tcatccccga agcgtgcgag gcagctgcgg taaagctcgt cggcgtggtc gtgaagtgat
     3301 tcacaaatat cggcctgttc atctgcgtcc agttcgttga gtttctccag cagcgttaat
     3361 gtctggcttc tgataaagcg ggccatgtta agggcggttt tttcctgttt agtcactgat
     3421 gcctccgtgt aagggggatt tctgttttat ggggtaatga taccgatgaa acgcgagagg
     3481 atgctcacaa tacgggttac tgatgatgaa catgcccggt tacttgaacg ctgtgagggt
     3541 aaacagctgg cggtatggat gcggcgggtc tgtctgggtg agccggttgc ccgctccggg
     3601 aggctgccga cactggcacc gccgttactg cgtcagctgg ccgccatcgg gaataacctg
     3661 aatcagactg cgaggaaggt gaacagcggg cagtggtctt ccggtgaccg ggttcaggtg
     3721 gtggccgcac tgatggccat cgagagagag ttgcgcagct tacggcagat ggtcagggaa
     3781 cagagagtgc aggatgatag ttaagtttca tgccagggga aaaggtggtg gcagtggtcc
     3841 ggttgattac ctgctgggaa gggagcgaaa ccgggaaggg gcaacggtgc ttcagggtaa
     3901 tccggaagaa gtccgggaac tcatcgatgc cacgccattt gcgaagaaat acacgtcagg
     3961 tgttctgtcg ttcgcggaga aggagctgcc gccgggagga cgtgaaaagg tgatggcgag
     4021 ctttgagcgt gtactgatgc ccggtctcga aaagaatcag tacagcatcc tgtgggtgga
     4081 gcaccaggac aagggacggc ttgagctgaa ttttgtcatt ccgaacatgg agctacagac
     4141 cggaaaacgc ctccagccgt actacgaccg ggcagacagg ccgagaattg atgcctggca
     4201 gacgctggtt aatcaccatt acgggctgca tgaccccaac gccccggaga accgccggac
     4261 gctgaccctt cctgataacc tgccggaaac gaaacaggcg cttgcagaga gcgtcacacg
     4321 cgggatagac gctctttatc atgtcgggga gataaaaggc cgtcaggatg tgattcaggc
     4381 gctcacagag gcagggcttg aagtggtcag ggtgacgcga agcagtatca gcattgcaga
     4441 cccgaacggt gggaagaata tcaggctgaa aggagcattt tatgagcaat cttttacaga
     4501 cgggcgcgga gttcgagaaa aagctgaaag agagagccga atctacagag acaatgctga
     4561 acgacgagtt cagcaagctc gaaaaatctg taagcaaggc tgtgacatca aacgagacga
     4621 aaatcaaaga cgctatagcc ctgttcacag cttcgacaga ggaatcactg aaaaaacacc
     4681 gggaaggggt gaaagaggcg atgatgcagc acaggaagga cgtgttaaag ctggcaggga
     4741 atacgggcat gatgttactg gggatggtca ttttcctgtt taccgtgagt ggcgggacgc
     4801 tctggtatct tggcgggatg atacaggcga acctggaaga aatcaggaag cagaacgaga
     4861 atctggagaa gctgaacgcg aagacatggg gcgtgcgtta tcacgagggg agcaacggac
     4921 gttttctggt gttgcccaag gggatgaaag ccgaaacgaa ctggacgatg gaaaacggga
     4981 aacagaatgc cgtaaggctg gtacaggagt aacagagcat gacggagctg gaaagatatt
     5041 tgctgaacgc attagagcaa ctgcaacagg actatatgca gcggctgaac gaatgggaga
     5101 gcgccttcgt ggaattgcag aaaatgtttt cgcttacgca acgggacaac gcgatgctga
     5161 acgagcgggt catgcagttg agtcagcagg tgcagcactt gagcgagcag acagaacgct
     5221 tgagccagtt atacagcgag aacaggagat aagggacgaa cggctgatac aggaacgcga
     5281 acatgcgtta tccctggagc gtgagcgcca gctggaaata caggaacgga cactggatgg
     5341 cccttcgctg ggatggtaat cagaggcagg ctaaaatgtt gtcagcgcgt ttccggtgca
     5401 ttttttggga taatggttgg ttcgggggca ctgggaacgc gcttcagtca gaccttgctg
     5461 aaaacacagg aacgcgttaa aacgcatacg ggcgcgattc tggtgtgtct tttgttgctg
     5521 tgttttgcct ctattgccag atcgcgctca ttcccctgaa cttctgtttt cccgctccgg
     5581 tccccgtctt cttcgcttcc gaaagcatga aaaaaatccg tttcagctgt ctctggctgg
     5641 caattcctgc gtgattcaca tggctgcata gctatgcatg tggttaaaat ttaccgggtg
     5701 cgatcgcggc agtttttcgg gtggtttgtt gccattttta cctgtctgct gccgtgatcg
     5761 cgccgaacgc gtttcagtgg tgcgtacaat gcggcgttat ggtaaatcca tatggggggt
     5821 aattggat
//
