LOCUS       NZ_CP054164             1393 bp    DNA     circular CON 10-DEC-2023
DEFINITION  Escherichia coli strain STO_Bone2 plasmid pBone2_3, complete
            sequence.
ACCESSION   NZ_CP054164
VERSION     NZ_CP054164.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN15006795
            Assembly: GCF_021498145.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 1393)
  AUTHORS   Li,F., Luthje,P., Shafeeq,S., Ahl,M., Akerlund,B. and Romling,U.
  TITLE     Characterization of Escherichia coli isolates from a chronic bone
            infection
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 1393)
  AUTHORS   Li,F., Luthje,P., Shafeeq,S. and Romling,U.
  TITLE     Direct Submission
  JOURNAL   Submitted (24-MAY-2020) Department of Microbiology, Tumor and Cell
            Biology, Karolinska Institutet, Solna vagen 9, Stockholm 17165,
            Sweden
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: HGAP v. 3
            Genome Representation             :: Full
            Expected Final Version            :: No
            Genome Coverage                   :: 1043x
            Sequencing Technology             :: PacBio RSII
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 12/10/2023 02:37:15
            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)                     :: 5,145
            CDSs (total)                      :: 5,018
            Genes (coding)                    :: 4,804
            CDSs (with protein)               :: 4,804
            Genes (RNA)                       :: 127
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 91
            ncRNAs                            :: 14
            Pseudo Genes (total)              :: 214
            CDSs (without protein)            :: 214
            Pseudo Genes (ambiguous residues) :: 0 of 214
            Pseudo Genes (frameshifted)       :: 82 of 214
            Pseudo Genes (incomplete)         :: 133 of 214
            Pseudo Genes (internal stop)      :: 52 of 214
            Pseudo Genes (multiple problems)  :: 47 of 214
            Pseudo Genes (short protein)      :: 4 of 214
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP054164.1.
            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..1393
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="STO_Bone2"
                     /isolation_source="bone infection of foot"
                     /host="Homo sapiens"
                     /db_xref="taxon:562"
                     /plasmid="pBone2_3"
                     /geo_loc_name="Sweden: Stockholm"
                     /lat_lon="59.351331 N 18.026000 E"
                     /collection_date="2005-01-01"
                     /collected_by="Karolinska University Hospital"
     gene            780..1256
                     /locus_tag="HRS05_RS25200"
                     /old_locus_tag="HRS05_25075"
     CDS             780..1256
                     /locus_tag="HRS05_RS25200"
                     /old_locus_tag="HRS05_25075"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000469298.1"
                     /GO_function="GO:0003677 - DNA binding [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="helix-turn-helix domain-containing protein"
                     /protein_id="WP_000469298.1"
                     /translation="MFIDSEKRLKQLSDEAKKNTEDLEEAKKNSRFTQVSPKGWERVRE
                     LLKDSQGISALKLYSFLAEHIDPTCGAVVADQQFLAEKLGVSRSTIIRWLNYLESKNAL
                     VRIPVAGKVCAYALDPHEVWKGYNTTKNHAAFVTKTLVNKDGDIQRRIMAMFSN"
                     /name="helix-turn-helix domain-containing protein"
     Typing          298..383
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="91.954"
                     /coverage="95.0"
                     /evalue="4.39e-26"
     Typing          complement(593..701)
                     /name="MOB_unknown"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="1.95e-50"
ORIGIN
        1 aaagcccctg gctaggggta tcggcgcgcc tgacctcctg aaacgctctg taagcgtttt
       61 tcgcgccttc catgccctga cgggcattta aaccccgcct cgtgcgtctg agagcttctg
      121 agcgcgtttg aagggctatc tgacgactca tccccgaaag aacaacagcg gaatcaccga
      181 caacatgcga gaggtggcac cgctcgccgc agccccagcg accgaacgtt agtgagcgag
      241 tgggcgagga agcggaagag aactggaaac cacattgagc acgtacgcac tgatacgggg
      301 tgtcggggcg aagccctgac cagatggcaa acggaatatc gtcgcgggtg acggtattac
      361 atttgcacat cctgtcccga tttctgcggg ggttaacggt gaacggacgg caaaaaacgt
      421 gcaggagctg ttgaacgtga aaaccacgaa atctggcaaa aatcacggct ggcgaggctt
      481 gcagaggagt aagccagtat acactccgct atcgctacgt gactgggtca gggcttcgcc
      541 ccgacacccc caaagggcgt tgcgttgcgc gcaacaccct tgcctagaat agatctttta
      601 cgccgatttg taagttgttg tttttttagt gtgttttttg tttacctgtc gcatccaggg
      661 tgacacaacg ttgtcgcatc ctggatgcga caacacgcaa caaggtgttg cacagatgtg
      721 tcatgatggc ttagatttga accaacgtta gtgcatggga tttttagagg gaaaaaatca
      781 tgtttattga ttcagaaaaa cgactgaaac aactttcaga tgaggcaaag aaaaacaccg
      841 aggatctcga agaagcaaag aagaattcaa ggtttacaca ggtatcccca aaaggttggg
      901 aacgcgttcg agagctgctg aaggatagcc aaggcatatc agcactgaag ctgtactcat
      961 ttttagcgga gcatatcgat cctacgtgtg gcgctgtcgt tgcggatcag caattcctag
     1021 ctgaaaaact tggagttagc agaagcacaa ttattcgttg gctcaattac ttagaatcaa
     1081 aaaatgcatt agttagaatc cccgttgctg gtaaggtttg tgcgtatgcc ctcgatccac
     1141 atgaagtctg gaagggatac aacactacga aaaaccatgc agcatttgtc actaaaacac
     1201 tggtcaacaa agacggtgat attcagcgcc gaatcatggc catgttttca aattgagcca
     1261 gcggcaggcg gacaatcagg ggttacgtgt taacgttctg accatgattg tctatcctgc
     1321 attgctcttt tgccgcctca aaatcccttg cgtgtttttg ctccccgatc tccagaacga
     1381 ccgagccgcc acg
//
