Advenella mimigardefordensis DPN7 plasmid 24p, complete sequence.
Bacteria; Pseudomonadota; Betaproteobacteria; Burkholderiales; Alcaligenaceae.
Unravelling the complete genome sequence of Advenella mimigardefordensis strain DPN7T and novel insights in the catabolism of the xenobiotic polythioester precursor 3,3'-dithiodipropionate
Submitted (30-OCT-2012) Genomic and Applied Microbiology, Goettingen Genomics Laboratory, Georg-August-University Goettingen, Grisebachstrasse 8, Goettingen, Lower Saxony 37077, Germany
REFSEQ INFORMATION: The reference sequence is identical to\nCP003916.1.\nThe annotation was added by the NCBI Prokaryotic Genome Annotation\nPipeline (PGAP). Information about PGAP can be found here:\nhttps://www.ncbi.nlm.nih.gov/genome/annotation_prok/\n\n##Genome-Annotation-Data-START##\nAnnotation Provider :: NCBI RefSeq\nAnnotation Date :: 05/03/2023 02:44:50\nAnnotation Pipeline :: NCBI Prokaryotic Genome\n Annotation Pipeline (PGAP)\nAnnotation Method :: Best-placed reference protein\n set; GeneMarkS-2+\nAnnotation Software revision :: 6.5\nFeatures Annotated :: Gene; CDS; rRNA; tRNA; ncRNA\nGenes (total) :: 4,380\nCDSs (total) :: 4,329\nGenes (coding) :: 4,290\nCDSs (with protein) :: 4,290\nGenes (RNA) :: 51\nrRNAs :: 2, 2, 2 (5S, 16S, 23S)\ncomplete rRNAs :: 2, 2, 2 (5S, 16S, 23S)\ntRNAs :: 41\nncRNAs :: 4\nPseudo Genes (total) :: 39\nCDSs (without protein) :: 39\nPseudo Genes (ambiguous residues) :: 0 of 39\nPseudo Genes (frameshifted) :: 18 of 39\nPseudo Genes (incomplete) :: 22 of 39\nPseudo Genes (internal stop) :: 3 of 39\nPseudo Genes (multiple problems) :: 4 of 39\n##Genome-Annotation-Data-END##\nCOMPLETENESS: full length.
type strain of Advenella mimigardefordensis
COORDINATES: similar to AA sequence:RefSeq:WP_002943959.1
Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_014752743.1
COORDINATES: similar to AA sequence:RefSeq:WP_014752742.1
translesion error-prone DNA polymerase V autoproteolytic subunit
COORDINATES: ab initio prediction:GeneMarkS-2+
Derived by automated computational analysis using gene prediction method: GeneMarkS-2+.
COORDINATES: similar to AA sequence:RefSeq:WP_014752739.1
helix-turn-helix domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_011341074.1
GO:0004803 - transposase activity [Evidence IEA]
internal stop; incomplete; partial in the middle of a contig; missing N-terminus; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_019576565.1
COORDINATES: similar to AA sequence:RefSeq:WP_018227623.1
GO:0009316 - 3-isopropylmalate dehydratase complex [Evidence IEA]
GO:0003861 - 3-isopropylmalate dehydratase activity [Evidence IEA]
GO:0009098 - leucine biosynthetic process [Evidence IEA]
frameshifted; Derived by automated computational analysis using gene prediction method: Protein Homology.
3-isopropylmalate dehydratase large subunit
COORDINATES: similar to AA sequence:RefSeq:WP_013820590.1
3-isopropylmalate dehydratase small subunit
COORDINATES: similar to AA sequence:RefSeq:WP_011802517.1
GO:0042597 - periplasmic space [Evidence IEA]
tripartite tricarboxylate transporter substrate binding protein
COORDINATES: similar to AA sequence:RefSeq:WP_011073373.1
COORDINATES: protein motif:HMM:NF015431.2
COORDINATES: similar to AA sequence:RefSeq:WP_006402818.1
GO:0003824 - catalytic activity [Evidence IEA]
fumarylacetoacetate hydrolase family protein
COORDINATES: similar to AA sequence:RefSeq:WP_009286264.1
COORDINATES: similar to AA sequence:RefSeq:WP_076611949.1
GO:0003677 - DNA binding [Evidence IEA]; GO:0004803 - transposase activity [Evidence IEA]
GO:0006313 - transposition, DNA-mediated [Evidence IEA]
incomplete; partial in the middle of a contig; missing C-terminus; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_014752751.1
GO:0015074 - DNA integration [Evidence IEA]; GO:0006310 - DNA recombination [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_014752750.1
COORDINATES: similar to AA sequence:RefSeq:WP_004152394.1
incomplete; partial in the middle of a contig; missing N-terminus; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_014752748.1
GO:0003697 - single-stranded DNA binding [Evidence IEA]
GO:0006974 - cellular response to DNA damage stimulus [Evidence IEA]; GO:0018142 - protein-DNA covalent cross-linking [Evidence IEA]
SOS response-associated peptidase family protein
COORDINATES: similar to AA sequence:RefSeq:WP_006746381.1
type II toxin-antitoxin system mRNA interferase toxin, RelE/StbE family
COORDINATES: similar to AA sequence:RefSeq:WP_006924728.1
type II toxin-antitoxin system RelB/DinJ family antitoxin
COORDINATES: similar to AA sequence:RefSeq:WP_007425125.1
COORDINATES: similar to AA sequence:RefSeq:WP_011279234.1
ribbon-helix-helix domain-containing protein