Lactobacillus amylovorus GRL1118 plasmid p2, complete sequence.
Bacteria; Bacillota; Bacilli; Lactobacillales; Lactobacillaceae; Lactobacillus.
Submitted (25-MAR-2011) Department of Veterinary Biosciences, Faculty of Veterinary Medicine, University of Helsinki, Finland
REFSEQ INFORMATION: The reference sequence is identical to\nCP002611.1.\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 :: 04/09/2023 01:16:33\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) :: 2,015\nCDSs (total) :: 1,938\nGenes (coding) :: 1,834\nCDSs (with protein) :: 1,834\nGenes (RNA) :: 77\nrRNAs :: 4, 4, 4 (5S, 16S, 23S)\ncomplete rRNAs :: 4, 4, 4 (5S, 16S, 23S)\ntRNAs :: 62\nncRNAs :: 3\nPseudo Genes (total) :: 104\nCDSs (without protein) :: 104\nPseudo Genes (ambiguous residues) :: 0 of 104\nPseudo Genes (frameshifted) :: 56 of 104\nPseudo Genes (incomplete) :: 47 of 104\nPseudo Genes (internal stop) :: 32 of 104\nPseudo Genes (multiple problems) :: 27 of 104\nCRISPR Arrays :: 3\n##Genome-Annotation-Data-END##\nCOMPLETENESS: full length.
COORDINATES: similar to AA sequence:RefSeq:WP_013641394.1
GO:0004803 - transposase activity [Evidence IEA]
Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: protein motif:HMM:NF015193.2
COORDINATES: ab initio prediction:GeneMarkS-2+
Derived by automated computational analysis using gene prediction method: GeneMarkS-2+.
COORDINATES: similar to AA sequence:RefSeq:WP_024273026.1
frameshifted; internal stop; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: protein motif:HMM:NF014442.2
GO:0003677 - DNA binding [Evidence IEA]; GO:0008170 - N-methyltransferase activity [Evidence IEA]
GO:0006306 - DNA methylation [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_007124197.1
GO:0008168 - methyltransferase activity [Evidence IEA]; GO:1904047 - S-adenosyl-L-methionine binding [Evidence IEA]
class I SAM-dependent DNA methyltransferase
COORDINATES: similar to AA sequence:RefSeq:WP_007124198.1
GO:0006304 - DNA modification [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_003705239.1
GO:0005524 - ATP binding [Evidence IEA]; GO:0003677 - DNA binding [Evidence IEA]; GO:0016787 - hydrolase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_005727352.1
COORDINATES: similar to AA sequence:RefSeq:WP_009559312.1
COORDINATES: protein motif:HMM:NF024991.2
COORDINATES: similar to AA sequence:RefSeq:WP_013851171.1
GO:0003887 - DNA-directed DNA polymerase activity [Evidence IEA]
GO:0006270 - DNA replication initiation [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_003664144.1
GO:0003677 - DNA binding [Evidence IEA]; GO:0004803 - transposase activity [Evidence IEA]
GO:0006313 - transposition, DNA-mediated [Evidence IEA]
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.
COORDINATES: similar to AA sequence:RefSeq:WP_013437562.1
GO:0003677 - DNA binding [Evidence IEA]; GO:0004519 - endonuclease activity [Evidence IEA]
GO:0009307 - DNA restriction-modification system [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_004894523.1
COORDINATES: similar to AA sequence:RefSeq:WP_012846185.1
COORDINATES: similar to AA sequence:RefSeq:WP_014566297.1
SDR family NAD(P)-dependent oxidoreductase
COORDINATES: similar to AA sequence:RefSeq:WP_014918768.1
COORDINATES: protein motif:HMM:NF013752.2
COORDINATES: similar to AA sequence:RefSeq:WP_013682683.1
GO:0005524 - ATP binding [Evidence IEA]; GO:0042626 - ATPase-coupled transmembrane transporter activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_013682684.1
COORDINATES: protein motif:HMM:NF033516.0
COORDINATES: similar to AA sequence:RefSeq:WP_014918770.1
GO:0003700 - DNA-binding transcription factor activity [Evidence IEA]
GO:0006355 - regulation of DNA-templated transcription [Evidence IEA]
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_013682691.1
COORDINATES: similar to AA sequence:RefSeq:WP_076611101.1
COORDINATES: similar to AA sequence:RefSeq:WP_013641486.1
COORDINATES: similar to AA sequence:RefSeq:WP_013855360.1
GO:0003677 - DNA binding [Evidence IEA]; GO:0000150 - DNA strand exchange activity [Evidence IEA]
GO:0006310 - DNA recombination [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_003628508.1
frameshifted; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_014563656.1
internal stop; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_014566319.1
GO:0046872 - metal ion binding [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_014563653.1
COORDINATES: similar to AA sequence:RefSeq:WP_003648887.1
COORDINATES: similar to AA sequence:RefSeq:WP_014563650.1
GO:0047429 - nucleoside triphosphate diphosphatase activity [Evidence IEA]
GO:0009143 - nucleoside triphosphate catabolic process [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_014918829.1
COORDINATES: protein motif:HMM:NF014573.2
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_013641870.1
COORDINATES: similar to AA sequence:RefSeq:WP_076612049.1
COORDINATES: similar to AA sequence:RefSeq:WP_013642473.1
tetracycline resistance ribosomal protection protein Tet(W)
COORDINATES: similar to AA sequence:RefSeq:WP_016497258.1
GO:0015074 - DNA integration [Evidence IEA]; GO:0006310 - DNA recombination [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_014563132.1
COORDINATES: similar to AA sequence:RefSeq:WP_004898340.1
COORDINATES: similar to AA sequence:RefSeq:WP_016497299.1
GO:0006825 - copper ion transport [Evidence IEA]; GO:0006355 - regulation of DNA-templated transcription [Evidence IEA]
CopY/TcrY family copper transport repressor
COORDINATES: similar to AA sequence:RefSeq:WP_004898344.1
GO:0005524 - ATP binding [Evidence IEA]; GO:0016887 - ATP hydrolysis activity [Evidence IEA]; GO:0019829 - ATPase-coupled monoatomic cation transmembrane transporter activity [Evidence IEA]; GO:0046872 - metal ion binding [Evidence IEA]; GO:0015662 - P-type ion transporter activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_003705836.1
COORDINATES: similar to AA sequence:RefSeq:WP_000531735.1
CadD family cadmium resistance transporter
COORDINATES: similar to AA sequence:RefSeq:WP_076612173.1
COORDINATES: similar to AA sequence:RefSeq:WP_008472481.1
COORDINATES: similar to AA sequence:RefSeq:WP_014566338.1
GO:0003677 - DNA binding [Evidence IEA]; GO:0004521 - endoribonuclease activity [Evidence IEA]; GO:0003723 - RNA binding [Evidence IEA]
type II toxin-antitoxin system PemK/MazF family toxin
COORDINATES: similar to AA sequence:RefSeq:WP_076611811.1
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: protein motif:HMM:NF025063.2
GO:0015074 - DNA integration [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_002963380.1
COORDINATES: similar to AA sequence:RefSeq:WP_013923925.1
frameshifted; incomplete; partial in the middle of a contig; missing N-terminus; Derived by automated computational analysis using gene prediction method: Protein Homology.
integrase core domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_014563300.1
COORDINATES: similar to AA sequence:RefSeq:WP_016395893.1
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_008472332.1
COORDINATES: similar to AA sequence:RefSeq:WP_003702948.1