Paucilactobacillus oligofermentans DSM 15707 = LMG 22743 isolate LACOL plasmid II, complete sequence.
Paucilactobacillus oligofermentans DSM 15707 = LMG 22743
Bacteria; Bacillota; Bacilli; Lactobacillales; Lactobacillaceae; Paucilactobacillus.
Submitted (14-OCT-2015) UNIVERSITY OF HELSINKI, DNA sequencing and Genomics, Viikinkaari 9, 00014, Helsinki, Institute of Biotechnology, Finland
REFSEQ INFORMATION: The reference sequence is identical to\nLN898145.1.\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 :: 04/28/2023 02:08:08\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) :: 1,851\nCDSs (total) :: 1,779\nGenes (coding) :: 1,756\nCDSs (with protein) :: 1,756\nGenes (RNA) :: 72\nrRNAs :: 5, 5, 5 (5S, 16S, 23S)\ncomplete rRNAs :: 5, 5, 5 (5S, 16S, 23S)\ntRNAs :: 54\nncRNAs :: 3\nPseudo Genes (total) :: 23\nCDSs (without protein) :: 23\nPseudo Genes (ambiguous residues) :: 0 of 23\nPseudo Genes (frameshifted) :: 13 of 23\nPseudo Genes (incomplete) :: 11 of 23\nPseudo Genes (internal stop) :: 4 of 23\nPseudo Genes (multiple problems) :: 4 of 23\nCRISPR Arrays :: 1\n##Genome-Annotation-Data-END##\nCOMPLETENESS: full length.
COORDINATES: ab initio prediction:GeneMarkS-2+
GO:0004803 - transposase activity [Evidence IEA]
Derived by automated computational analysis using gene prediction method: GeneMarkS-2+.
COORDINATES: similar to AA sequence:RefSeq:WP_011669001.1
Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_011669002.1
COORDINATES: similar to AA sequence:RefSeq:WP_010014842.1
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_005693113.1
GO:0006355 - regulation of DNA-templated transcription [Evidence IEA]
type II toxin-antitoxin system RelB/DinJ family antitoxin
COORDINATES: similar to AA sequence:RefSeq:WP_002823700.1
COORDINATES: similar to AA sequence:RefSeq:WP_003603789.1
COORDINATES: similar to AA sequence:RefSeq:WP_013729135.1
COORDINATES: similar to AA sequence:RefSeq:WP_015083018.1
COORDINATES: similar to AA sequence:RefSeq:WP_005917937.1
COORDINATES: similar to AA sequence:RefSeq:WP_003586674.1
type II toxin-antitoxin system prevent-host-death family antitoxin
COORDINATES: similar to AA sequence:RefSeq:WP_002834562.1
type II toxin-antitoxin system YafQ family toxin
COORDINATES: similar to AA sequence:RefSeq:WP_018779230.1
adenine-specific methyltransferase EcoRI family protein
COORDINATES: similar to AA sequence:RefSeq:WP_002338252.1
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_003625288.1
COORDINATES: similar to AA sequence:RefSeq:WP_010625626.1
COORDINATES: protein motif:HMM:NF024252.2
helix-turn-helix transcriptional regulator
COORDINATES: similar to AA sequence:RefSeq:WP_016511575.1
COORDINATES: similar to AA sequence:RefSeq:WP_016526818.1
GO:0003887 - DNA-directed DNA polymerase activity [Evidence IEA]
GO:0006270 - DNA replication initiation [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_010620841.1
COORDINATES: similar to AA sequence:RefSeq:WP_005687891.1
COORDINATES: similar to AA sequence:RefSeq:WP_005687893.1
COORDINATES: similar to AA sequence:RefSeq:WP_003568271.1
GO:0005524 - ATP binding [Evidence IEA]; GO:0016887 - ATP hydrolysis activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_003596745.1
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_004225105.1
ClbS/DfsB family four-helix bundle protein
COORDINATES: similar to AA sequence:RefSeq:WP_004909423.1
GO:0003677 - DNA binding [Evidence IEA]; GO:0000150 - DNA strand exchange activity [Evidence IEA]
GO:0006310 - DNA recombination [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_014294397.1
GO:0140359 - ABC-type transporter activity [Evidence IEA]; GO:0005524 - ATP binding [Evidence IEA]; GO:0016887 - ATP hydrolysis activity [Evidence IEA]; GO:0042626 - ATPase-coupled transmembrane transporter activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_003608391.1
GO:0140359 - ABC-type transporter activity [Evidence IEA]; GO:0042626 - ATPase-coupled transmembrane transporter activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_086558186.1
programmed frameshift; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_003376484.1
COORDINATES: similar to AA sequence:RefSeq:WP_003603853.1
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_053338758.1
frameshifted; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_013727994.1
COORDINATES: similar to AA sequence:RefSeq:WP_003631123.1
COORDINATES: similar to AA sequence:RefSeq:WP_013439000.1
GlsB/YeaQ/YmgE family stress response membrane protein
COORDINATES: similar to AA sequence:RefSeq:WP_016371047.1
Asp23/Gls24 family envelope stress response protein
COORDINATES: similar to AA sequence:RefSeq:WP_003681705.1
COORDINATES: similar to AA sequence:RefSeq:WP_010493334.1
alkaline shock response membrane anchor protein AmaP
COORDINATES: protein motif:HMM:NF040212.1
COORDINATES: similar to AA sequence:RefSeq:WP_012391059.1
KxYKxGKxW signal peptide domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_010014573.1
GO:0003700 - DNA-binding transcription factor activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_015474630.1
COORDINATES: similar to AA sequence:RefSeq:WP_002341371.1
COORDINATES: similar to AA sequence:RefSeq:WP_076612207.1
COORDINATES: similar to AA sequence:RefSeq:WP_015638790.1
GO:0003677 - DNA binding [Evidence IEA]; GO:0004803 - transposase activity [Evidence IEA]
GO:0006313 - transposition, DNA-mediated [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_003680947.1