Loigolactobacillus backii strain TMW 1.1989 plasmid pL11989-5, complete sequence.
Bacteria; Bacillota; Bacilli; Lactobacillales; Lactobacillaceae; Loigolactobacillus.
Pediococcus and Lactobacillus from brewery environment - whole genome sequencing and assembly
Submitted (18-MAR-2016) Technische Mikrobiologie, Technische Universitaet Muenchen, Gregor-Mendel-Strasse 4, Freising, Bavaria 85354, Germany
REFSEQ INFORMATION: The reference sequence is identical to\nCP014878.1.\nSource DNA or bacteria available from the culture collection of the\nTechnische Mikrobiologie Weihenstephan upon request and only if\npermitted by a potential cooperation partner. Individual decisions.\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/\nThis genome has a base modification file available.\n\n##Genome-Assembly-Data-START##\nAssembly Method :: Celera Assembler v. 1\nAssembly Name :: Lbackii11989-1\nLong Assembly Name :: Lactobacillus backii TMW 1.1989 1\nGenome Coverage :: 89\nSequencing Technology :: PacBio\n##Genome-Assembly-Data-END##\n\n##Genome-Annotation-Data-START##\nAnnotation Provider :: NCBI RefSeq\nAnnotation Date :: 02/05/2023 23:00:11\nAnnotation Pipeline :: NCBI Prokaryotic Genome\n Annotation Pipeline (PGAP)\nAnnotation Method :: Best-placed reference protein\n set; GeneMarkS-2+\nAnnotation Software revision :: 6.4\nFeatures Annotated :: Gene; CDS; rRNA; tRNA; ncRNA\nGenes (total) :: 2,668\nCDSs (total) :: 2,582\nGenes (coding) :: 2,526\nCDSs (with protein) :: 2,526\nGenes (RNA) :: 86\nrRNAs :: 5, 5, 5 (5S, 16S, 23S)\ncomplete rRNAs :: 5, 5, 5 (5S, 16S, 23S)\ntRNAs :: 67\nncRNAs :: 4\nPseudo Genes (total) :: 56\nCDSs (without protein) :: 56\nPseudo Genes (ambiguous residues) :: 0 of 56\nPseudo Genes (frameshifted) :: 13 of 56\nPseudo Genes (incomplete) :: 36 of 56\nPseudo Genes (internal stop) :: 16 of 56\nPseudo Genes (multiple problems) :: 9 of 56\n##Genome-Annotation-Data-END##\nCOMPLETENESS: full length.
COORDINATES: ab initio prediction:GeneMarkS-2+
GO:0009986 - cell surface [Evidence IEA]
Derived by automated computational analysis using gene prediction method: GeneMarkS-2+.
LPXTG cell wall anchor domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_010014573.1
GO:0003700 - DNA-binding transcription factor activity [Evidence IEA]
GO:0006355 - regulation of DNA-templated transcription [Evidence IEA]
Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_002827301.1
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_011674065.1
COORDINATES: similar to AA sequence:RefSeq:WP_011674067.1
COORDINATES: similar to AA sequence:RefSeq:WP_020090523.1
COORDINATES: similar to AA sequence:RefSeq:WP_004562667.1
COORDINATES: similar to AA sequence:RefSeq:WP_016511930.1
COORDINATES: similar to AA sequence:RefSeq:WP_014386872.1
frameshifted; 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_005693113.1
type II toxin-antitoxin system RelB/DinJ family antitoxin
COORDINATES: similar to AA sequence:RefSeq:WP_010620892.1
COORDINATES: similar to AA sequence:RefSeq:WP_007124583.1
GO:0005524 - ATP binding [Evidence IEA]; GO:0016301 - kinase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_003603789.1
COORDINATES: similar to AA sequence:RefSeq:WP_012552807.1
COORDINATES: similar to AA sequence:RefSeq:WP_016511122.1
COORDINATES: similar to AA sequence:RefSeq:WP_002825295.1
GO:0003677 - DNA binding [Evidence IEA]; GO:0003917 - DNA topoisomerase type I (single strand cut, ATP-independent) activity [Evidence IEA]
GO:0006265 - DNA topological change [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_015474742.1
COORDINATES: similar to AA sequence:RefSeq:WP_002346505.1
COORDINATES: protein motif:HMM:NF024935.2
COORDINATES: protein motif:HMM:NF028245.2
COORDINATES: similar to AA sequence:RefSeq:WP_003606688.1
GO:0006304 - DNA modification [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_003553103.1
GO:0015666 - restriction endodeoxyribonuclease activity [Evidence IEA]; GO:0009007 - site-specific DNA-methyltransferase (adenine-specific) activity [Evidence IEA]
GO:0006306 - DNA methylation [Evidence IEA]; GO:0009307 - DNA restriction-modification system [Evidence IEA]
type I restriction-modification system subunit M
COORDINATES: similar to AA sequence:RefSeq:WP_015639662.1
GO:0019812 - type I site-specific deoxyribonuclease complex [Evidence IEA]
GO:0009035 - type I site-specific deoxyribonuclease activity [Evidence IEA]
GO:0009307 - DNA restriction-modification system [Evidence IEA]
HsdR family type I site-specific deoxyribonuclease
COORDINATES: similar to AA sequence:RefSeq:WP_016526899.1
HU-CCDC81 and SPOR domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_016526900.1
COORDINATES: protein motif:HMM:TIGR03715.1
KxYKxGKxW signal peptide domain-containing protein