Lacticaseibacillus manihotivorans strain LM010 plasmid unnamed1.
Bacteria; Bacillota; Bacilli; Lactobacillales; Lactobacillaceae; Lacticaseibacillus.
Genome sequencing of Lactobacillus manihotivorans
Submitted (09-OCT-2019) College of Health Science, Korea University, Anam-ro 145, Seoul 02841, South Korea
REFSEQ INFORMATION: The reference sequence is identical to\nCP045069.1.\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 Method :: PacBio SMRT Analysis v. v2.3\nGenome Representation :: Full\nExpected Final Version :: No\nGenome Coverage :: 241.12x\nSequencing Technology :: PacBio\n##Genome-Assembly-Data-END##\n\n##Genome-Annotation-Data-START##\nAnnotation Provider :: NCBI RefSeq\nAnnotation Date :: 10/24/2022 01:35:07\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;\n repeat_region\nGenes (total) :: 3,452\nCDSs (total) :: 3,373\nGenes (coding) :: 3,251\nCDSs (with protein) :: 3,251\nGenes (RNA) :: 79\nrRNAs :: 5, 5, 5 (5S, 16S, 23S)\ncomplete rRNAs :: 5, 5, 5 (5S, 16S, 23S)\ntRNAs :: 61\nncRNAs :: 3\nPseudo Genes (total) :: 122\nCDSs (without protein) :: 122\nPseudo Genes (ambiguous residues) :: 0 of 122\nPseudo Genes (frameshifted) :: 38 of 122\nPseudo Genes (incomplete) :: 74 of 122\nPseudo Genes (internal stop) :: 14 of 122\nPseudo Genes (multiple problems) :: 4 of 122\n##Genome-Annotation-Data-END##
COORDINATES: protein motif:HMM:NF025080.2
GO:0004803 - transposase activity [Evidence IEA]
Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_015764803.1
frameshifted; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_016526665.1
GO:0005247 - voltage-gated chloride channel activity [Evidence IEA]
GO:0006821 - chloride transport [Evidence IEA]; GO:0055085 - transmembrane transport [Evidence IEA]
ClC family H(+)/Cl(-) exchange transporter
COORDINATES: protein motif:HMM:NF028245.2
COORDINATES: ab initio prediction:GeneMarkS-2+
Derived by automated computational analysis using gene prediction method: GeneMarkS-2+.
COORDINATES: protein motif:HMM:NF033608.1
type I toxin-antitoxin system Fst family toxin
COORDINATES: similar to AA sequence:RefSeq:WP_017260901.1
type II toxin-antitoxin system PemK/MazF family toxin
COORDINATES: similar to AA sequence:RefSeq:WP_013245344.1
AbrB/MazE/SpoVT family DNA-binding domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_016622858.1
COORDINATES: similar to AA sequence:RefSeq:WP_012695418.1
internal stop; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_016526948.1
bifunctional lysylphosphatidylglycerol flippase/synthetase MprF
COORDINATES: similar to AA sequence:RefSeq:WP_053338758.1
incomplete; partial in the middle of a contig; missing C-terminus; Derived by automated computational analysis using gene prediction method: Protein Homology.
incomplete; partial in the middle of a contig; missing N-terminus and C-terminus; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_016384005.1
incomplete; partial in the middle of a contig; missing N-terminus; Derived by automated computational analysis using gene prediction method: Protein Homology.
IS30-like element ISLpl1 family transposase
COORDINATES: similar to AA sequence:RefSeq:WP_003600575.1
COORDINATES: similar to AA sequence:RefSeq:WP_011674571.1
COORDINATES: similar to AA sequence:RefSeq:WP_014940376.1
COORDINATES: similar to AA sequence:RefSeq:WP_004562534.1
HAMP domain-containing sensor histidine kinase
COORDINATES: protein motif:HMM:NF025063.2
GO:0015074 - DNA integration [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_016205480.1
COORDINATES: protein motif:HMM:NF024980.2
winged helix-turn-helix domain-containing protein
COORDINATES: protein motif:HMM:NF033545.0
COORDINATES: protein motif:HMM:NF033516.0
COORDINATES: similar to AA sequence:RefSeq:WP_003679899.1
DDE-type integrase/transposase/recombinase
COORDINATES: similar to AA sequence:RefSeq:WP_010012865.1
COORDINATES: protein motif:HMM:NF020291.2
primase C-terminal domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_012952134.1
COORDINATES: similar to AA sequence:RefSeq:WP_016526703.1
COORDINATES: similar to AA sequence:RefSeq:WP_003589707.1
helix-turn-helix transcriptional regulator
COORDINATES: similar to AA sequence:RefSeq:WP_003589709.1
type II toxin-antitoxin system RelE/ParE family toxin
COORDINATES: similar to AA sequence:RefSeq:WP_010623418.1
COORDINATES: similar to AA sequence:RefSeq:WP_010490996.1
programmed frameshift; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: protein motif:HMM:NF015431.2
LysR substrate-binding domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_016364263.1
COORDINATES: similar to AA sequence:RefSeq:WP_010078039.1
GO:0036211 - protein modification process [Evidence IEA]
class Ib ribonucleoside-diphosphate reductase assembly flavoprotein NrdI
COORDINATES: similar to AA sequence:RefSeq:WP_003646150.1
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: protein motif:HMM:NF012490.2
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_003660036.1
COORDINATES: protein motif:HMM:NF040237.1
KxYKxGKxW signal peptide domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_010011731.1
COORDINATES: protein motif:HMM:NF013677.2
helix-turn-helix domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_016527424.1
GO:0008236 - serine-type peptidase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_016387464.1
COORDINATES: similar to AA sequence:RefSeq:WP_013356282.1