Pediococcus inopinatus strain DSM 20285 plasmid pLDW-13, complete sequence.
Bacteria; Bacillota; Bacilli; Lactobacillales; Lactobacillaceae; Pediococcus.
The whole genome sequencing and assembly of Pediococcus inopinatus DSM 20285T strain
Submitted (02-MAR-2017) Kyungpook National University, School of applied Biosciences, 80 Daehak-ro, bukgu, Daegu 41566, South Korea
REFSEQ INFORMATION: The reference sequence is identical to\nCP019983.1.\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/\nThis genome has a base modification file available.\n\n##Genome-Assembly-Data-START##\nAssembly Method :: SMRT analysis 2.3 v. HGAP protocol 2\nGenome Coverage :: 396.94\nSequencing Technology :: PacBio\n##Genome-Assembly-Data-END##\n\n##Genome-Annotation-Data-START##\nAnnotation Provider :: NCBI RefSeq\nAnnotation Date :: 04/28/2023 02:40:07\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) :: 2,331\nCDSs (total) :: 2,252\nGenes (coding) :: 2,198\nCDSs (with protein) :: 2,198\nGenes (RNA) :: 79\nrRNAs :: 4, 4, 4 (5S, 16S, 23S)\ncomplete rRNAs :: 4, 4, 4 (5S, 16S, 23S)\ntRNAs :: 63\nncRNAs :: 4\nPseudo Genes (total) :: 54\nCDSs (without protein) :: 54\nPseudo Genes (ambiguous residues) :: 0 of 54\nPseudo Genes (frameshifted) :: 21 of 54\nPseudo Genes (incomplete) :: 23 of 54\nPseudo Genes (internal stop) :: 14 of 54\nPseudo Genes (multiple problems) :: 4 of 54\nCRISPR Arrays :: 1\n##Genome-Annotation-Data-END##\nCOMPLETENESS: full length.
COORDINATES: ab initio prediction:GeneMarkS-2+
Derived by automated computational analysis using gene prediction method: GeneMarkS-2+.
COORDINATES: protein motif:HMM:NF023978.2
Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_014940595.1
GO:0016757 - glycosyltransferase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_014940594.1
GO:0005524 - ATP binding [Evidence IEA]; GO:0042626 - ATPase-coupled transmembrane transporter activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_014940593.1
acyl-phosphate glycerol 3-phosphate acyltransferase
COORDINATES: similar to AA sequence:RefSeq:WP_014386901.1
COORDINATES: protein motif:HMM:NF013702.2
lysophospholipid acyltransferase family protein
COORDINATES: similar to AA sequence:RefSeq:WP_053338758.1
GO:0004803 - transposase activity [Evidence IEA]
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_010625626.1
type II toxin-antitoxin system YafQ family toxin
COORDINATES: similar to AA sequence:RefSeq:WP_003625288.1
type II toxin-antitoxin system RelB/DinJ family antitoxin
COORDINATES: similar to AA sequence:RefSeq:WP_005917937.1
COORDINATES: similar to AA sequence:RefSeq:WP_010620841.1
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_011669010.1
COORDINATES: similar to AA sequence:RefSeq:WP_010277795.1
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_010010572.1
ATP-binding cassette domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_016511890.1
iron export ABC transporter permease subunit FetB
COORDINATES: similar to AA sequence:RefSeq:WP_003613902.1
COORDINATES: protein motif:HMM:NF014477.2
COORDINATES: protein motif:HMM:NF013161.2
COORDINATES: protein motif:HMM:NF025054.2
GO:0008080 - N-acetyltransferase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_032488692.1
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_013102127.1
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: protein motif:HMM:NF033516.0
COORDINATES: similar to AA sequence:RefSeq:WP_010002105.1
COORDINATES: similar to AA sequence:RefSeq:WP_010276791.1
GO:0030612 - arsenate reductase (thioredoxin) activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_002834562.1
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_003596745.1
COORDINATES: similar to AA sequence:RefSeq:WP_016497299.1
GO:0006825 - copper ion transport [Evidence IEA]; GO:0006355 - regulation of DNA-templated transcription [Evidence IEA]
CopY/TcrY family copper transport repressor
COORDINATES: similar to AA sequence:RefSeq:WP_003660027.1
GO:0005524 - ATP binding [Evidence IEA]; GO:0016887 - ATP hydrolysis activity [Evidence IEA]; GO:0019829 - ATPase-coupled monoatomic cation transmembrane transporter activity [Evidence IEA]; GO:0046872 - metal ion binding [Evidence IEA]; GO:0015662 - P-type ion transporter activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_014333962.1
GO:0022857 - transmembrane transporter activity [Evidence IEA]
GO:0055085 - transmembrane transport [Evidence IEA]
frameshifted; Derived by automated computational analysis using gene prediction method: Protein Homology.
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_002340715.1
COORDINATES: similar to AA sequence:RefSeq:WP_010620856.1
COORDINATES: similar to AA sequence:RefSeq:WP_014573569.1
COORDINATES: similar to AA sequence:RefSeq:WP_012491381.1
COORDINATES: protein motif:HMM:NF016121.2