Deefgea piscis strain D17 plasmid unnamed1, complete sequence.
Bacteria; Pseudomonadota; Betaproteobacteria; Neisseriales; Chromobacteriaceae; Deefgea.
Complete genome sequence of Deefgea sp. D17
Submitted (28-MAY-2020) Department of Life and Nanopharmaceutical Sciences and Department of Biology, Kyung Hee University, Kyungheedae-ro 26, Seoul 130-701, South Korea
REFSEQ INFORMATION: The reference sequence is identical to\nCP054144.1.\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-Assembly-Data-START##\nAssembly Date :: NOV-2019\nAssembly Method :: HGAP v. 3\nGenome Representation :: Full\nExpected Final Version :: Yes\nGenome Coverage :: 280.15x\nSequencing Technology :: PacBio RSII\n##Genome-Assembly-Data-END##\n\n##Genome-Annotation-Data-START##\nAnnotation Provider :: NCBI RefSeq\nAnnotation Date :: 11/06/2022 08:39:18\nAnnotation Pipeline :: NCBI Prokaryotic Genome\n Annotation Pipeline (PGAP)\nAnnotation Method :: Best-placed reference protein\n set; GeneMarkS-2+\nAnnotation Software revision :: 6.3\nFeatures Annotated :: Gene; CDS; rRNA; tRNA; ncRNA;\n repeat_region\nGenes (total) :: 3,224\nCDSs (total) :: 3,115\nGenes (coding) :: 3,067\nCDSs (with protein) :: 3,067\nGenes (RNA) :: 109\nrRNAs :: 8, 8, 8 (5S, 16S, 23S)\ncomplete rRNAs :: 8, 8, 8 (5S, 16S, 23S)\ntRNAs :: 81\nncRNAs :: 4\nPseudo Genes (total) :: 48\nCDSs (without protein) :: 48\nPseudo Genes (ambiguous residues) :: 0 of 48\nPseudo Genes (frameshifted) :: 10 of 48\nPseudo Genes (incomplete) :: 42 of 48\nPseudo Genes (internal stop) :: 5 of 48\nPseudo Genes (multiple problems) :: 8 of 48\nCRISPR Arrays :: 1\n##Genome-Annotation-Data-END##\nCOMPLETENESS: full length.
COORDINATES: similar to AA sequence:RefSeq:WP_009602860.1
frameshifted; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_012354489.1
Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_014236577.1
COORDINATES: similar to AA sequence:RefSeq:WP_019272198.1
type II toxin-antitoxin system HigB family toxin
COORDINATES: protein motif:HMM:NF014691.2
COORDINATES: similar to AA sequence:RefSeq:WP_018314468.1
COORDINATES: similar to AA sequence:RefSeq:WP_017894002.1
COORDINATES: protein motif:HMM:NF037735.2
COORDINATES: ab initio prediction:GeneMarkS-2+
Derived by automated computational analysis using gene prediction method: GeneMarkS-2+.
COORDINATES: protein motif:HMM:NF013258.2
COORDINATES: similar to AA sequence:RefSeq:WP_013966328.1
internal stop; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: protein motif:HMM:NF007621.2
translesion error-prone DNA polymerase V autoproteolytic subunit
COORDINATES: protein motif:HMM:NF014626.2
COORDINATES: similar to AA sequence:RefSeq:WP_011288030.1
helix-turn-helix transcriptional regulator
COORDINATES: protein motif:HMM:NF023168.2
COORDINATES: similar to AA sequence:RefSeq:WP_005931722.1
ParC family partition-associated protein
COORDINATES: similar to AA sequence:RefSeq:WP_011798552.1
COORDINATES: protein motif:HMM:NF018691.2
COORDINATES: similar to AA sequence:RefSeq:WP_076611949.1
GO:0015074 - DNA integration [Evidence IEA]
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_012218041.1
GO:0004803 - transposase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_007954095.1
iron-containing redox enzyme family protein
COORDINATES: similar to AA sequence:RefSeq:WP_012733506.1
COORDINATES: protein motif:HMM:TIGR03330.1
COORDINATES: similar to AA sequence:RefSeq:WP_006484329.1
COORDINATES: protein motif:HMM:NF012371.2
COORDINATES: similar to AA sequence:RefSeq:WP_076611369.1
incomplete; partial in the middle of a contig; missing N-terminus and C-terminus; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_076611347.1
frameshifted; internal stop; 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_010850118.1
COORDINATES: similar to AA sequence:RefSeq:WP_076611997.1
integrase core domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_010672467.1
COORDINATES: similar to AA sequence:RefSeq:WP_015884886.1
COORDINATES: protein motif:HMM:NF010109.0
bifunctional phosphoserine phosphatase/homoserine phosphotransferase ThrH
COORDINATES: protein motif:HMM:NF024846.2
FAD/NAD(P)-binding domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_002553438.1
GO:0016491 - oxidoreductase activity [Evidence IEA]
GO:0009058 - biosynthetic process [Evidence IEA]
frameshifted; internal stop; Derived by automated computational analysis using gene prediction method: Protein Homology.
2,3-diaminopropionate biosynthesis protein SbnB
COORDINATES: similar to AA sequence:RefSeq:WP_020563554.1
TnpB, as the term is used for proteins encoded by IS66 family insertion elements, is considered an accessory protein, since TnpC, encoded by a neighboring gene, is a DDE family transposase; Derived by automated computational analysis using gene prediction method: Protein Homology.
IS66 family insertion sequence element accessory protein TnpB
COORDINATES: similar to AA sequence:RefSeq:WP_011236060.1
COORDINATES: similar to AA sequence:RefSeq:WP_002717998.1
frameshifted; incomplete; partial in the middle of a contig; missing N-terminus and C-terminus; Derived by automated computational analysis using gene prediction method: Protein Homology.