Lactobacillus ultunensis strain Kx293C1 plasmid unnamed.
Bacteria; Bacillota; Bacilli; Lactobacillales; Lactobacillaceae; Lactobacillus.
Genome Announcement of Lactobacillus ultunensis Kx293C1
Submitted (30-JUL-2020) Food, Bioprocessing and Nutrition Sciences, North Carolina State University, 400 Dan Allen Drive, Raleigh, NC 27695, USA
REFSEQ INFORMATION: The reference sequence is identical to\nCP059830.1.\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 :: 2019\nAssembly Method :: Unicycler v. 0.4.4\nGenome Representation :: Full\nExpected Final Version :: Yes\nGenome Coverage :: 400.0x\nSequencing Technology :: Illumina MiSeq; Oxford Nanopore\n##Genome-Assembly-Data-END##\n\n##Genome-Annotation-Data-START##\nAnnotation Provider :: NCBI RefSeq\nAnnotation Date :: 12/15/2022 02:22:26\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\nGenes (total) :: 2,213\nCDSs (total) :: 2,134\nGenes (coding) :: 2,068\nCDSs (with protein) :: 2,068\nGenes (RNA) :: 79\nrRNAs :: 4, 4, 4 (5S, 16S, 23S)\ncomplete rRNAs :: 4, 4, 4 (5S, 16S, 23S)\ntRNAs :: 64\nncRNAs :: 3\nPseudo Genes (total) :: 66\nCDSs (without protein) :: 66\nPseudo Genes (ambiguous residues) :: 0 of 66\nPseudo Genes (frameshifted) :: 43 of 66\nPseudo Genes (incomplete) :: 15 of 66\nPseudo Genes (internal stop) :: 23 of 66\nPseudo Genes (multiple problems) :: 12 of 66\n##Genome-Annotation-Data-END##
COORDINATES: similar to AA sequence:RefSeq:WP_006585532.1
Derived by automated computational analysis using gene prediction method: Protein Homology.
type II toxin-antitoxin system HicB family antitoxin
COORDINATES: similar to AA sequence:RefSeq:WP_006807847.1
type II toxin-antitoxin system HicA family toxin
COORDINATES: ab initio prediction:GeneMarkS-2+
Derived by automated computational analysis using gene prediction method: GeneMarkS-2+.
COORDINATES: nucleotide motif:Rfam:14.4:RF00230
T-box leader; Derived by automated computational analysis using gene prediction method: cmsearch.
COORDINATES: similar to AA sequence:RefSeq:WP_003650014.1
oligopeptide ABC transporter substrate-binding protein
COORDINATES: similar to AA sequence:RefSeq:WP_014566916.1
COORDINATES: similar to AA sequence:RefSeq:WP_014918400.1
COORDINATES: protein motif:HMM:NF024743.2
DUF4097 family beta strand repeat-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_013854075.1
COORDINATES: similar to AA sequence:RefSeq:WP_013437844.1
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: protein motif:HMM:NF013579.2
GO:0006304 - DNA modification [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_006587793.1
COORDINATES: similar to AA sequence:RefSeq:WP_001668840.1
COORDINATES: similar to AA sequence:RefSeq:WP_013437840.1
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_012211878.1
COORDINATES: similar to AA sequence:RefSeq:WP_013641855.1
GO:0008233 - peptidase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_007125619.1
fibronectin type III domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_013641853.1
COORDINATES: similar to AA sequence:RefSeq:WP_003649491.1
COORDINATES: similar to AA sequence:RefSeq:WP_003547215.1
GO:0004564 - beta-fructofuranosidase activity [Evidence IEA]
GO:0005975 - carbohydrate metabolic process [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_002817588.1
GO:0008982 - protein-N(PI)-phosphohistidine-sugar phosphotransferase activity [Evidence IEA]
GO:0009401 - phosphoenolpyruvate-dependent sugar phosphotransferase system [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_013854086.1
COORDINATES: protein motif:HMM:NF024744.2
COORDINATES: protein motif:HMM:TIGR00410.1
COORDINATES: protein motif:HMM:NF013539.2
MurR/RpiR family transcriptional regulator
COORDINATES: similar to AA sequence:RefSeq:WP_014565824.1
COORDINATES: similar to AA sequence:RefSeq:WP_013086369.1
COORDINATES: similar to AA sequence:RefSeq:WP_014565822.1
COORDINATES: similar to AA sequence:RefSeq:WP_012846185.1
COORDINATES: similar to AA sequence:RefSeq:WP_013437829.1
COORDINATES: similar to AA sequence:RefSeq:WP_007125603.1
GO:0022857 - transmembrane transporter activity [Evidence IEA]
GO:0055085 - transmembrane transport [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_014565820.1
COORDINATES: similar to AA sequence:RefSeq:WP_014565819.1
GO:0047150 - betaine-homocysteine S-methyltransferase activity [Evidence IEA]
GO:0009086 - methionine biosynthetic process [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_007125600.1
COORDINATES: similar to AA sequence:RefSeq:WP_014565808.1
1-acyl-sn-glycerol-3-phosphate acyltransferase
COORDINATES: similar to AA sequence:RefSeq:WP_013437824.1
COORDINATES: similar to AA sequence:RefSeq:WP_014565806.1
type IV secretory system conjugative DNA transfer family protein
COORDINATES: similar to AA sequence:RefSeq:WP_013437820.1
COORDINATES: similar to AA sequence:RefSeq:WP_007125594.1
GO:0016740 - transferase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_011254315.1
GO:0008788 - alpha,alpha-phosphotrehalase activity [Evidence IEA]
GO:0005991 - trehalose metabolic process [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_005727745.1
GO:0003677 - DNA binding [Evidence IEA]; GO:0003700 - DNA-binding transcription factor activity [Evidence IEA]
GO:0006355 - regulation of DNA-templated transcription [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_003547194.1
COORDINATES: similar to AA sequence:RefSeq:WP_003669358.1
zinc-dependent alcohol dehydrogenase family protein
COORDINATES: similar to AA sequence:RefSeq:WP_006525873.1
GO:0030170 - pyridoxal phosphate binding [Evidence IEA]
GO:0009058 - biosynthetic process [Evidence IEA]
aminotransferase class I/II-fold pyridoxal phosphate-dependent enzyme
COORDINATES: similar to AA sequence:RefSeq:WP_013854107.1
COORDINATES: similar to AA sequence:RefSeq:WP_013641842.1
COORDINATES: similar to AA sequence:RefSeq:WP_009559366.1
frameshifted; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_005726727.1
COORDINATES: similar to AA sequence:RefSeq:WP_012211848.1
COORDINATES: similar to AA sequence:RefSeq:WP_013437814.1
GO:0008478 - pyridoxal kinase activity [Evidence IEA]
GO:0009443 - pyridoxal 5'-phosphate salvage [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_003628471.1
COORDINATES: similar to AA sequence:RefSeq:WP_005719579.1
COORDINATES: similar to AA sequence:RefSeq:WP_005722313.1