LOCUS       NZ_JAQEMJ010000054      1566 bp    DNA     linear   CON 22-FEB-2024
DEFINITION  Bacillus velezensis strain TM115-48 GF3HH28002B.Scaf54, whole genome
            shotgun sequence.
ACCESSION   NZ_JAQEMJ010000054
VERSION     NZ_JAQEMJ010000054.1
KEYWORDS    WGS; RefSeq.
SOURCE      Bacillus velezensis
  ORGANISM  Bacillus velezensis
            Bacteria; Bacillota; Bacilli; Bacillales; Bacillaceae; Bacillus;
            Bacillus amyloliquefaciens group.
REFERENCE   1  (bases 1 to 1566)
  AUTHORS   Lin,X., Hu,T., Chen,J., Liang,H., Zhou,J., Wu,Z., Ye,C., Jin,X.,
            Xu,X., Zhang,W., Jing,X., Yang,T., Wang,J., Yang,H., Kristiansen,K.,
            Xiao,L. and Zou,Y.
  TITLE     The genomic landscape of reference genomes of cultivated human gut
            bacteria
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 1566)
  AUTHORS   Zou,Y.
  TITLE     Direct Submission
  JOURNAL   Submitted (30-NOV-2022) BGI Reaserch, BGI-Shenzhen, Beishan
            Industrial Zone, Shenzhen 518083, China
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: SOAPdenovo v. v2.04
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 100x
            Sequencing Technology             :: MGI
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 02/22/2024 04:06:29
            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)                     :: 4,454
            CDSs (total)                      :: 4,396
            Genes (coding)                    :: 4,263
            CDSs (with protein)               :: 4,263
            Genes (RNA)                       :: 58
            rRNAs                             :: 2, 1, 1 (5S, 16S, 23S)
            complete rRNAs                    :: 1, 1 (5S, 23S)
            partial rRNAs                     :: 1, 1 (5S, 16S)
            tRNAs                             :: 49
            ncRNAs                            :: 5
            Pseudo Genes (total)              :: 133
            CDSs (without protein)            :: 133
            Pseudo Genes (ambiguous residues) :: 0 of 133
            Pseudo Genes (frameshifted)       :: 69 of 133
            Pseudo Genes (incomplete)         :: 78 of 133
            Pseudo Genes (internal stop)      :: 16 of 133
            Pseudo Genes (multiple problems)  :: 26 of 133
            ##Genome-Annotation-Data-END##
            ##antiSMASH-Data-START##
            Version                           :: 8.dev-cf2fc5ee(changed)
            Run date                          :: 2025-09-12 16:15:29
            NOTE :: This is a single region extracted from a larger record!
            Orig. start                       :: 0
            Orig. end                         :: 1566
            ##antiSMASH-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            JAQEMJ010000054.1.
            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
     CDS             complement(<1..1564)
                     /NRPS_PKS="Domain: AMP-binding (1-300). E-value: 4.1e-69.
                     Score: 225.1. Matches aSDomain:
                     nrpspksdomains_PGW53_RS22170_AMP-binding.1"
                     /NRPS_PKS="Domain: PCP (405-473). E-value: 2.2e-27. Score:
                     87.0. Matches aSDomain: nrpspksdomains_PGW53_RS22170_PCP.1"
                     /codon_start=2
                     /gene_functions="biosynthetic (rule-based-clusters) NRPS:
                     Condensation"
                     /gene_functions="biosynthetic (rule-based-clusters) NRPS:
                     AMP-binding"
                     /gene_functions="biosynthetic-additional
                     (rule-based-clusters) PP-binding"
                     /gene_functions="biosynthetic-additional (smcogs)
                     SMCOG1002: AMP-dependent synthetase and ligase"
                     /gene_kind="biosynthetic"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:NP_388231.2"
                     /locus_tag="PGW53_RS22170"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /product="AMP-binding protein"
                     /protein_id="WP_270354946.1"
                     /sec_met_domain="AMP-binding (E-value: 6.8e-87, bitscore:
                     277.7, seeds: 400, tool: rule-based-clusters)"
                     /sec_met_domain="PP-binding (E-value: 7.5e-20, bitscore:
                     57.6, seeds: 164, tool: rule-based-clusters)"
                     /sec_met_domain="Condensation (E-value: 6.3e-10, bitscore:
                     24.6, seeds: 42, tool: rule-based-clusters)"
                     /transl_table=11
                     /translation="MSGAKLLLTQEALDVPDSYNGETILLDGGRSILSLPLDENDEANP
                     QTETTADHLAYMIYTSGTTGQPKGVMVEHHALVNLCFWHHDAFAMTADDKSAKYAGFGF
                     DASIWEMFPTWTIGAELHVIDEAIRLDITRLNHYFEDHGVTITFLPTQLAEQFMELENT
                     SLRMLLVGGDKLKRAVKQPYTIVNNYGPTENTVVATSGVINPEEGSLSIGRAIANTRAY
                     ILGDGDQVQPEGIAGELCVAGRGLARGYLNREEETAKRFTADPFVPGERMYRTGDLVKW
                     NAQCGIEYIGRIDQQVKVRGYRIELSEIEVRLARLADVHDAAVTAVEDKAGNTALCAYV
                     APQQDDIETLKAALKDTLPDYMVPAFWVEMDELPVTANGKIDKKALPEPDIEAGSAAYK
                     APETEMETLLSDIWQEVLGLDQIGVSDNFFTLGGDSIKGIQMASRLNQHGYKLEMKDLF
                     QHPTIEELVSYVERTEGKQADQGPVEGEADLTPIQRWFFEKNFTDKHHWNQSVMLHAKD
                     GFDP"
     source          1..1566
                     /collection_date="2014-02-01"
                     /country="China: Shenzhen"
                     /db_xref="taxon:492670"
                     /host="Homo sapiens"
                     /isolation_source="fecal material [ENVO:00002003]"
                     /lat_lon="22.32 N 114.05 E"
                     /mol_type="genomic DNA"
                     /organism="Bacillus velezensis"
                     /strain="TM115-48"
                     /submitter_seqid="GF3HH28002B.Scaf54"
     gene            complement(<1..>1566)
                     /locus_tag="PGW53_RS22170"
     region          1..1566
                     /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..1566
                     /SMILES="NC(CC(C)C)C(=O)O"
                     /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..1566
                     /aStool="rule-based-clusters"
                     /category="NRPS"
                     /contig_edge="True"
                     /core_location="[<0:1564](-)"
                     /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..1564)
                     /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(70..99)
                     /aSTool="nrps_pks_domains"
                     /database="abmotifs"
                     /detection="hmmscan"
                     /domain_id="nrpspksmotif_PGW53_RS22170_0006"
                     /evalue="3.10E-05"
                     /label="NRPS-E1"
                     /locus_tag="PGW53_RS22170"
                     /protein_end="498"
                     /protein_start="488"
                     /score="16.6"
                     /tool="antismash"
                     /translation="LTPIQRWFFE"
     aSDomain        complement(145..348)
                     /aSDomain="PCP"
                     /aSTool="nrps_pks_domains"
                     /database="nrpspksdomains.hmm"
                     /detection="hmmscan"
                     /domain_id="nrpspksdomains_PGW53_RS22170_PCP.1"
                     /evalue="2.20E-27"
                     /label="PGW53_RS22170_PCP.1"
                     /locus_tag="PGW53_RS22170"
                     /protein_end="473"
                     /protein_start="405"
                     /score="87.0"
                     /tool="antismash"
                     /translation="ETLLSDIWQEVLGLDQIGVSDNFFTLGGDSIKGIQMASRLNQHGY
                     KLEMKDLFQHPTIEELVSYVERT"
     aSModule        complement(145..1560)
                     /complete
                     /domains="nrpspksdomains_PGW53_RS22170_AMP-binding.1"
                     /domains="nrpspksdomains_PGW53_RS22170_PCP.1"
                     /locus_tags="PGW53_RS22170"
                     /monomer_pairings="Leu -> Leu"
                     /starter_module
                     /tool="antismash"
                     /type="nrps"
     CDS_motif       complement(256..285)
                     /aSTool="nrps_pks_domains"
                     /database="abmotifs"
                     /detection="hmmscan"
                     /domain_id="nrpspksmotif_PGW53_RS22170_0005"
                     /evalue="6.70E-03"
                     /label="PCP_mC"
                     /locus_tag="PGW53_RS22170"
                     /protein_end="436"
                     /protein_start="426"
                     /score="9.9"
                     /tool="antismash"
                     /translation="NFFTLGGDSI"
     CDS_motif       complement(634..699)
                     /aSTool="nrps_pks_domains"
                     /database="abmotifs"
                     /detection="hmmscan"
                     /domain_id="nrpspksmotif_PGW53_RS22170_0004"
                     /evalue="9.70E-12"
                     /label="NRPS-A_a8"
                     /locus_tag="PGW53_RS22170"
                     /protein_end="310"
                     /protein_start="288"
                     /score="36.8"
                     /tool="antismash"
                     /translation="YIGRIDQQVKVRGYRIELSEIE"
     aSDomain        complement(664..1560)
                     /aSDomain="AMP-binding"
                     /aSTool="nrps_pks_domains"
                     /database="nrpspksdomains.hmm"
                     /detection="hmmscan"
                     /domain_id="nrpspksdomains_PGW53_RS22170_AMP-binding.1"
                     /evalue="4.10E-69"
                     /label="PGW53_RS22170_AMP-binding.1"
                     /locus_tag="PGW53_RS22170"
                     /protein_end="300"
                     /protein_start="1"
                     /score="225.1"
                     /specificity="substrate consensus: Leu"
                     /tool="antismash"
                     /translation="SGAKLLLTQEALDVPDSYNGETILLDGGRSILSLPLDENDEANPQ
                     TETTADHLAYMIYTSGTTGQPKGVMVEHHALVNLCFWHHDAFAMTADDKSAKYAGFGFD
                     ASIWEMFPTWTIGAELHVIDEAIRLDITRLNHYFEDHGVTITFLPTQLAEQFMELENTS
                     LRMLLVGGDKLKRAVKQPYTIVNNYGPTENTVVATSGVINPEEGSLSIGRAIANTRAYI
                     LGDGDQVQPEGIAGELCVAGRGLARGYLNREEETAKRFTADPFVPGERMYRTGDLVKWN
                     AQCGIEYIGRIDQQVKVR"
     CDS_motif       complement(781..870)
                     /aSTool="nrps_pks_domains"
                     /database="abmotifs"
                     /detection="hmmscan"
                     /domain_id="nrpspksmotif_PGW53_RS22170_0003"
                     /evalue="8.30E-16"
                     /label="NRPS-A_a6"
                     /locus_tag="PGW53_RS22170"
                     /protein_end="261"
                     /protein_start="231"
                     /score="50.1"
                     /tool="antismash"
                     /translation="PEGIAGELCVAGRGLARGYLNREEETAKRF"
     CDS_motif       complement(973..1002)
                     /aSTool="nrps_pks_domains"
                     /database="abmotifs"
                     /detection="hmmscan"
                     /domain_id="nrpspksmotif_PGW53_RS22170_0002"
                     /evalue="2.60E-03"
                     /label="NRPS-A_a5"
                     /locus_tag="PGW53_RS22170"
                     /protein_end="197"
                     /protein_start="187"
                     /score="10.4"
                     /tool="antismash"
                     /translation="NYGPTENTVV"
     CDS_motif       complement(1342..1401)
                     /aSTool="nrps_pks_domains"
                     /database="abmotifs"
                     /detection="hmmscan"
                     /domain_id="nrpspksmotif_PGW53_RS22170_0001"
                     /evalue="3.40E-11"
                     /label="NRPS-A_a3"
                     /locus_tag="PGW53_RS22170"
                     /protein_end="74"
                     /protein_start="54"
                     /score="34.8"
                     /tool="antismash"
                     /translation="AYMIYTSGTTGQPKGVMVEH"
ORIGIN
        1 tccggatcaa agccgtcttt cgcgtgaagc atgacggatt gattccagtg gtgtttgtcc
       61 gtgaagtttt tctcaaagaa ccagcgctgg atcggcgtta agtccgcttc accttcgaca
      121 gggccctggt cggcctgctt gccttccgtc cgctccacat aagagacgag ttcttcgatg
      181 gtcgggtgct ggaagaggtc tttcatctcc aatttatacc cgtgctggtt caggcggctc
      241 gccatttgga tgcctttgat cgagtcgccg ccgagcgtga agaaattatc gcttacgccg
      301 atctggtcaa gaccgagcac ttcctgccaa atgtcagaaa gcagcgtctc catctccgtt
      361 tccggcgctt tgtacgcggc gcttcccgct tcaatgtccg gttccggcag ggctttttta
      421 tcaatctttc cgtttgcggt gaccggaagc tcgtccatct ccacccagaa cgccggcacc
      481 atgtagtcag gcagcgtgtc tttcagcgcg gctttgagcg tttcgatatc gtcctgctga
      541 ggcgcgacat aggcgcaaag cgcggtattg cccgctttgt cttccaccgc cgtcaccgct
      601 gcgtcatgaa cgtccgcaag ccgggcgagg cggacttcga tttctgaaag ctcgatccgg
      661 tagccccgca ctttgacctg ctggtcgata cgcccgatgt attcgatgcc gcactgcgcg
      721 ttccatttga cgaggtcgcc ggtccggtac atgcgctcgc cgggcacgaa cggatcggcg
      781 gtaaaccgct tcgccgtttc ttcttcacgg ttcaggtatc cgcgcgcaag tccgcggcct
      841 gccacgcata attcaccggc aatgccttcc ggctgcacct gatcgccgtc gccgagaata
      901 taagctctcg tattggcaat cgcccgtccg atcgaaagcg acccttcctc cggattgatg
      961 acgccgcttg tcgcgacgac ggtgttttcc gtcgggccgt agttgttgac gatcgtgtac
     1021 ggctgtttca ccgcccgctt cagcttatcg ccgccgacga gaagcatgcg gagagaggta
     1081 ttttccagct ccataaattg ttcggcgagc tgcgtaggca ggaaggtgat ggtcacgccg
     1141 tgatcttcga aatagtgatt taagcgggtg atatccagcc ggatcgcttc gtcaatgacg
     1201 tgaagctccg cgccgatggt ccatgtcggg aacatctccc agatggaggc gtcaaaaccg
     1261 aagcccgcgt atttggcgct tttatcatcc gccgtcatgg cgaatgcgtc gtgatgccag
     1321 aagcacaggt tcaccagcgc atggtgttcg accatgacac ctttcggctg tccggtcgtt
     1381 cctgacgtgt aaatcatata agcgagatga tccgccgttg tttccgtctg cgggttcgct
     1441 tcatcgtttt catcaagcgg caggctcaga atggagcgtc cgccgtcaag cagaatcgtt
     1501 tctccgttgt agctgtccgg cacgtccagc gcttcctgtg tgagaagaag cttggcgccg
     1561 ctgtcc
//
