LOCUS       NZ_SGWQ01000025         2289 bp    DNA     linear   CON 10-APR-2024
DEFINITION  Herbihabitans rhizosphaerae strain DSM 101727 Ga0310478_125, whole
            genome shotgun sequence.
ACCESSION   NZ_SGWQ01000025
VERSION     NZ_SGWQ01000025.1
KEYWORDS    WGS; RefSeq.
SOURCE      Herbihabitans rhizosphaerae
  ORGANISM  Herbihabitans rhizosphaerae
            Bacteria; Actinomycetota; Actinomycetes; Pseudonocardiales;
            Pseudonocardiaceae; Herbihabitans.
REFERENCE   1  (bases 1 to 2289)
  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  JOURNAL   Unpublished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 2289)
  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 (14-FEB-2019) Prokaryotic Super Group, DOE Joint Genome
            Institute, 2800 Mitchell Drive, Walnut Creek, CA 94598, USA
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: SPAdes v. 3.12.0
            Genome Representation             :: Full
            Expected Final Version            :: No
            Genome Coverage                   :: 226.0x
            Sequencing Technology             :: Illumina
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_004216555.1-RS_2024_04_10
            Annotation Date                   :: 04/10/2024 19:27:01
            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)                     :: 6,690
            CDSs (total)                      :: 6,628
            Genes (coding)                    :: 6,561
            CDSs (with protein)               :: 6,561
            Genes (RNA)                       :: 62
            rRNAs                             :: 3, 1, 1 (5S, 16S, 23S)
            complete rRNAs                    :: 1, 1, 1 (5S, 16S, 23S)
            partial rRNAs                     :: 2 (5S)
            tRNAs                             :: 54
            ncRNAs                            :: 3
            Pseudo Genes (total)              :: 67
            CDSs (without protein)            :: 67
            Pseudo Genes (ambiguous residues) :: 0 of 67
            Pseudo Genes (frameshifted)       :: 13 of 67
            Pseudo Genes (incomplete)         :: 59 of 67
            Pseudo Genes (internal stop)      :: 5 of 67
            Pseudo Genes (multiple problems)  :: 9 of 67
            CRISPR Arrays                     :: 3
            ##Genome-Annotation-Data-END##
            ##antiSMASH-Data-START##
            Version                           :: 8.dev-cf2fc5ee(changed)
            Run date                          :: 2025-09-13 07:31:17
            NOTE :: This is a single region extracted from a larger record!
            Orig. start                       :: 0
            Orig. end                         :: 2289
            ##antiSMASH-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            SGWQ01000025.1.
            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..2289
                     /culture_collection="DSM:101727"
                     /db_xref="taxon:1872711"
                     /mol_type="genomic DNA"
                     /organism="Herbihabitans rhizosphaerae"
                     /strain="DSM 101727"
                     /submitter_seqid="Ga0310478_125"
                     /type_material="type strain of Herbihabitans rhizosphaerae"
     region          1..2289
                     /candidate_cluster_numbers="1"
                     /contig_edge="True"
                     /product="T1PKS"
                     /region_number="1"
                     /rules="cds(PKS_AT and (PKS_KS or ene_KS or mod_KS or
                     hyb_KS or itr_KS or tra_KS))"
                     /tool="antismash"
     cand_cluster    1..2289
                     /SMILES=""
                     /candidate_cluster_number="1"
                     /contig_edge="True"
                     /detection_rules="cds(PKS_AT and (PKS_KS or ene_KS or
                     mod_KS or hyb_KS or itr_KS or tra_KS))"
                     /kind="single"
                     /product="T1PKS"
                     /protoclusters="1"
                     /tool="antismash"
     protocluster    1..2289
                     /aStool="rule-based-clusters"
                     /category="PKS"
                     /contig_edge="True"
                     /core_location="[16:>2289](+)"
                     /cutoff="20000"
                     /detection_rule="cds(PKS_AT and (PKS_KS or ene_KS or mod_KS
                     or hyb_KS or itr_KS or tra_KS))"
                     /neighbourhood="20000"
                     /product="T1PKS"
                     /protocluster_number="1"
                     /tool="antismash"
     proto_core      17..>2289
                     /aStool="rule-based-clusters"
                     /tool="antismash"
                     /cutoff="20000"
                     /detection_rule="cds(PKS_AT and (PKS_KS or ene_KS or mod_KS
                     or hyb_KS or itr_KS or tra_KS))"
                     /neighbourhood="20000"
                     /product="T1PKS"
                     /protocluster_number="1"
     gene            17..>2289
                     /locus_tag="EV193_RS33015"
     CDS             17..>2289
                     /NRPS_PKS="Domain: PKS_AT (333-637). E-value: 4e-102.
                     Score: 333.5. Matches aSDomain:
                     nrpspksdomains_EV193_RS33015_PKS_AT.1"
                     /codon_start=1
                     /gene_functions="biosynthetic (rule-based-clusters) T1PKS:
                     PKS_AT"
                     /gene_functions="biosynthetic (rule-based-clusters) T1PKS:
                     mod_KS"
                     /gene_functions="biosynthetic-additional (smcogs)
                     SMCOG1022: Beta-ketoacyl synthase"
                     /gene_kind="biosynthetic"
                     /inference="COORDINATES: protein motif:HMM:NF012901.4"
                     /locus_tag="EV193_RS33015"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /product="type I polyketide synthase"
                     /protein_id="WP_207222908.1"
                     /sec_met_domain="mod_KS (E-value: 1.4e-89, bitscore: 286.9,
                     seeds: 217, tool: rule-based-clusters)"
                     /sec_met_domain="PKS_AT (E-value: 6.6e-104, bitscore:
                     333.5, seeds: 1682, tool: rule-based-clusters)"
                     /transl_table=11
                     /translation="MVLVERLSVARRLGHVVLGVVRGCAVNQDGASNGLTAPSGLSQER
                     VIGRALGVAGLVSGDVDVVEGHGTGTVLGDPIEVGALLGTYGRGRGSVGPLLLGSLKSN
                     IGHAQAAAGVAGVIKMVLAMRYGVVPGSLHVSVPSGKVDWSVGGVEVVTGAREWPDYGR
                     PRRCGVSSFGVSGTNAHVILEQAPPEISAEIPGAEIPVVSGGSLGGVVPWVLSARSEGA
                     LGVLAGRVGDWLTDLADLNDTRTDTGNDIGNEVDSVGVGVGLLGRAVWERRAVVVVSEG
                     GFGAGVDAVRGFAGEVSSGDLDGFAGSGSGSGSGSGFGVVSGVVGGVGKTVFVFPGQGA
                     QWVGMGAELLGSAPVFGECLVRCSGVLESLVGWSVVDVVRGVSGAPSLDRVDVVQPVSF
                     AVMVSLAALWRAHGVVPDAVVGHSQGEIAAACVAGALSVEDAARVVALRSGVIGDRLAG
                     RGGMVSLAVPVDGVDRWLGSGVELAAVNGPSSVVVAGEPAALDRLVVECEREGVRARRV
                     AVDYASHTSQVGSVREELVAALDGLSAVAPRVPWLSTVTGEWVTEPPTARYWYRNLAQP
                     VRFAEATATLLDQGHTVFVETSPHPVLTASIQDTATNHTSSGEAGSDQTGGVVVTGTLR
                     RDDGSPERFLHSLAHLWTHGVTVDFTPTLPTHTVTNTRVTPPANQPTYPFQHHTRYWLT
                     PTPHTNLTNTGLTNTNHPLLPATLHLPDTHHQLHTGQLTTTNHPWLTHHTINNTTLLPG
                     TALI"
     CDS_motif       206..250
                     /aSTool="nrps_pks_domains"
                     /database="abmotifs"
                     /detection="hmmscan"
                     /domain_id="nrpspksmotif_EV193_RS33015_0001"
                     /evalue="1.50E-03"
                     /label="PKSI-KS_m5"
                     /locus_tag="EV193_RS33015"
                     /protein_end="78"
                     /protein_start="63"
                     /score="11.1"
                     /tool="antismash"
                     /translation="VEGHGTGTVLGDPIE"
     CDS_motif       311..355
                     /aSTool="nrps_pks_domains"
                     /database="abmotifs"
                     /detection="hmmscan"
                     /domain_id="nrpspksmotif_EV193_RS33015_0002"
                     /evalue="1.30E-03"
                     /label="PKSI-KS_m6"
                     /locus_tag="EV193_RS33015"
                     /protein_end="113"
                     /protein_start="98"
                     /score="11.3"
                     /tool="antismash"
                     /translation="GSLKSNIGHAQAAAG"
     CDS_motif       1010..1066
                     /aSTool="nrps_pks_domains"
                     /database="abmotifs"
                     /detection="hmmscan"
                     /domain_id="nrpspksmotif_EV193_RS33015_0003"
                     /evalue="9.80E-10"
                     /label="PKSI-AT-mM_m1"
                     /locus_tag="EV193_RS33015"
                     /protein_end="350"
                     /protein_start="331"
                     /score="30.0"
                     /tool="antismash"
                     /translation="VFVFPGQGAQWVGMGAELL"
     aSDomain        1016..1927
                     /ASF="(Methyl)Malonyl-CoA specificity inconclusive"
                     /ASF="found active site serine: True, scaffold matched
                     GHGE: True"
                     /aSDomain="PKS_AT"
                     /aSTool="nrps_pks_domains"
                     /database="nrpspksdomains.hmm"
                     /detection="hmmscan"
                     /domain_id="nrpspksdomains_EV193_RS33015_PKS_AT.1"
                     /evalue="4.00E-102"
                     /label="EV193_RS33015_PKS_AT.1"
                     /locus_tag="EV193_RS33015"
                     /protein_end="637"
                     /protein_start="333"
                     /score="333.5"
                     /specificity="substrate consensus: mmal"
                     /specificity="PKS signature: Methylmalonyl-CoA"
                     /specificity="Minowa: mmal"
                     /tool="antismash"
                     /translation="VFPGQGAQWVGMGAELLGSAPVFGECLVRCSGVLESLVGWSVVDV
                     VRGVSGAPSLDRVDVVQPVSFAVMVSLAALWRAHGVVPDAVVGHSQGEIAAACVAGALS
                     VEDAARVVALRSGVIGDRLAGRGGMVSLAVPVDGVDRWLGSGVELAAVNGPSSVVVAGE
                     PAALDRLVVECEREGVRARRVAVDYASHTSQVGSVREELVAALDGLSAVAPRVPWLSTV
                     TGEWVTEPPTARYWYRNLAQPVRFAEATATLLDQGHTVFVETSPHPVLTASIQDTATNH
                     TSSGEAGSDQTGGVVVTGTLRRD"
     CDS_motif       1178..1249
                     /aSTool="nrps_pks_domains"
                     /database="abmotifs"
                     /detection="hmmscan"
                     /domain_id="nrpspksmotif_EV193_RS33015_0004"
                     /evalue="3.50E-11"
                     /label="PKSI-AT-mM_m2"
                     /locus_tag="EV193_RS33015"
                     /protein_end="411"
                     /protein_start="387"
                     /score="35.0"
                     /tool="antismash"
                     /translation="LDRVDVVQPVSFAVMVSLAALWRA"
     CDS_motif       1253..1363
                     /aSTool="nrps_pks_domains"
                     /database="abmotifs"
                     /detection="hmmscan"
                     /domain_id="nrpspksmotif_EV193_RS33015_0005"
                     /evalue="7.20E-20"
                     /label="PKSI-AT-mM_m3"
                     /locus_tag="EV193_RS33015"
                     /protein_end="449"
                     /protein_start="412"
                     /score="62.7"
                     /tool="antismash"
                     /translation="GVVPDAVVGHSQGEIAAACVAGALSVEDAARVVALRS"
     CDS_motif       1463..1501
                     /aSTool="nrps_pks_domains"
                     /database="abmotifs"
                     /detection="hmmscan"
                     /domain_id="nrpspksmotif_EV193_RS33015_0006"
                     /evalue="5.10E-04"
                     /label="PKSI-AT-M_m5"
                     /locus_tag="EV193_RS33015"
                     /protein_end="495"
                     /protein_start="482"
                     /score="13.3"
                     /tool="antismash"
                     /translation="AAVNGPSSVVVAG"
     CDS_motif       1571..1600
                     /aSTool="nrps_pks_domains"
                     /database="abmotifs"
                     /detection="hmmscan"
                     /domain_id="nrpspksmotif_EV193_RS33015_0007"
                     /evalue="1.40E-03"
                     /label="PKSI-AT-mM_m6"
                     /locus_tag="EV193_RS33015"
                     /protein_end="528"
                     /protein_start="518"
                     /score="11.5"
                     /tool="antismash"
                     /translation="VDYASHTSQV"
     CDS_motif       1712..1753
                     /aSTool="nrps_pks_domains"
                     /database="abmotifs"
                     /detection="hmmscan"
                     /domain_id="nrpspksmotif_EV193_RS33015_0008"
                     /evalue="1.50E-04"
                     /label="PKSI-AT-mM_m8"
                     /locus_tag="EV193_RS33015"
                     /protein_end="579"
                     /protein_start="565"
                     /score="14.1"
                     /tool="antismash"
                     /translation="ARYWYRNLAQPVRF"
     CDS_motif       1796..1825
                     /aSTool="nrps_pks_domains"
                     /database="abmotifs"
                     /detection="hmmscan"
                     /domain_id="nrpspksmotif_EV193_RS33015_0009"
                     /evalue="5.90E-03"
                     /label="PKSI-AT-mM_m9"
                     /locus_tag="EV193_RS33015"
                     /protein_end="603"
                     /protein_start="593"
                     /score="9.4"
                     /tool="antismash"
                     /translation="FVETSPHPVL"
     CDS_motif       2231..2287
                     /aSTool="nrps_pks_domains"
                     /database="abmotifs"
                     /detection="hmmscan"
                     /domain_id="nrpspksmotif_EV193_RS33015_0010"
                     /evalue="1.20E-03"
                     /label="PKSI-DH_m2"
                     /locus_tag="EV193_RS33015"
                     /protein_end="757"
                     /protein_start="738"
                     /score="11.6"
                     /tool="antismash"
                     /translation="WLTHHTINNTTLLPGTALI"
ORIGIN
        1 ggccgagggt gttggtgtgg tgttggtgga gcggttgtcg gtggcgcggc ggttgggtca
       61 tgtggttttg ggtgtggttc ggggttgtgc ggtgaatcag gatggtgcgt cgaatgggtt
      121 gacggcgccg agtggtttgt cgcaggagcg ggtgattggt cgggcgttgg gtgttgcggg
      181 tttggtgtcg ggtgatgtgg atgtggtgga ggggcatggg acggggacgg tgttggggga
      241 tccgattgag gttggggcgt tgttggggac gtatgggcgt ggtcggggtt cggttgggcc
      301 gttgttgttg gggtcgttga agtcgaatat tggtcatgcg caggcggcgg cgggtgttgc
      361 tggtgtgatc aagatggtgt tggcgatgcg gtatggggtg gtgccggggt cgttgcatgt
      421 gtcggtgccg tcggggaagg ttgattggtc ggttggtggg gttgaggtgg tgacgggggc
      481 gcgggagtgg ccggattatg gtcggccgcg gcggtgtggt gtgtcgtcgt ttggggtgag
      541 tgggacgaat gcgcatgtga ttttggagca ggcgccgccc gaaatttctg ccgagattcc
      601 cggcgctgag attcctgtgg tttctggtgg ttcgttgggt ggggtggtgc cgtgggtgtt
      661 gtcggcgcgt tctgagggtg cgttgggtgt gttggcgggt cgggtggggg attggttgac
      721 tgatctggcc gatctgaatg acaccaggac tgataccggt aatgacatcg gtaatgaggt
      781 tgattctgtt ggtgtggggg ttgggttgtt gggtcgtgcg gtgtgggagc ggcgtgcggt
      841 ggtggtggtg tcggagggtg gttttggtgc gggtgttgat gcggtgcggg gttttgcggg
      901 tgaggtgagt tccggcgatc ttgacggttt tgctggttct ggttctggtt ctggttctgg
      961 ttctggtttt ggtgtggtgt cgggtgttgt ggggggtgtg gggaagacgg tttttgtgtt
     1021 tcctgggcag ggggctcagt gggtggggat gggggcggag ttgttggggt cggctccggt
     1081 gtttggggag tgtttggtgc ggtgttctgg ggtgttggag tcgttggtgg ggtggtctgt
     1141 tgttgatgtg gtgcgggggg tgtcgggtgc gccgtcgttg gatcgggtgg atgtggtgca
     1201 gccggtgtcg tttgcggtga tggtgtcgtt ggcggcgttg tggcgggcgc atggtgtggt
     1261 gccggatgcg gtggtggggc attcgcaggg ggagattgcg gcggcgtgtg tggcgggggc
     1321 gttgtcggtg gaggatgcgg cgcgggtggt ggcgttgcgt agtggggtga ttggggatcg
     1381 gcttgctggt cggggtggga tggtgtcgtt ggcggtgccg gttgatgggg tggatcggtg
     1441 gttggggtcg ggggtggagt tggcggcggt gaatggtccg tcgtcggtgg tggtggcggg
     1501 agagccggcc gcgttggatc ggttggtggt cgagtgtgag cgggaggggg tgcgggcgcg
     1561 tcgggttgcg gtggattacg cgtcgcatac ctcgcaggtg gggtcggtgc gggaggagtt
     1621 ggtggctgcg ctggacgggt tgagtgcggt ggcgccgcgg gtgccgtggt tgtccacggt
     1681 gaccggtgag tgggttaccg agccgcccac ggcgcggtat tggtatcgca atctggccca
     1741 gccggtgcgg ttcgccgagg ccaccgccac cctgctcgat cagggtcaca ccgtgttcgt
     1801 cgagaccagt ccgcatcccg tgctgaccgc cagcatccag gacaccgcca ccaaccacac
     1861 cagttcgggc gaggctggtt cggatcaaac gggtggggtg gtggtcaccg gcaccctgcg
     1921 ccgcgatgac ggcagcccgg aacgattcct gcactccctg gcccacctgt ggacccacgg
     1981 cgtcaccgtg gacttcaccc ccaccctgcc cacccacacc gtcaccaaca ccagggtcac
     2041 cccaccggcc aaccaaccca cctacccctt ccaacaccac acccgctact ggctcacccc
     2101 caccccccac accaacctca ccaacaccgg cctcaccaac accaaccacc ccctcctccc
     2161 cgccaccctc cacctccccg acacccacca ccaactccac accggacaac tcaccaccac
     2221 caaccacccc tggctcaccc accacaccat caacaacacc accctcctcc ccggcaccgc
     2281 actcatcga
//
