Limosilactobacillus mucosae strain LM011 plasmid unnamed1.
Bacteria; Bacillota; Bacilli; Lactobacillales; Lactobacillaceae; Limosilactobacillus.
Genome sequencing of Lactobacillus mucosae KCTC 21011
Submitted (06-OCT-2020) College of Health Science, Korea University, Anam-ro 145, Seoul 02841, South Korea
REFSEQ INFORMATION: The reference sequence is identical to\nCP062965.1.\nAssembly not circularized.\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 :: 27-SEP-2019\nAssembly Method :: PacBio SMRT Analysis v. v2.3\nGenome Representation :: Full\nExpected Final Version :: No\nGenome Coverage :: 331.09x\nSequencing Technology :: PacBio RSII\n##Genome-Assembly-Data-END##\n\n##Genome-Annotation-Data-START##\nAnnotation Provider :: NCBI RefSeq\nAnnotation Date :: 03/17/2023 03:13:52\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) :: 2,027\nCDSs (total) :: 1,922\nGenes (coding) :: 1,896\nCDSs (with protein) :: 1,896\nGenes (RNA) :: 105\nrRNAs :: 5, 6, 5 (5S, 16S, 23S)\ncomplete rRNAs :: 5, 6, 5 (5S, 16S, 23S)\ntRNAs :: 86\nncRNAs :: 3\nPseudo Genes (total) :: 26\nCDSs (without protein) :: 26\nPseudo Genes (ambiguous residues) :: 0 of 26\nPseudo Genes (frameshifted) :: 5 of 26\nPseudo Genes (incomplete) :: 14 of 26\nPseudo Genes (internal stop) :: 10 of 26\nPseudo Genes (multiple problems) :: 3 of 26\nCRISPR Arrays :: 1\n##Genome-Annotation-Data-END##
COORDINATES: ab initio prediction:GeneMarkS-2+
Derived by automated computational analysis using gene prediction method: GeneMarkS-2+.
type II toxin-antitoxin system Phd/YefM family antitoxin
COORDINATES: similar to AA sequence:RefSeq:WP_014262386.1
Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: nucleotide motif:Rfam:14.4:RF01051
cyclic di-GMP riboswitch class I; Derived by automated computational analysis using gene prediction method: cmsearch.
COORDINATES: protein motif:HMM:NF028039.2
COORDINATES: similar to AA sequence:RefSeq:WP_014562319.1
COORDINATES: protein motif:HMM:NF037692.2
The YSIRK form of extended signal peptide directs nascent proteins to the cross-wall site, while signal peptides lacking YSIRK direct proteins instead to the cell pole. A large fraction of YSIRK proteins are surface proteins anchored by sortase-mediated processing of a C-terminal LPXTG motif; Derived by automated computational analysis using gene prediction method: Protein Homology.
YSIRK-type signal peptide-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_012390620.1
COORDINATES: similar to AA sequence:RefSeq:WP_006501155.1
GO:0004853 - uroporphyrinogen decarboxylase activity [Evidence IEA]
GO:0006779 - porphyrin-containing compound biosynthetic process [Evidence IEA]
uroporphyrinogen decarboxylase family protein
COORDINATES: similar to AA sequence:RefSeq:WP_003665093.1
helix-turn-helix domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_003668604.1
GO:0004803 - transposase activity [Evidence IEA]
COORDINATES: protein motif:HMM:NF036624.2
COORDINATES: similar to AA sequence:RefSeq:WP_019253571.1
COORDINATES: protein motif:HMM:NF018653.2
sigma-70 family RNA polymerase sigma factor
COORDINATES: similar to AA sequence:RefSeq:WP_003714657.1
COORDINATES: similar to AA sequence:RefSeq:WP_006501132.1
COORDINATES: similar to AA sequence:RefSeq:WP_003369793.1
COORDINATES: similar to AA sequence:RefSeq:WP_006501130.1
COORDINATES: similar to AA sequence:RefSeq:WP_003716750.1
COORDINATES: protein motif:HMM:NF023604.2
lipocalin/fatty acid-binding family protein
COORDINATES: similar to AA sequence:RefSeq:WP_015638854.1
COORDINATES: protein motif:HMM:NF022597.2
COORDINATES: protein motif:HMM:NF021593.2
COORDINATES: protein motif:HMM:NF012579.2
GO:0006355 - regulation of DNA-templated transcription [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_002820858.1
COORDINATES: similar to AA sequence:RefSeq:WP_003642903.1
COORDINATES: similar to AA sequence:RefSeq:WP_006916117.1
GO:0009401 - phosphoenolpyruvate-dependent sugar phosphotransferase system [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_006916116.1
GO:0004802 - transketolase activity [Evidence IEA]
GO:0006098 - pentose-phosphate shunt [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_003716150.1
GO:0008965 - phosphoenolpyruvate-protein phosphotransferase activity [Evidence IEA]
GO:0009401 - phosphoenolpyruvate-dependent sugar phosphotransferase system [Evidence IEA]; GO:0006808 - regulation of nitrogen utilization [Evidence IEA]
phosphoenolpyruvate--protein phosphotransferase
COORDINATES: similar to AA sequence:RefSeq:WP_014565391.1
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_003711813.1
Crp/Fnr family transcriptional regulator
COORDINATES: similar to AA sequence:RefSeq:WP_007123171.1
COORDINATES: similar to AA sequence:RefSeq:WP_003681289.1
GO:0015663 - nicotinamide mononucleotide transmembrane transporter activity [Evidence IEA]
GO:0015890 - nicotinamide mononucleotide transport [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_003711814.1
GO:0000287 - magnesium ion binding [Evidence IEA]; GO:0008973 - phosphopentomutase activity [Evidence IEA]
GO:0043094 - cellular metabolic compound salvage [Evidence IEA]; GO:0009117 - nucleotide metabolic process [Evidence IEA]
COORDINATES: protein motif:HMM:NF037745.2
COORDINATES: protein motif:HMM:NF037736.2
COORDINATES: similar to AA sequence:RefSeq:WP_003618281.1
helix-turn-helix transcriptional regulator
COORDINATES: similar to AA sequence:RefSeq:WP_003618278.1
GO:0003886 - DNA (cytosine-5-)-methyltransferase activity [Evidence IEA]
GO:0006304 - DNA modification [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_003618275.1
COORDINATES: protein motif:HMM:NF019348.2
GO:0005524 - ATP binding [Evidence IEA]; GO:0016887 - ATP hydrolysis activity [Evidence IEA]
COORDINATES: protein motif:HMM:NF021104.2
COORDINATES: similar to AA sequence:RefSeq:WP_013646110.1
COORDINATES: similar to AA sequence:RefSeq:WP_003615941.1
COORDINATES: similar to AA sequence:RefSeq:WP_003615940.1
COORDINATES: similar to AA sequence:RefSeq:WP_003615939.1
COORDINATES: similar to AA sequence:RefSeq:WP_009557712.1
COORDINATES: similar to AA sequence:RefSeq:WP_003615935.1
COORDINATES: similar to AA sequence:RefSeq:WP_003615934.1
COORDINATES: similar to AA sequence:RefSeq:WP_016057351.1
GO:0003796 - lysozyme activity [Evidence IEA]
GO:0016998 - cell wall macromolecule catabolic process [Evidence IEA]; GO:0009253 - peptidoglycan catabolic process [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_019262128.1
COORDINATES: protein motif:HMM:NF016152.2
COORDINATES: similar to AA sequence:RefSeq:WP_005917937.1