LOCUS       NZ_JALAUL010000015      1355 bp    DNA     linear   CON 26-JAN-2024
DEFINITION  Bacillus atrophaeus strain CK4F1-2 Contig_0000015, whole genome
            shotgun sequence.
ACCESSION   NZ_JALAUL010000015
VERSION     NZ_JALAUL010000015.1
KEYWORDS    WGS; RefSeq.
SOURCE      Bacillus atrophaeus
  ORGANISM  Bacillus atrophaeus
            Bacteria; Bacillota; Bacilli; Bacillales; Bacillaceae; Bacillus.
REFERENCE   1  (bases 1 to 1355)
  AUTHORS   Dunlap,C.
  TITLE     Crop Bioprotection Bacillus Genome Sequencing
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 1355)
  AUTHORS   Dunlap,C.
  TITLE     Direct Submission
  JOURNAL   Submitted (24-FEB-2022) CBP, USDA-ARS-NCAUR, 1815 N. University St.,
            Peoria, IL 61604, USA
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: CLC NGS Cell v. 21
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 219.01779805621194x
            Sequencing Technology             :: Illumina NovaSeq
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 01/24/2024 02:32:00
            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)                     :: 4,147
            CDSs (total)                      :: 4,069
            Genes (coding)                    :: 3,904
            CDSs (with protein)               :: 3,904
            Genes (RNA)                       :: 78
            rRNAs                             :: 2, 1, 1 (5S, 16S, 23S)
            complete rRNAs                    :: 2, 1, 1 (5S, 16S, 23S)
            tRNAs                             :: 69
            ncRNAs                            :: 5
            Pseudo Genes (total)              :: 165
            CDSs (without protein)            :: 165
            Pseudo Genes (ambiguous residues) :: 0 of 165
            Pseudo Genes (frameshifted)       :: 97 of 165
            Pseudo Genes (incomplete)         :: 106 of 165
            Pseudo Genes (internal stop)      :: 39 of 165
            Pseudo Genes (multiple problems)  :: 66 of 165
            ##Genome-Annotation-Data-END##
            ##antiSMASH-Data-START##
            Version                           :: 8.dev-cf2fc5ee(changed)
            Run date                          :: 2025-09-13 02:35:49
            NOTE :: This is a single region extracted from a larger record!
            Orig. start                       :: 0
            Orig. end                         :: 1355
            ##antiSMASH-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            JALAUL010000015.1.
            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/
FEATURES             Location/Qualifiers
     aSDomain        complement(<1..641)
                     /aSDomain="Condensation"
                     /aSTool="nrps_pks_domains"
                     /database="nrpspksdomains.hmm"
                     /detection="hmmscan"
                     /domain_id="nrpspksdomains_MOE42_RS20510_Condensation_LCL.1
                     "
                     /domain_subtypes="Condensation_LCL"
                     /evalue="3.40E-75"
                     /label="MOE42_RS20510_Condensation_LCL.1"
                     /locus_tag="MOE42_RS20510"
                     /protein_end="450"
                     /protein_start="236"
                     /score="244.8"
                     /specificity="C activity: active"
                     /specificity="Active site motif: HHIISDG"
                     /tool="antismash"
                     /translation="DTYPVSSAQKRMYVLQQLEDGGTGYNMPAVLELEGKLDRKRLEAA
                     FQALISRHESLRTSLETGNGGEPVQRIHHEVPFTVTEENSADAFIRPFDLSQAPLFRAG
                     LVRETNERHVLWVDMHHIISDGVSVNTLIREFGELYAGRKLEPLRIQYKDYAVWQQDFK
                     KGDTYEKQESYWLKQLGGELPVLELPADKPRPAVRSFAGDKISFTLDQEVT"
     CDS             complement(<1..1351)
                     /GO_function="GO:0003824 - catalytic activity [Evidence
                     IEA]"
                     /NRPS_PKS="Domain: PCP (153-221). E-value: 1.5e-25. Score:
                     81.1. Matches aSDomain: nrpspksdomains_MOE42_RS20510_PCP.1"
                     /NRPS_PKS="Domain: Condensation_LCL (236-450). E-value:
                     3.4e-75. Score: 244.8. Matches aSDomain:
                     nrpspksdomains_MOE42_RS20510_Condensation_LCL.1"
                     /codon_start=3
                     /gene_functions="biosynthetic (rule-based-clusters) NRPS:
                     AMP-binding"
                     /gene_functions="biosynthetic (rule-based-clusters) NRPS:
                     Condensation"
                     /gene_functions="biosynthetic-additional
                     (rule-based-clusters) PP-binding"
                     /gene_functions="biosynthetic-additional (smcogs)
                     SMCOG1127: condensation domain-containing protein"
                     /gene_kind="biosynthetic"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:NP_389716.2"
                     /locus_tag="MOE42_RS20510"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /old_locus_tag="MOE42_20455"
                     /product="condensation domain-containing protein"
                     /protein_id="WP_268487119.1"
                     /sec_met_domain="AMP-binding (E-value: 8.4e-33, bitscore:
                     99.5, seeds: 400, tool: rule-based-clusters)"
                     /sec_met_domain="PP-binding (E-value: 5.7e-18, bitscore:
                     51.5, seeds: 164, tool: rule-based-clusters)"
                     /sec_met_domain="Condensation (E-value: 1.1e-70, bitscore:
                     224.2, seeds: 42, tool: rule-based-clusters)"
                     /transl_table=11
                     /translation="MLNRPELTTERFLSDPFYPGERMYKTGDLARWLPDGQVEFLGRLD
                     DQVKIRGYRIEPGEIESALRNLEGVQEAAVITRTDSGEAELCAYIQGRDKNDVQAQLAH
                     VLPGYMIPAHFVQINTWPITPSGKLDRKALPAPDGAAGQESYKAPRNLTEMKLAQLWED
                     VLKNGPVGITDDFFDRGGHSLKATALISRIAKTFGVQVPLKDVFARPTIEGLASVIREL
                     EESPYAAIEPAEKQDTYPVSSAQKRMYVLQQLEDGGTGYNMPAVLELEGKLDRKRLEAA
                     FQALISRHESLRTSLETGNGGEPVQRIHHEVPFTVTEENSADAFIRPFDLSQAPLFRAG
                     LVRETNERHVLWVDMHHIISDGVSVNTLIREFGELYAGRKLEPLRIQYKDYAVWQQDFK
                     KGDTYEKQESYWLKQLGGELPVLELPADKPRPAVRSFAGDKISFTLDQEVTS"
     source          1..1355
                     /db_xref="taxon:1452"
                     /isolation_source="soil"
                     /mol_type="genomic DNA"
                     /organism="Bacillus atrophaeus"
                     /strain="CK4F1-2"
                     /submitter_seqid="Contig_0000015"
     gene            complement(<1..>1355)
                     /locus_tag="MOE42_RS20510"
                     /old_locus_tag="MOE42_20455"
     region          1..1355
                     /candidate_cluster_numbers="1"
                     /contig_edge="True"
                     /product="NRPS"
                     /region_number="1"
                     /rules="cds(Condensation and (AMP-binding or A-OX) and not
                     alpha_am_amid)"
                     /tool="antismash"
     cand_cluster    1..1355
                     /SMILES=""
                     /candidate_cluster_number="1"
                     /contig_edge="True"
                     /detection_rules="cds(Condensation and (AMP-binding or
                     A-OX) and not alpha_am_amid)"
                     /kind="single"
                     /product="NRPS"
                     /protoclusters="1"
                     /tool="antismash"
     protocluster    1..1355
                     /aStool="rule-based-clusters"
                     /category="NRPS"
                     /contig_edge="True"
                     /core_location="[<0:1351](-)"
                     /cutoff="20000"
                     /detection_rule="cds(Condensation and (AMP-binding or A-OX)
                     and not alpha_am_amid)"
                     /neighbourhood="20000"
                     /product="NRPS"
                     /protocluster_number="1"
                     /tool="antismash"
     proto_core      complement(<1..1351)
                     /aStool="rule-based-clusters"
                     /tool="antismash"
                     /cutoff="20000"
                     /detection_rule="cds(Condensation and (AMP-binding or A-OX)
                     and not alpha_am_amid)"
                     /neighbourhood="20000"
                     /product="NRPS"
                     /protocluster_number="1"
     CDS_motif       complement(159..191)
                     /aSTool="nrps_pks_domains"
                     /database="abmotifs"
                     /detection="hmmscan"
                     /domain_id="nrpspksmotif_MOE42_RS20510_0005"
                     /evalue="2.30E-04"
                     /label="C4_LCL_164-176"
                     /locus_tag="MOE42_RS20510"
                     /protein_end="397"
                     /protein_start="386"
                     /score="13.9"
                     /tool="antismash"
                     /translation="QYKDYAVWQQD"
     CDS_motif       complement(222..287)
                     /aSTool="nrps_pks_domains"
                     /database="abmotifs"
                     /detection="hmmscan"
                     /domain_id="nrpspksmotif_MOE42_RS20510_0004"
                     /evalue="1.20E-09"
                     /label="C3_LCL_132-143"
                     /locus_tag="MOE42_RS20510"
                     /protein_end="376"
                     /protein_start="354"
                     /score="30.7"
                     /tool="antismash"
                     /translation="MHHIISDGVSVNTLIREFGELY"
     CDS_motif       complement(465..569)
                     /aSTool="nrps_pks_domains"
                     /database="abmotifs"
                     /detection="hmmscan"
                     /domain_id="nrpspksmotif_MOE42_RS20510_0003"
                     /evalue="4.00E-18"
                     /label="C2_LCL_024-062"
                     /locus_tag="MOE42_RS20510"
                     /protein_end="295"
                     /protein_start="260"
                     /score="57.8"
                     /tool="antismash"
                     /translation="YNMPAVLELEGKLDRKRLEAAFQALISRHESLRTS"
     aSDomain        complement(687..890)
                     /aSDomain="PCP"
                     /aSTool="nrps_pks_domains"
                     /database="nrpspksdomains.hmm"
                     /detection="hmmscan"
                     /domain_id="nrpspksdomains_MOE42_RS20510_PCP.1"
                     /evalue="1.50E-25"
                     /label="MOE42_RS20510_PCP.1"
                     /locus_tag="MOE42_RS20510"
                     /protein_end="221"
                     /protein_start="153"
                     /score="81.1"
                     /tool="antismash"
                     /translation="EMKLAQLWEDVLKNGPVGITDDFFDRGGHSLKATALISRIAKTFG
                     VQVPLKDVFARPTIEGLASVIRE"
     CDS_motif       complement(945..971)
                     /aSTool="nrps_pks_domains"
                     /database="abmotifs"
                     /detection="hmmscan"
                     /domain_id="nrpspksmotif_MOE42_RS20510_0002"
                     /evalue="2.30E-02"
                     /label="NRPS-A_a10"
                     /locus_tag="MOE42_RS20510"
                     /protein_end="135"
                     /protein_start="126"
                     /score="7.4"
                     /tool="antismash"
                     /translation="GKLDRKALP"
     CDS_motif       complement(1167..1232)
                     /aSTool="nrps_pks_domains"
                     /database="abmotifs"
                     /detection="hmmscan"
                     /domain_id="nrpspksmotif_MOE42_RS20510_0001"
                     /evalue="2.00E-13"
                     /label="NRPS-A_a8"
                     /locus_tag="MOE42_RS20510"
                     /protein_end="61"
                     /protein_start="39"
                     /score="42.0"
                     /tool="antismash"
                     /translation="FLGRLDDQVKIRGYRIEPGEIE"
ORIGIN
        1 ggacgtgact tcttggtcca gagtaaatga gatcttgtca ccggcgaagc ttcgcaccgc
       61 cggacggggc ttgtccgccg gcagttcaag cacaggcagc tcgccgccga gctgcttcag
      121 ccaataagat tcctgcttct catatgtgtc gccttttttg aagtcctgct gccacacagc
      181 gtaatctttg tattggatgc gcagcggctc aagtttccgc ccggcgtaca attctccaaa
      241 ttcccgaatg agcgtattga ctgagacgcc gtcagaaatg atgtgatgca tgtcgaccca
      301 taggacatga cgctcgtttg tttctcttac gagtcccgct ctgaaaagcg gagcctgact
      361 gagatcaaaa gggcgtataa atgcatccgc cgagttctct tcggtcaccg taaacggcac
      421 ctcatgatgg atgcgttgga ccggctcccc tccgtttccg gtttccaagg acgtccggag
      481 cgactcatgg cgactgatca gcgcttggaa agccgcctcc agccgtttac ggtcaagctt
      541 gccttctagc tccagcaccg caggcatatt gtagccagtg cctccatctt ccagctgctg
      601 aaggacatac atccgttttt gcgccgagga gaccggatag gtgtcctgct tttcggccgg
      661 ttcgatcgcc gcatacgggc tttcctccaa ctcgcggatg acagaagcca gcccttctat
      721 ggtcggtcgg gcaaatacgt ctttaagcgg cacttggacg ccgaatgtct tggcgatccg
      781 tgaaatcagt gccgttgctt ttaacgagtg gccgccccgg tcaaaaaagt cgtccgtgat
      841 accgacagga ccgtttttca gcacgtcttc ccaaagctgg gccagcttca tttcggtaag
      901 atttcttggt gccttgtatg attcttgacc agccgctcca tcaggagcgg gcaaagcctt
      961 ccggtcaagc ttcccgcttg gggtgatcgg ccatgtgttg atttgtacaa aatgagcggg
     1021 gatcatatag ccgggcagca catgtgcaag ctgtgcctgc acgtcgtttt tatcacgccc
     1081 ctggatataa gcgcatagct ctgcctcccc gctgtctgtg cgggtaatga cggctgcttc
     1141 ttgcacgcct tccaagttcc ggagagctga ttcaatttcg ccaggttcga tccggtagcc
     1201 gcggattttg acttgatcgt ccaaacggcc gaggaactca acctgtccgt ccggcagcca
     1261 gcgcgccaga tctcccgttt tgtacatccg ttccccagga taaaagggat cagagagaaa
     1321 gcgttccgtc gttaactcgg ggcgattcag gtagc
//
