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Stenotrophomonas maltophilia strain GD04156 315, whole genome shotgun sequence

NCBI Reference Sequence: NZ_JAODYV010000315.1

FASTA Graphics 

LOCUS       NZ_JAODYV010000315      1792 bp    DNA     linear   CON 12-MAY-2024
DEFINITION  Stenotrophomonas maltophilia strain GD04156 315, whole genome
            shotgun sequence.
ACCESSION   NZ_JAODYV010000315 NZ_JAODYV010000000
VERSION     NZ_JAODYV010000315.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN30525612
            Assembly: GCF_029834895.1
KEYWORDS    WGS; RefSeq.
SOURCE      Stenotrophomonas maltophilia
  ORGANISM  Stenotrophomonas maltophilia
            Bacteria; Pseudomonadati; Pseudomonadota; Gammaproteobacteria;
            Lysobacterales; Lysobacteraceae; Stenotrophomonas; Stenotrophomonas
            maltophilia group.
REFERENCE   1  (bases 1 to 1792)
  AUTHORS   Diorio-Toth,L.
  TITLE     Intensive care unit water sources are persistently colonized with
            multi-drug resistant bacteria and are the site of extensive
            horizontal gene transfer of antibiotic resistance genes
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 1792)
  AUTHORS   Diorio-Toth,L.
  TITLE     Direct Submission
  JOURNAL   Submitted (07-SEP-2022) Computational and Systems Biology,
            Washington University in St. Louis School of Medicine, 660 S Euclid
            Ave, St. Louis, MO 63110, USA
COMMENT     REFSEQ INFORMATION: The reference sequence is identical to
            JAODYV010000315.1.
            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/
            
            ##Genome-Assembly-Data-START##
            Assembly Method        :: Unicycler v. 0.4.9
            Genome Representation  :: Full
            Expected Final Version :: Yes
            Genome Coverage        :: 93.923x
            Sequencing Technology  :: Illumina HiSeq
            ##Genome-Assembly-Data-END##
            
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_029834895.1-RS_2024_05_12
            Annotation Date                   :: 05/12/2024 17:26:43
            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)                     :: 4,456
            CDSs (total)                      :: 4,386
            Genes (coding)                    :: 4,293
            CDSs (with protein)               :: 4,293
            Genes (RNA)                       :: 70
            tRNAs                             :: 66
            ncRNAs                            :: 4
            Pseudo Genes (total)              :: 93
            CDSs (without protein)            :: 93
            Pseudo Genes (ambiguous residues) :: 0 of 93
            Pseudo Genes (frameshifted)       :: 15 of 93
            Pseudo Genes (incomplete)         :: 79 of 93
            Pseudo Genes (internal stop)      :: 10 of 93
            Pseudo Genes (multiple problems)  :: 10 of 93
            ##Genome-Annotation-Data-END##
FEATURES             Location/Qualifiers
     source          1..1792
                     /organism="Stenotrophomonas maltophilia"
                     /mol_type="genomic DNA"
                     /strain="GD04156"
                     /isolation_source="surface swab"
                     /db_xref="taxon:40324"
                     /geo_loc_name="Pakistan"
                     /collection_date="2018-07-18"
     gene            complement(<1..591)
                     /gene="hisIE"
                     /locus_tag="N7324_RS22190"
                     /old_locus_tag="N7324_22200"
     CDS             complement(<1..591)
                     /gene="hisIE"
                     /locus_tag="N7324_RS22190"
                     /old_locus_tag="N7324_22200"
                     /EC_number="3.5.4.19"
                     /EC_number="3.6.1.31"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_005416333.1"
                     /GO_function="GO:0004635 - phosphoribosyl-AMP
                     cyclohydrolase activity [Evidence IEA]; GO:0004636 -
                     phosphoribosyl-ATP diphosphatase activity [Evidence IEA]"
                     /GO_process="GO:0000105 - histidine biosynthetic process
                     [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="bifunctional phosphoribosyl-AMP
                     cyclohydrolase/phosphoribosyl-ATP diphosphatase HisIE"
                     /protein_id="WP_279731052.1"
                     /translation="MSIEVRPSLDALQALDWAKGDGLLPAVVQDADTLQVLMLGYVSA
                     ESLAATLAIGHMTFFSRSKQRLWTKGEQSGNVLVVQSISVDCDADTLLVMARPAGPTC
                     HTGAESCFDQAPKDFLGGLGQLVAMREAQRPPGSYTTSLFEGGIRRIAQKVGEEGVET
                     ALAAVAQDDEALLGEASDLLYHLLVLLRARRLSLDDA"
     gene            complement(581..1357)
                     /gene="hisF"
                     /locus_tag="N7324_RS22195"
                     /old_locus_tag="N7324_22205"
     CDS             complement(581..1357)
                     /gene="hisF"
                     /locus_tag="N7324_RS22195"
                     /old_locus_tag="N7324_22205"
                     /EC_number="4.3.2.10"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_014646953.1"
                     /GO_function="GO:0000107 - imidazoleglycerol-phosphate
                     synthase activity [Evidence IEA]"
                     /GO_process="GO:0000105 - histidine biosynthetic process
                     [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="imidazole glycerol phosphate synthase subunit
                     HisF"
                     /protein_id="WP_005409431.1"
                     /translation="MLSRRIIPCLDVRDGRVVKGVRFRDHVDMGDIAELAQRYRDQGA
                     DELVFYDIGASPEARSVDVAWIERIARLIDIPFCVAGGIDSVETARRVLFAGADKVSI
                     NSPALGRPELITELADEFGVQCVVVGVDSVREADGQWRVRRFSGDPDKTQAVPLRTLD
                     WIVEAQRRGAGEIVLNCMDSDGVRRGYDVVQLQQARALCQVPLIASGGAGAMEHFAEA
                     FDQADVDGALAASVFHSGAIAIPELKRYLRGQQIEVRDVY"
     gene            complement(1351..>1792)
                     /locus_tag="N7324_RS22200"
                     /old_locus_tag="N7324_22210"
     CDS             complement(1351..>1792)
                     /locus_tag="N7324_RS22200"
                     /old_locus_tag="N7324_22210"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_014646952.1"
                     /GO_process="GO:0000105 - histidine biosynthetic process
                     [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=2
                     /transl_table=11
                     /product="HisA/HisF-related TIM barrel protein"
                     /protein_id="WP_279731054.1"
                     /translation="AGRVVVGSLAVRRPDEVVGWLEEFGAERITIALDARQDAQGQWQ
                     LPVHGWTENAGVTLDELAQRYARAGMRHLLCTDIARDGMLAGPNICLYRHLSGLLPGV
                     AVQASGGIRDVADVAEARAAGCGGAILGKALLEQRMDLAEALAC"
CONTIG      join(JAODYV010000315.1:1..1792)
//
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