Paenibacillus crassostreae strain LPB0068 plasmid pPC03, complete sequence.
Bacteria; Bacillota; Bacilli; Bacillales; Paenibacillaceae; Paenibacillus.
Paenibacillus sp. LPB0068 isolated from Crassostrea gigas
Submitted (21-OCT-2016) Public Health Sciences, Korea University, 145 Anam-ro, Seongbuk-gu, Seoul 02841, South Korea
REFSEQ INFORMATION: The reference sequence is identical to\nCP017773.1.\nBacteria and source DNA available from Korean Agricultural Culture\nCollection.\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. 2.3.0\nGenome Representation :: Full\nExpected Final Version :: Yes\nGenome Coverage :: 277.86x\nSequencing Technology :: PacBio\n##Genome-Assembly-Data-END##\n\n##Genome-Annotation-Data-START##\nAnnotation Provider :: NCBI RefSeq\nAnnotation Date :: 02/06/2023 02:20:55\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) :: 4,507\nCDSs (total) :: 4,383\nGenes (coding) :: 4,308\nCDSs (with protein) :: 4,308\nGenes (RNA) :: 124\nrRNAs :: 10, 10, 10 (5S, 16S, 23S)\ncomplete rRNAs :: 10, 10, 10 (5S, 16S, 23S)\ntRNAs :: 90\nncRNAs :: 4\nPseudo Genes (total) :: 75\nCDSs (without protein) :: 75\nPseudo Genes (ambiguous residues) :: 0 of 75\nPseudo Genes (frameshifted) :: 29 of 75\nPseudo Genes (incomplete) :: 51 of 75\nPseudo Genes (internal stop) :: 15 of 75\nPseudo Genes (multiple problems) :: 17 of 75\nCRISPR Arrays :: 2\n##Genome-Annotation-Data-END##\nCOMPLETENESS: full length.
type strain of Paenibacillus crassostreae
COORDINATES: similar to AA sequence:RefSeq:WP_000495110.1
Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: ab initio prediction:GeneMarkS-2+
Derived by automated computational analysis using gene prediction method: GeneMarkS-2+.
COORDINATES: protein motif:HMM:NF040179.1
COORDINATES: protein motif:HMM:NF013954.2
glucosaminidase domain-containing protein
COORDINATES: protein motif:HMM:NF013700.2
COORDINATES: similar to AA sequence:RefSeq:WP_006211790.1
COORDINATES: similar to AA sequence:RefSeq:WP_006211791.1
COORDINATES: protein motif:HMM:NF037077.2
AbrB/MazE/SpoVT family DNA-binding domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_076611172.1
GO:0004803 - transposase activity [Evidence IEA]
programmed frameshift; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_006211846.1
COORDINATES: similar to AA sequence:RefSeq:WP_006211845.1
COORDINATES: similar to AA sequence:RefSeq:WP_006211844.1
COORDINATES: similar to AA sequence:RefSeq:WP_008881727.1
type IV secretory system conjugative DNA transfer family protein
COORDINATES: similar to AA sequence:RefSeq:WP_016090159.1
GO:0003677 - DNA binding [Evidence IEA]; GO:0003916 - DNA topoisomerase activity [Evidence IEA]
GO:0006265 - DNA topological change [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_006211841.1
COORDINATES: protein motif:HMM:NF019997.2
ArdC-like ssDNA-binding domain-containing protein
COORDINATES: protein motif:HMM:NF024734.2
type IV toxin-antitoxin system AbiEi family antitoxin domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_017756034.1
nucleotidyl transferase AbiEii/AbiGii toxin family protein
COORDINATES: similar to AA sequence:RefSeq:WP_009226493.1
COORDINATES: protein motif:HMM:NF020438.2
COORDINATES: similar to AA sequence:RefSeq:WP_006691858.1
COORDINATES: similar to AA sequence:RefSeq:WP_018378706.1
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: protein motif:HMM:NF013579.2
GO:0006304 - DNA modification [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_000616895.1
type I restriction endonuclease subunit R
COORDINATES: similar to AA sequence:RefSeq:WP_017691499.1
helix-turn-helix transcriptional regulator
COORDINATES: protein motif:HMM:NF017757.2
type II toxin-antitoxin system RelE/ParE family toxin
COORDINATES: protein motif:HMM:NF027488.2
COORDINATES: similar to AA sequence:RefSeq:WP_006317329.1
COORDINATES: similar to AA sequence:RefSeq:WP_002162230.1
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_012291670.1
COORDINATES: similar to AA sequence:RefSeq:WP_007721380.1
COORDINATES: similar to AA sequence:RefSeq:WP_019424360.1
COORDINATES: protein motif:HMM:NF014442.2
GO:0003677 - DNA binding [Evidence IEA]; GO:0008170 - N-methyltransferase activity [Evidence IEA]
GO:0006306 - DNA methylation [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_018671939.1
COORDINATES: similar to AA sequence:RefSeq:WP_014281351.1
COORDINATES: similar to AA sequence:RefSeq:WP_006212426.1
COORDINATES: similar to AA sequence:RefSeq:WP_018391951.1
COORDINATES: protein motif:HMM:NF012415.2
COORDINATES: protein motif:HMM:NF013555.2
topoisomerase DNA-binding C4 zinc finger domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_000124066.1
COORDINATES: similar to AA sequence:RefSeq:WP_010349915.1
zincin-like metallopeptidase domain-containing protein
COORDINATES: protein motif:HMM:NF020945.2
GO:0043937 - regulation of sporulation [Evidence IEA]
Spo0E family sporulation regulatory protein-aspartic acid phosphatase
COORDINATES: similar to AA sequence:RefSeq:WP_005835953.1
COORDINATES: similar to AA sequence:RefSeq:WP_014196752.1
COORDINATES: protein motif:HMM:NF013594.2
GO:0004222 - metalloendopeptidase activity [Evidence IEA]
COORDINATES: protein motif:HMM:NF018148.2
COORDINATES: similar to AA sequence:RefSeq:WP_000796221.1
COORDINATES: similar to AA sequence:RefSeq:WP_017815745.1
COORDINATES: similar to AA sequence:RefSeq:WP_019688386.1
primase C-terminal domain-containing protein