LOCUS       NZ_CP012630             1551 bp    DNA     circular CON 11-JUN-2024
DEFINITION  Escherichia coli strain SF-468 plasmid pSF-468-5, complete sequence.
ACCESSION   NZ_CP012630
VERSION     NZ_CP012630.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN04026228
            Assembly: GCF_001280345.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 1551)
  AUTHORS   Stephens,C.M., Skerker,J.M., Sekhon,M.S., Arkin,A.P. and Riley,L.W.
  TITLE     Complete Genome Sequences of Four Escherichia coli ST95 Isolates
            from Bloodstream Infections
  JOURNAL   Genome Announc 3 (6), e01241-15 (2015)
   PUBMED   26543109
  REMARK    Publication Status: Online-Only
REFERENCE   2  (bases 1 to 1551)
  AUTHORS   Stephens,C.M., Skerker,J., Sekhon,M., Arkin,A. and Riley,L.W.
  TITLE     Direct Submission
  JOURNAL   Submitted (04-SEP-2015) Biology, Santa Clara University, 500 El
            Camino Real, Santa Clara, CA 95053, USA
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: HGAP v. 3
            Genome Coverage                   :: 90X
            Sequencing Technology             :: PacBio
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_001280345.1-RS_2024_06_11
            Annotation Date                   :: 06/11/2024 02:21:39
            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)                     :: 5,367
            CDSs (total)                      :: 5,248
            Genes (coding)                    :: 5,017
            CDSs (with protein)               :: 5,017
            Genes (RNA)                       :: 119
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 91
            ncRNAs                            :: 6
            Pseudo Genes (total)              :: 231
            CDSs (without protein)            :: 231
            Pseudo Genes (ambiguous residues) :: 0 of 231
            Pseudo Genes (frameshifted)       :: 98 of 231
            Pseudo Genes (incomplete)         :: 137 of 231
            Pseudo Genes (internal stop)      :: 46 of 231
            Pseudo Genes (multiple problems)  :: 46 of 231
            Pseudo Genes (short protein)      :: 1 of 231
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP012630.1.
            Source DNA is available from: Craig Stephens, Biology Dept., Santa
            Clara University, Santa Clara, CA, 95053.
            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..1551
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="SF-468"
                     /isolation_source="patient blood"
                     /host="Homo sapiens"
                     /db_xref="taxon:562"
                     /plasmid="pSF-468-5"
                     /geo_loc_name="USA: San Francisco"
                     /lat_lon="37.755651 N 122.404572 W"
                     /collection_date="2010-04-05"
                     /collected_by="SFGH"
     gene            complement(join(1525..1551,1..195))
                     /locus_tag="AN206_RS30830"
     CDS             complement(join(1525..1551,1..195))
                     /locus_tag="AN206_RS30830"
                     /inference="COORDINATES: ab initio prediction:GeneMarkS-2+"
                     /note="Derived by automated computational analysis using
                     gene prediction method: GeneMarkS-2+."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_158414302.1"
                     /translation="MCKCNTVTRDDIPFAVWSGLRPDTPHQCVRAQCGFRFSSASSPTR
                     SLRSVAGAAASGVTSRMLSVIPLLFFRG"
                     /name="hypothetical protein"
     gene            605..1081
                     /locus_tag="AN206_RS27255"
                     /old_locus_tag="AN206_27345"
     CDS             605..1081
                     /locus_tag="AN206_RS27255"
                     /old_locus_tag="AN206_27345"
                     /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          135..215
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="95.122"
                     /coverage="87.0"
                     /evalue="9.59e-28"
     Typing          complement(418..526)
                     /name="MOB_unknown"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="1.95e-50"
     Typing          complement(1314..1548)
                     /name="Col(MG828)"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="94.915"
                     /coverage="90.0"
                     /evalue="5.15e-100"
ORIGIN
        1 caccgacaac atgcgagagg tgacaccgct cgccgcagcc ccagcgaccg aacgtagtga
       61 gcgagtgggc gaggaagcgg aagagaaccg gaaaccacat tgagcacgta cgcactgatg
      121 cggggtgtcg gggcgaagcc ctgaccagac ggcaaacgga atatcgtcgc gggtgacggt
      181 attacatttg cacatcctgt cccgatttct gaggcgtttt agcggtgaac ggacggcaaa
      241 accatgatgg agctgttgag cgttgagagc gtgaaatctg gcaaaaatca cggctggcga
      301 ggcttgtagc ggaataagcc agtatacact ccgctatcgc tacgtgactg ggtcagggct
      361 tcgccccgac accccaaaag ggcgttgcgt tgcgcgcaac acccttgcct agaatagatc
      421 ttttacgccg atttgtaagt tgttgttttt ttagtgtgtt ttttgtttac ctgtcgcatc
      481 cagggtgaca caacgttgtc gcatccagga tgcgacaaca cgcaacaagg tgttgcacag
      541 atgtgtcatg atggcttaga tttgaaccaa cgttagtgca tgggattttc agagggaaaa
      601 aatcatgttt attgattcag aaaaacgact gaaacaactt tcagatgagg caaagaaaaa
      661 caccgaggat ctcgaagaag caaagaagaa ttcaaggttt acacaggtat ccccaaaagg
      721 ttgggaacgc gttcgagagc tgctgaagga tagtcaaggc atatcagcac tgaagctgta
      781 ctcattttta gcggagcata tcgatcctac gtgtggcgct gtcgttgcgg atcagcaatt
      841 cctagctgaa aaacttggag ttagcagaag cacaattatt cggtggctca attacttaga
      901 atcaaaaaat gcattagtta gaatccccgt tgctggtaag gtttgtgcgt atgccctcga
      961 tccacatgaa gtctggaagg gatacaacac tacgaaaaac catgcagcgt ttgtcactaa
     1021 aacactggtc aacaaagacg gtgatattca gcgccgaatc atggccatgt tttcaaattg
     1081 agccagcggc aggcggacaa tcaggggcta cgtgttaacg ttttgaccat gattgtctat
     1141 cctgcattgc tcttttgccg cctcaaaatc ccttgcttgt ttttgctccc cgatccccag
     1201 aacgaccgcg ccgccacggt tccggcagcg ccttgagcgc aaccggaaac cgtctgggga
     1261 gaaccccaga cccccatcgc tgtaacaccg acggtctacg accaccaacc agccgaatag
     1321 ctgcctgtgc cgtgcaaata ggctttgcag ggggctgacg cggttcctag cgacctgaaa
     1381 gcccctggtt aggggtatcg gcgcgcctga cctcctgaga gcctctgtaa gcgtttttcg
     1441 cgccttccat gccctgacgg gcatttaaaa cccgtttcgt gtgtctgaga gcttctgagc
     1501 gcgtttgagg ggctatctgg cgactcatcc ccgaaagaac aacaacggaa t
//
