Latilactobacillus sakei strain CBA3614 plasmid unnamed1, complete sequence.
Bacteria; Bacillota; Bacilli; Lactobacillales; Lactobacillaceae; Latilactobacillus.
Genomic analysis of Lactobacillus sakei CBA3614
Submitted (12-NOV-2019) Microbiology and Functionality Research Group, World Institute of Kimchi, 86, Kimchi-ro, Nam-gu, Gwangju, Gwangju 61755, South Korea
REFSEQ INFORMATION: The reference sequence is identical to\nCP046038.1.\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 Method :: RS HGAP Assembly v. 3.0\nGenome Representation :: Full\nExpected Final Version :: Yes\nGenome Coverage :: 541.08x\nSequencing Technology :: PacBio RSII\n##Genome-Assembly-Data-END##\n\n##Genome-Annotation-Data-START##\nAnnotation Provider :: NCBI RefSeq\nAnnotation Date :: 03/26/2023 04:02:13\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) :: 1,937\nGenes (coding) :: 1,917\nCDSs (with protein) :: 1,917\nGenes (RNA) :: 90\nrRNAs :: 7, 7, 7 (5S, 16S, 23S)\ncomplete rRNAs :: 7, 7, 7 (5S, 16S, 23S)\ntRNAs :: 66\nncRNAs :: 3\nPseudo Genes (total) :: 20\nCDSs (without protein) :: 20\nPseudo Genes (ambiguous residues) :: 0 of 20\nPseudo Genes (frameshifted) :: 10 of 20\nPseudo Genes (incomplete) :: 9 of 20\nPseudo Genes (internal stop) :: 3 of 20\nPseudo Genes (multiple problems) :: 2 of 20\n##Genome-Annotation-Data-END##\nCOMPLETENESS: full length.
COORDINATES: similar to AA sequence:RefSeq:WP_003639769.1
Derived by automated computational analysis using gene prediction method: Protein Homology.
DNA starvation/stationary phase protection protein
COORDINATES: similar to AA sequence:RefSeq:WP_015825836.1
COORDINATES: similar to AA sequence:RefSeq:WP_014975085.1
COORDINATES: similar to AA sequence:RefSeq:WP_003581839.1
TetR/AcrR family transcriptional regulator
COORDINATES: similar to AA sequence:RefSeq:WP_064305258.1
GO:0004803 - transposase activity [Evidence IEA]
IS6-like element IS1216 family transposase
COORDINATES: protein motif:HMM:NF013056.2
COORDINATES: similar to AA sequence:RefSeq:WP_004466482.1
COORDINATES: similar to AA sequence:RefSeq:WP_004561661.1
COORDINATES: similar to AA sequence:RefSeq:WP_013728060.1
GO:0008801 - beta-phosphoglucomutase activity [Evidence IEA]
GO:0046352 - disaccharide catabolic process [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_003554429.1
GO:0016787 - hydrolase activity [Evidence IEA]
GO:0008152 - metabolic process [Evidence IEA]
COORDINATES: protein motif:HMM:NF037202.2
COORDINATES: similar to AA sequence:RefSeq:WP_013102104.1
GO:0016810 - hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds [Evidence IEA]
GO:0005975 - carbohydrate metabolic process [Evidence IEA]
polysaccharide deacetylase family protein
COORDINATES: protein motif:HMM:NF013793.2
COORDINATES: similar to AA sequence:RefSeq:WP_013774678.1
COORDINATES: protein motif:HMM:NF018653.2
COORDINATES: similar to AA sequence:RefSeq:WP_005728424.1
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_003691009.1
frameshifted; internal stop; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_003649841.1
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_008212308.1
COORDINATES: similar to AA sequence:RefSeq:WP_003680239.1
COORDINATES: similar to AA sequence:RefSeq:WP_016370337.1
CagC family type IV secretion system protein
COORDINATES: similar to AA sequence:RefSeq:WP_014216295.1
COORDINATES: similar to AA sequence:RefSeq:WP_016381866.1
TrsD/TraD family conjugative transfer protein
COORDINATES: similar to AA sequence:RefSeq:WP_003680243.1
COORDINATES: similar to AA sequence:RefSeq:WP_016370339.1
COORDINATES: similar to AA sequence:RefSeq:WP_003680247.1
COORDINATES: similar to AA sequence:RefSeq:WP_012552815.1
COORDINATES: similar to AA sequence:RefSeq:WP_012552816.1
COORDINATES: similar to AA sequence:RefSeq:WP_003712734.1
COORDINATES: similar to AA sequence:RefSeq:WP_003712736.1
type IV secretory system conjugative DNA transfer family protein
COORDINATES: similar to AA sequence:RefSeq:WP_011222032.1
COORDINATES: similar to AA sequence:RefSeq:WP_012552820.1
COORDINATES: similar to AA sequence:RefSeq:WP_002825296.1
frameshifted; Derived by automated computational analysis using gene prediction method: Protein Homology.
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:NF028245.2
COORDINATES: similar to AA sequence:RefSeq:WP_016526722.1
COORDINATES: similar to AA sequence:RefSeq:WP_003672587.1
COORDINATES: similar to AA sequence:RefSeq:WP_011373852.1
internal stop; Derived by automated computational analysis using gene prediction method: Protein Homology.
IS30-like element ISLsa1 family transposase
COORDINATES: similar to AA sequence:RefSeq:WP_018363980.1
class Ib ribonucleoside-diphosphate reductase assembly flavoprotein NrdI
COORDINATES: similar to AA sequence:RefSeq:WP_017865351.1
GO:0005524 - ATP binding [Evidence IEA]; GO:0004748 - ribonucleoside-diphosphate reductase activity, thioredoxin disulfide as acceptor [Evidence IEA]
GO:0006260 - DNA replication [Evidence IEA]
class 1b ribonucleoside-diphosphate reductase subunit alpha
COORDINATES: similar to AA sequence:RefSeq:WP_003646149.1
GO:0009263 - deoxyribonucleotide biosynthetic process [Evidence IEA]
ribonucleotide-diphosphate reductase subunit beta
COORDINATES: similar to AA sequence:RefSeq:WP_003681260.1
GO:0005971 - ribonucleoside-diphosphate reductase complex [Evidence IEA]
GO:0030145 - manganese ion binding [Evidence IEA]; GO:0004748 - ribonucleoside-diphosphate reductase activity, thioredoxin disulfide as acceptor [Evidence IEA]
GO:0009265 - 2'-deoxyribonucleotide biosynthetic process [Evidence IEA]
class 1b ribonucleoside-diphosphate reductase subunit beta
COORDINATES: similar to AA sequence:RefSeq:WP_053338758.1
COORDINATES: ab initio prediction:GeneMarkS-2+
Derived by automated computational analysis using gene prediction method: GeneMarkS-2+.
COORDINATES: similar to AA sequence:RefSeq:WP_015474696.1
COORDINATES: similar to AA sequence:RefSeq:WP_004909440.1
COORDINATES: similar to AA sequence:RefSeq:WP_006844821.1
COORDINATES: similar to AA sequence:RefSeq:WP_006844822.1
GO:0004791 - thioredoxin-disulfide reductase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_005235674.1
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_006844823.1
COORDINATES: similar to AA sequence:RefSeq:WP_006844824.1
GO:0015036 - disulfide oxidoreductase activity [Evidence IEA]
COORDINATES: protein motif:HMM:NF012314.2
COORDINATES: similar to AA sequence:RefSeq:WP_014335296.1
GO:0003700 - DNA-binding transcription factor activity [Evidence IEA]
GO:0006355 - regulation of DNA-templated transcription [Evidence IEA]
metalloregulator ArsR/SmtB family transcription factor