LOCUS       NZ_QJSP01000045         2217 bp    DNA     linear   CON 04-MAY-2024
DEFINITION  Williamsia limnetica strain DSM 45521 Ga0244495_145, whole genome
            shotgun sequence.
ACCESSION   NZ_QJSP01000045
VERSION     NZ_QJSP01000045.1
KEYWORDS    WGS; RefSeq.
SOURCE      Williamsia limnetica
  ORGANISM  Williamsia limnetica
            Bacteria; Actinomycetota; Actinomycetes; Mycobacteriales;
            Nocardiaceae; Williamsia.
REFERENCE   1  (bases 1 to 2217)
  AUTHORS   Goeker,M.
  TITLE     Genomic Encyclopedia of Type Strains, Phase IV (KMG-IV): sequencing
            the most valuable type-strain genomes for metagenomic binning,
            comparative biology and taxonomic classification
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 2217)
  AUTHORS   Goeker,M., Huntemann,M., Clum,A., Pillay,M., Palaniappan,K.,
            Varghese,N., Mikhailova,N., Stamatis,D., Reddy,T., Daum,C.,
            Shapiro,N., Ivanova,N., Kyrpides,N. and Woyke,T.
  TITLE     Direct Submission
  JOURNAL   Submitted (04-JUN-2018) Prokaryotic Super Group, DOE Joint Genome
            Institute, 2800 Mitchell Drive, Walnut Creek, CA 94598, USA
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: SPAdes v. 3.10.1
            Expected Final Version            :: No
            Genome Coverage                   :: 169.0x
            Sequencing Technology             :: Illumina HiSeq
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_003217475.1-RS_2024_05_04
            Annotation Date                   :: 05/04/2024 01:29:10
            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)                     :: 6,026
            CDSs (total)                      :: 5,970
            Genes (coding)                    :: 5,910
            CDSs (with protein)               :: 5,910
            Genes (RNA)                       :: 56
            rRNAs                             :: 4, 1, 1 (5S, 16S, 23S)
            complete rRNAs                    :: 1, 1, 1 (5S, 16S, 23S)
            partial rRNAs                     :: 3 (5S)
            tRNAs                             :: 47
            ncRNAs                            :: 3
            Pseudo Genes (total)              :: 60
            CDSs (without protein)            :: 60
            Pseudo Genes (ambiguous residues) :: 0 of 60
            Pseudo Genes (frameshifted)       :: 17 of 60
            Pseudo Genes (incomplete)         :: 43 of 60
            Pseudo Genes (internal stop)      :: 7 of 60
            Pseudo Genes (multiple problems)  :: 7 of 60
            ##Genome-Annotation-Data-END##
            ##antiSMASH-Data-START##
            Version                           :: 8.dev-cf2fc5ee(changed)
            Run date                          :: 2025-09-12 19:55:21
            NOTE :: This is a single region extracted from a larger record!
            Orig. start                       :: 0
            Orig. end                         :: 2217
            ##antiSMASH-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            QJSP01000045.1.
            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
     gene            <1..2152
                     /locus_tag="DFR67_RS30095"
                     /old_locus_tag="DFR67_1451"
     source          1..2217
                     /culture_collection="DSM:45521"
                     /db_xref="taxon:882452"
                     /mol_type="genomic DNA"
                     /organism="Williamsia limnetica"
                     /strain="DSM 45521"
                     /submitter_seqid="Ga0244495_145"
                     /type_material="type strain of Williamsia limnetica"
     region          1..2217
                     /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..2217
                     /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..2217
                     /aStool="rule-based-clusters"
                     /category="NRPS"
                     /contig_edge="True"
                     /core_location="[<2:2152](+)"
                     /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      <3..2152
                     /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             <3..2152
                     /GO_function="GO:0003824 - catalytic activity [Evidence
                     IEA]"
                     /NRPS_PKS="Domain: PCP (85-156). E-value: 3.7e-21. Score:
                     67.1. Matches aSDomain: nrpspksdomains_DFR67_RS30095_PCP.1"
                     /NRPS_PKS="Domain: Condensation_LCL (173-475). E-value:
                     3e-83. Score: 271.2. Matches aSDomain:
                     nrpspksdomains_DFR67_RS30095_Condensation_LCL.1"
                     /codon_start=2
                     /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: protein motif:HMM:NF012873.4"
                     /locus_tag="DFR67_RS30095"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /old_locus_tag="DFR67_1451"
                     /product="condensation domain-containing protein"
                     /protein_id="WP_146240585.1"
                     /sec_met_domain="PP-binding (E-value: 2.6e-14, bitscore:
                     39.8, seeds: 164, tool: rule-based-clusters)"
                     /sec_met_domain="Condensation (E-value: 9.9e-63, bitscore:
                     198.0, seeds: 42, tool: rule-based-clusters)"
                     /sec_met_domain="AMP-binding (E-value: 4.8e-09, bitscore:
                     21.3, seeds: 400, tool: rule-based-clusters)"
                     /transl_table=11
                     /translation="VVVAVEHAVAGTVLVAYLTPGSLEVSGEQLRVWLGARLPAHMVPT
                     AFVWLEVLPVTANGKLDRKALPAADLTTVVGQGRTLSSDTEIQVAAAFSAVLGMDSGVE
                     LSVEDDFFALGGHSLLATRLVARLGEGRVGQLSLRSVFDHPTVAGLAAVVDGSVSGGPV
                     LPRVGDVVRPEVVPASFGQRALWVVGELTGAGSVYTVPVVWQVRGDLDVAAWEQAVCDV
                     VARHEALRTRLIEDASGELVQVVEPGENVTDWLVVDHRDASERDEEATGELLDDWVQRP
                     VSLNADMPVRALVVSRSNGRYVLAMAIQHAFVDEWSQPALAADLWSAYVARGAGREPAF
                     EPLHAQYADFAVWQHHLDDQGYFDVARRYWADELAGVPELSTLPADHVRPAFPSHRGAD
                     LPIAIGAEVTGRLQQVAADANVSMFMVVQAVVAATLHRLGAGEDLVVGSPIGGRTDPSL
                     VDTVGYFVNTLPIRHRLSVDDSVGSLLSRTRTAVLDAFEHQHLPFDLMAAEAEVLRVPG
                     ANPLAQVLLTYTTDIGESSISPELAISSGLTILDPVRPHLGAVKADLDVYLGVRDGGLE
                     GFVSYATDLYDPATAAQFVSTLGAVAEAFAGSVDVRLAELEVPAPEREVLAGWSQGAVA
                     DLSGSTVDGVLRAAATENADVGAVVFGDVCLSYAEFDGRVNRLARCLVGCGVGVGDRVV
                     VVVRRDEWLPVMVGIAPTLVDI"
     aSDomain        260..472
                     /aSDomain="PCP"
                     /aSTool="nrps_pks_domains"
                     /database="nrpspksdomains.hmm"
                     /detection="hmmscan"
                     /domain_id="nrpspksdomains_DFR67_RS30095_PCP.1"
                     /evalue="3.70E-21"
                     /label="DFR67_RS30095_PCP.1"
                     /locus_tag="DFR67_RS30095"
                     /protein_end="156"
                     /protein_start="85"
                     /score="67.1"
                     /tool="antismash"
                     /translation="EIQVAAAFSAVLGMDSGVELSVEDDFFALGGHSLLATRLVARLGE
                     GRVGQLSLRSVFDHPTVAGLAAVVDG"
     aSDomain        524..1429
                     /aSDomain="Condensation"
                     /aSTool="nrps_pks_domains"
                     /database="nrpspksdomains.hmm"
                     /detection="hmmscan"
                     /domain_id="nrpspksdomains_DFR67_RS30095_Condensation_LCL.1
                     "
                     /domain_subtypes="Condensation_LCL"
                     /evalue="3.00E-83"
                     /label="DFR67_RS30095_Condensation_LCL.1"
                     /locus_tag="DFR67_RS30095"
                     /protein_end="475"
                     /protein_start="173"
                     /score="271.2"
                     /specificity="C activity: active"
                     /specificity="Active site motif: QHAFVDE"
                     /tool="antismash"
                     /translation="EVVPASFGQRALWVVGELTGAGSVYTVPVVWQVRGDLDVAAWEQA
                     VCDVVARHEALRTRLIEDASGELVQVVEPGENVTDWLVVDHRDASERDEEATGELLDDW
                     VQRPVSLNADMPVRALVVSRSNGRYVLAMAIQHAFVDEWSQPALAADLWSAYVARGAGR
                     EPAFEPLHAQYADFAVWQHHLDDQGYFDVARRYWADELAGVPELSTLPADHVRPAFPSH
                     RGADLPIAIGAEVTGRLQQVAADANVSMFMVVQAVVAATLHRLGAGEDLVVGSPIGGRT
                     DPSLVDTVGYFVNTLPIRHRL"
     CDS_motif       593..700
                     /aSTool="nrps_pks_domains"
                     /database="abmotifs"
                     /detection="hmmscan"
                     /domain_id="nrpspksmotif_DFR67_RS30095_0001"
                     /evalue="1.60E-16"
                     /label="C2_LCL_024-062"
                     /locus_tag="DFR67_RS30095"
                     /protein_end="232"
                     /protein_start="196"
                     /score="52.7"
                     /tool="antismash"
                     /translation="VYTVPVVWQVRGDLDVAAWEQAVCDVVARHEALRTR"
     CDS_motif       1040..1072
                     /aSTool="nrps_pks_domains"
                     /database="abmotifs"
                     /detection="hmmscan"
                     /domain_id="nrpspksmotif_DFR67_RS30095_0002"
                     /evalue="1.60E-05"
                     /label="C4_LCL_164-176"
                     /locus_tag="DFR67_RS30095"
                     /protein_end="356"
                     /protein_start="345"
                     /score="17.4"
                     /tool="antismash"
                     /translation="QYADFAVWQHH"
     CDS_motif       1331..1420
                     /aSTool="nrps_pks_domains"
                     /database="abmotifs"
                     /detection="hmmscan"
                     /domain_id="nrpspksmotif_DFR67_RS30095_0003"
                     /evalue="7.20E-14"
                     /label="C5_LCL_267-296"
                     /locus_tag="DFR67_RS30095"
                     /protein_end="472"
                     /protein_start="442"
                     /score="44.1"
                     /tool="antismash"
                     /translation="DLVVGSPIGGRTDPSLVDTVGYFVNTLPIR"
     CDS_motif       1469..1588
                     /aSTool="nrps_pks_domains"
                     /database="abmotifs"
                     /detection="hmmscan"
                     /domain_id="nrpspksmotif_DFR67_RS30095_0004"
                     /evalue="6.20E-11"
                     /label="C67_LCL_14fromHMM"
                     /locus_tag="DFR67_RS30095"
                     /protein_end="528"
                     /protein_start="488"
                     /score="34.6"
                     /tool="antismash"
                     /translation="RTAVLDAFEHQHLPFDLMAAEAEVLRVPGANPLAQVLLTY"
ORIGIN
        1 ggtggtggtt gcggtggagc atgcggtggc ggggacggtg ttggttgctt atctcacgcc
       61 ggggtcgctg gaggtgtctg gggagcagtt gcgggtgtgg ttgggtgcga ggttgcctgc
      121 tcatatggtg cctacggcgt ttgtgtggct tgaggtgttg ccggtgacgg cgaatggcaa
      181 actcgatcgc aaggcactgc ccgctgcaga cctgaccact gtcgtcggcc agggtcgtac
      241 gctctcgtct gacaccgaga tccaggtggc tgctgcgttc tcggcggtgt tgggcatgga
      301 cagcggcgtt gaattgtccg ttgaggacga cttcttcgcg ttgggcgggc actcgttgtt
      361 ggcgacgcgg ctggttgcgc ggctgggcga gggtcgtgtc ggtcagctgt cgttgcggtc
      421 ggtgttcgat catccgactg tcgctgggct ggcggctgtc gttgacggtt ccgtctctgg
      481 tgggcctgtg ttgccgcggg tgggtgatgt cgttcggccg gaggtggtgc cggcgtcgtt
      541 tggtcagcgg gcgttgtggg tggtcggtga gttgaccggt gcgggttcgg tgtacacggt
      601 gccggtggtg tggcaggttc gtggagacct cgatgtcgct gcgtgggagc aggccgtgtg
      661 cgacgtggta gctcgacacg aggcgctgcg gacccggctg atcgaagatg catcgggcga
      721 gttggtacag gtcgtcgaac ccggagaaaa cgtcacggac tggttggttg tcgaccaccg
      781 agatgcatcc gagcgtgacg aggaggcaac gggagaactc ctggacgact gggtccaacg
      841 cccggtctcc ctgaacgccg acatgcccgt tcgtgcgctt gtcgtttctc gaagcaatgg
      901 tcgatatgtg ctggcaatgg cgattcagca tgccttcgtc gacgagtggt cgcaacctgc
      961 gttggcggcg gacctgtggt cggcctacgt cgcccgtggc gctggacgtg agcctgcgtt
     1021 cgagccgttg cacgctcagt acgcggattt tgctgtatgg cagcatcatc tggacgacca
     1081 gggctacttc gatgtcgctc gccgctactg ggccgacgag ttggccggtg ttcctgagct
     1141 gtcgacgttg ccggctgatc atgtgcgtcc ggcgttcccg agtcatcgtg gtgcggatct
     1201 gccgatcgcg atcggtgcgg aggtgaccgg ccggcttcag caggttgcgg cggatgcgaa
     1261 tgtgtcgatg ttcatggtgg tccaggcagt cgtcgcggcc acgttgcatc gtctgggtgc
     1321 cggtgaggat ctggtggtcg gctcgccgat cggtgggcgc accgacccgt ccctggtgga
     1381 cacggtcggc tatttcgtga acacgctccc gatccggcat cgactcagcg tcgacgacag
     1441 tgtcgggagc ctcctcagca gaacgcggac cgctgttctc gacgcattcg agcaccagca
     1501 cttacctttt gacctcatgg ctgccgaagc ggaggtgctc cgcgtgccgg gtgcgaatcc
     1561 gctcgcgcag gtactcctca cgtacaccac cgacatcggt gagagttcta tctcgccgga
     1621 gctcgccatc tcctctggcc tgaccattct cgatccggtc cgtccgcatc tgggtgcggt
     1681 gaaggcggat ctggatgtgt atctgggtgt gcgggatggt ggtctcgagg gtttcgtgtc
     1741 gtatgcgacg gatctgtacg acccggctac ggcggcgcaa ttcgtgtcga cgttgggtgc
     1801 tgtggccgag gcgtttgctg ggtccgtcga tgttcggttg gcggagctgg aggtgcctgc
     1861 gcctgagcgt gaggtgctgg cggggtggtc gcaaggtgcg gtggcggatt tgtcggggag
     1921 cacagttgat ggggtgttgc gggctgctgc gaccgagaat gccgatgtcg gtgcggttgt
     1981 ctttggtgat gtgtgtttgt cgtatgccga gtttgatggg cgggtgaatc ggctggctcg
     2041 gtgtttggtt ggttgtggtg tgggggtggg tgatcgggtt gtggtggtgg ttcggcgtga
     2101 tgagtggttg ccggtgatgg tggggattgc ccccactttg gttgacatct gacctgtgag
     2161 atttgatctc acggtgaaag gatgttcgac atgcccaagc cctatccgaa ggagttc
//
