LOCUS NZ_JARDXE010000058 1881 bp DNA linear CON 01-APR-2024 DEFINITION Rhodococcus qingshengii strain HQ HQ1_scaffold58, whole genome shotgun sequence. ACCESSION NZ_JARDXE010000058 VERSION NZ_JARDXE010000058.1 KEYWORDS WGS; RefSeq. SOURCE Rhodococcus qingshengii ORGANISM Rhodococcus qingshengii Bacteria; Actinomycetota; Actinomycetes; Mycobacteriales; Nocardiaceae; Rhodococcus; Rhodococcus erythropolis group. REFERENCE 1 (bases 1 to 1881) AUTHORS Hu,J. and Xu,J. TITLE A novel hydrolase synthesized by Rhodococcus erythropolis HQ is responsible for the detoxification of Zearalenone JOURNAL Unpublished REFERENCE 2 (bases 1 to 1881) AUTHORS Hu,J. and Xu,J. TITLE Direct Submission JOURNAL Submitted (23-FEB-2023) Grain and Oil Risk Assessment Laboratory, Jiangsu Academy of Agricultural Sciences, No. 50, Zhongling Street, nanjing 210014, China COMMENT ##Genome-Assembly-Data-START## Assembly Date :: MAY-2022 Assembly Method :: ABySS v. 2.1.5 Genome Representation :: Full Expected Final Version :: Yes Reference-guided Assembly :: GCA_002079265.1 Genome Coverage :: 470.0x Sequencing Technology :: Illumina NovaSeq ##Genome-Assembly-Data-END## ##Genome-Annotation-Data-START## Annotation Provider :: NCBI RefSeq Annotation Name :: GCF_029076895.1-RS_2024_04_01 Annotation Date :: 04/01/2024 06:35:53 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) :: 6,927 CDSs (total) :: 6,855 Genes (coding) :: 6,768 CDSs (with protein) :: 6,768 Genes (RNA) :: 72 rRNAs :: 1, 1, 1 (5S, 16S, 23S) complete rRNAs :: 1, 1, 1 (5S, 16S, 23S) tRNAs :: 66 ncRNAs :: 3 Pseudo Genes (total) :: 87 CDSs (without protein) :: 87 Pseudo Genes (ambiguous residues) :: 0 of 87 Pseudo Genes (frameshifted) :: 33 of 87 Pseudo Genes (incomplete) :: 63 of 87 Pseudo Genes (internal stop) :: 12 of 87 Pseudo Genes (multiple problems) :: 18 of 87 ##Genome-Annotation-Data-END## ##antiSMASH-Data-START## Version :: 8.dev-cf2fc5ee(changed) Run date :: 2025-09-12 19:34:22 NOTE :: This is a single region extracted from a larger record! Orig. start :: 0 Orig. end :: 1881 ##antiSMASH-Data-END## REFSEQ INFORMATION: The reference sequence is identical to JARDXE010000058.1. 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 source 1..1881 /collection_date="2022-01" /country="China: Anhui, Suzhou" /db_xref="taxon:334542" /isolation_source="Corn field soil" /mol_type="genomic DNA" /organism="Rhodococcus qingshengii" /strain="HQ" /submitter_seqid="HQ1_scaffold58" gene <1..>1881 /locus_tag="PXH69_RS34485" /old_locus_tag="PXH69_34500" region 1..1881 /candidate_cluster_numbers="1" /contig_edge="True" /product="NRPS-like" /region_number="1" /rules="cds((PP-binding or NAD_binding_4) and (AMP-binding or A-OX) and not alpha_am_amid)" /tool="antismash" cand_cluster 1..1881 /SMILES="NC(C(O)C)C(=O)O" /candidate_cluster_number="1" /contig_edge="True" /detection_rules="cds((PP-binding or NAD_binding_4) and (AMP-binding or A-OX) and not alpha_am_amid)" /kind="single" /product="NRPS-like" /protoclusters="1" /tool="antismash" protocluster 1..1881 /aStool="rule-based-clusters" /category="NRPS" /contig_edge="True" /core_location="[4:>1881](+)" /cutoff="0" /detection_rule="cds((PP-binding or NAD_binding_4) and (AMP-binding or A-OX) and not alpha_am_amid)" /neighbourhood="20000" /product="NRPS-like" /protocluster_number="1" /tool="antismash" proto_core 5..>1881 /aStool="rule-based-clusters" /tool="antismash" /cutoff="0" /detection_rule="cds((PP-binding or NAD_binding_4) and (AMP-binding or A-OX) and not alpha_am_amid)" /neighbourhood="20000" /product="NRPS-like" /protocluster_number="1" CDS 5..>1881 /NRPS_PKS="Domain: AMP-binding (9-420). E-value: 1.5e-101. Score: 331.9. Matches aSDomain: nrpspksdomains_PXH69_RS34485_AMP-binding.1" /NRPS_PKS="Domain: PCP (526-593). E-value: 2.3e-25. Score: 80.6. Matches aSDomain: nrpspksdomains_PXH69_RS34485_PCP.1" /codon_start=3 /gene_functions="biosynthetic (rule-based-clusters) NRPS-like: AMP-binding" /gene_functions="biosynthetic (rule-based-clusters) NRPS-like: PP-binding" /gene_functions="biosynthetic-additional (smcogs) SMCOG1002: AMP-dependent synthetase and ligase" /gene_kind="biosynthetic" /inference="COORDINATES: similar to AA sequence:RefSeq:WP_019932726.1" /locus_tag="PXH69_RS34485" /note="Derived by automated computational analysis using gene prediction method: Protein Homology." /old_locus_tag="PXH69_34500" /product="amino acid adenylation domain-containing protein" /protein_id="WP_156667390.1" /sec_met_domain="AMP-binding (E-value: 7e-108, bitscore: 346.8, seeds: 400, tool: rule-based-clusters)" /sec_met_domain="PP-binding (E-value: 1.5e-18, bitscore: 53.4, seeds: 164, tool: rule-based-clusters)" /transl_table=11 /translation="MVDSTLSAWFDDAAARFGDRVAVRFGGESLSYGELSVRANRLARR LIAQGCGPESLVAVALPRSADLVVALLAVVKSGAGYLPVDPSYPADRVEFMLADAAPVA AISWSGRELVLPAGLPVVDIDAVDVSEFDGSVVSDADRVAPLRSSNVAYVIYTSGSTGR PKGVQVPHTTVAKLFANTEGVYGFDESDVWTMFHSYAFDFSVWELWGPLLYGGTLVVVD YVTSRSPEQFLELLAAERVTVLNQTPSAFYQLAEADRLASESGRAAELSLRWVVFGGEA LELRRLSDWYGRRGDFAPTLVNMYGITETTVHVSHRVLDAALAADASASVVGQAISGLQ VFVLDTRLAPVPVGVAGEMYVSGVQLARGYLGQAGLTSTRFVANPFNAGEVLYRTGDVA SWNSAGDLEYLGRADDQVKIRGFRIEIGEIESAVLADVSVAQTAVVVREDSPGDQRLVA YVVPAAGVSVSVDDLRVSVGSLLPEYMVPSAFVVLDSIPLTVNGKLDRRALPVPSLQVA VFRAPTSVVEEVVAQTFADVLGVERVGLDDDFFALGGNSLIATQVTSRLGQALDASVSV RELFEASTVEALAARLGSHVGGGSRAALTAQVRPVRVPLSLAQQRMWFLN" aSDomain 34..1266 /aSDomain="AMP-binding" /aSTool="nrps_pks_domains" /database="nrpspksdomains.hmm" /detection="hmmscan" /domain_id="nrpspksdomains_PXH69_RS34485_AMP-binding.1" /evalue="1.50E-101" /label="PXH69_RS34485_AMP-binding.1" /locus_tag="PXH69_RS34485" /protein_end="420" /protein_start="9" /score="331.9" /specificity="substrate consensus: Thr" /tool="antismash" /translation="FDDAAARFGDRVAVRFGGESLSYGELSVRANRLARRLIAQGCGPE SLVAVALPRSADLVVALLAVVKSGAGYLPVDPSYPADRVEFMLADAAPVAAISWSGREL VLPAGLPVVDIDAVDVSEFDGSVVSDADRVAPLRSSNVAYVIYTSGSTGRPKGVQVPHT TVAKLFANTEGVYGFDESDVWTMFHSYAFDFSVWELWGPLLYGGTLVVVDYVTSRSPEQ FLELLAAERVTVLNQTPSAFYQLAEADRLASESGRAAELSLRWVVFGGEALELRRLSDW YGRRGDFAPTLVNMYGITETTVHVSHRVLDAALAADASASVVGQAISGLQVFVLDTRLA PVPVGVAGEMYVSGVQLARGYLGQAGLTSTRFVANPFNAGEVLYRTGDVASWNSAGDLE YLGRADDQVKIR" aSModule 34..1785 /complete /domains="nrpspksdomains_PXH69_RS34485_AMP-binding.1" /domains="nrpspksdomains_PXH69_RS34485_PCP.1" /locus_tags="PXH69_RS34485" /monomer_pairings="Thr -> Thr" /starter_module /tool="antismash" /type="nrps" CDS_motif 220..261 /aSTool="nrps_pks_domains" /database="abmotifs" /detection="hmmscan" /domain_id="nrpspksmotif_PXH69_RS34485_0001" /evalue="7.90E-04" /label="NRPS-A_a2" /locus_tag="PXH69_RS34485" /protein_end="85" /protein_start="71" /score="12.9" /tool="antismash" /translation="LAVVKSGAGYLPVD" CDS_motif 460..519 /aSTool="nrps_pks_domains" /database="abmotifs" /detection="hmmscan" /domain_id="nrpspksmotif_PXH69_RS34485_0002" /evalue="8.50E-11" /label="NRPS-A_a3" /locus_tag="PXH69_RS34485" /protein_end="171" /protein_start="151" /score="33.6" /tool="antismash" /translation="AYVIYTSGSTGRPKGVQVPH" CDS_motif 1060..1149 /aSTool="nrps_pks_domains" /database="abmotifs" /detection="hmmscan" /domain_id="nrpspksmotif_PXH69_RS34485_0003" /evalue="3.30E-14" /label="NRPS-A_a6" /locus_tag="PXH69_RS34485" /protein_end="381" /protein_start="351" /score="45.0" /tool="antismash" /translation="PVGVAGEMYVSGVQLARGYLGQAGLTSTRF" CDS_motif 1231..1296 /aSTool="nrps_pks_domains" /database="abmotifs" /detection="hmmscan" /domain_id="nrpspksmotif_PXH69_RS34485_0004" /evalue="1.20E-12" /label="NRPS-A_a8" /locus_tag="PXH69_RS34485" /protein_end="430" /protein_start="408" /score="39.6" /tool="antismash" /translation="YLGRADDQVKIRGFRIEIGEIE" aSDomain 1585..1785 /aSDomain="PCP" /aSTool="nrps_pks_domains" /database="nrpspksdomains.hmm" /detection="hmmscan" /domain_id="nrpspksdomains_PXH69_RS34485_PCP.1" /evalue="2.30E-25" /label="PXH69_RS34485_PCP.1" /locus_tag="PXH69_RS34485" /protein_end="593" /protein_start="526" /score="80.6" /tool="antismash" /translation="EEVVAQTFADVLGVERVGLDDDFFALGGNSLIATQVTSRLGQALD ASVSVRELFEASTVEALAARLG" CDS_motif 1852..>1881 /aSTool="nrps_pks_domains" /database="abmotifs" /detection="hmmscan" /domain_id="nrpspksmotif_PXH69_RS34485_0005" /evalue="2.10E-03" /label="C1_LCL_004-017" /locus_tag="PXH69_RS34485" /protein_end="626" /protein_start="615" /score="10.6" /tool="antismash" /translation="SLAQQRMWFLN" ORIGIN 1 gtggtgtgga ttcgacgttg tcggcgtggt tcgatgatgc tgctgcgcgg tttggtgatc 61 gggttgcggt gcggttcggt ggcgagtcgt tgtcgtatgg tgagttgtcg gtgcgggcta 121 atcgtttggc gcgcaggttg attgctcagg gttgtggtcc ggagtcgttg gtggcggtgg 181 cgttgccgcg gtcggcggat cttgtggtgg cgttgttggc ggtggtgaag tccggtgcgg 241 ggtatttgcc ggtggatccg tcgtatccgg ctgatcgtgt cgagttcatg ttggctgatg 301 ctgctccggt ggctgcgatt tcgtggtccg ggcgtgagtt ggtgttgccc gctggtttgc 361 cggtggttga tatcgacgcg gtggatgtgt cggagttcga tggttcggtg gtttcggatg 421 cggatcgtgt tgcgccgttg cggtcgtcga atgttgcgta tgtgatttac acgtcgggtt 481 cgacgggtcg cccgaagggt gtgcaggttc cgcacacgac ggtggcgaag ttgtttgcga 541 ataccgaggg tgtgtacggg ttcgacgaat ccgatgtgtg gacgatgttc cacagttatg 601 cgttcgactt ctcggtgtgg gagttgtggg gtccgctgtt gtacggcggc acgttggtgg 661 ttgtggatta tgtgacgtcg cggtcgccgg agcagttctt ggagttgctt gctgctgagc 721 gggtgacggt gctcaatcag acgccgtcgg cgttctatca gttggccgag gctgatcggt 781 tggcgtcgga atccggtcgg gctgctgagt tgtcgttgcg gtgggttgtt ttcggcggcg 841 aggcgctcga gctgcgtcgc ttgtcggatt ggtacggccg ccgcggtgac ttcgcgccga 901 cgttggtgaa catgtatggc atcacggaga cgacggtgca tgtgagccat cgtgtgttgg 961 atgctgcgtt ggcggcggat gcgtcggcga gtgttgtggg tcaggctatt tcgggtctgc 1021 aggtgttcgt gctcgatacg cgtttggctc cggtgcctgt tggtgtcgcg ggtgagatgt 1081 atgtctctgg tgttcagttg gctcggggtt atctgggtca ggcggggttg acgtcgacgc 1141 ggtttgtggc gaatccgttc aatgccggcg aggtgttgta ccgcacgggt gacgtcgcgt 1201 cgtggaacag cgctggtgat ttggagtatc tgggtcgcgc ggatgatcag gtgaagatcc 1261 gtggtttccg gatcgagatc ggtgagatcg agtctgcggt gttggcggat gtgtcggtgg 1321 cgcagacggc ggtggttgtc cgtgaggatt ctccgggtga tcagcggttg gtggcgtatg 1381 tggttccggc tgcgggtgtg agcgtttcgg tcgacgatct tcgggtgtcg gtgggttcgt 1441 tgttgccgga gtacatggtg ccgtcggcgt ttgtggtgtt ggattcgatt ccgttgacgg 1501 tgaacgggaa gttggatcgt cgggcgttgc cggttccgtc gttgcaggtt gcggtgttcc 1561 gtgctccgac gtcggtggtg gaagaggttg ttgcgcagac gtttgcggat gttctgggcg 1621 tcgagcgtgt tggtttggat gatgatttct tcgcgctcgg tggtaattcg ctgattgcga 1681 cgcaggtgac gtctcggttg ggtcaggcgt tggatgcttc ggtgtcggtg cgggagttgt 1741 tcgaggcgtc gacggtggag gcgttggctg ctcgtttggg ttctcatgtc ggtggcggtt 1801 cacgtgcggc gttgactgcg caggtgcgtc cggttcgggt tccgttgtcg ttggcgcagc 1861 agcgcatgtg gttcctcaac c //