Parageobacillus caldoxylosilyticus strain ER4B plasmid unnamed, complete sequence.
Bacteria; Bacillota; Bacilli; Bacillales; Bacillaceae; Parageobacillus.
Submitted (16-MAY-2019) Biotechnology Research Institute, Universiti Malaysia Sabah, Jalan UMS, Kota Kinabalu, Sabah 88450, Malaysia
REFSEQ INFORMATION: The reference sequence is identical to\nCP040554.1.\nBacteria and source DNA available from Biotechnology Research\nInstiture, Universiti Malaysia Sabah.\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 :: 10-APR-2018\nAssembly Method :: Canu v. v1.6\nGenome Representation :: Full\nExpected Final Version :: No\nGenome Coverage :: 150.0x\nSequencing Technology :: PacBio\n##Genome-Assembly-Data-END##\n\n##Genome-Annotation-Data-START##\nAnnotation Provider :: NCBI RefSeq\nAnnotation Date :: 04/29/2023 04:10:46\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) :: 4,074\nCDSs (total) :: 3,951\nGenes (coding) :: 3,816\nCDSs (with protein) :: 3,816\nGenes (RNA) :: 123\nrRNAs :: 8, 9, 9 (5S, 16S, 23S)\ncomplete rRNAs :: 8, 9, 9 (5S, 16S, 23S)\ntRNAs :: 92\nncRNAs :: 5\nPseudo Genes (total) :: 135\nCDSs (without protein) :: 135\nPseudo Genes (ambiguous residues) :: 0 of 135\nPseudo Genes (frameshifted) :: 81 of 135\nPseudo Genes (incomplete) :: 77 of 135\nPseudo Genes (internal stop) :: 25 of 135\nPseudo Genes (multiple problems) :: 42 of 135\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+.
type IV secretory system conjugative DNA transfer family protein
COORDINATES: protein motif:HMM:NF015354.2
Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_011888496.1
COORDINATES: similar to AA sequence:RefSeq:WP_002305069.1
COORDINATES: similar to AA sequence:RefSeq:WP_012985459.1
GO:0004222 - metalloendopeptidase activity [Evidence IEA]
GO:0071586 - CAAX-box protein processing [Evidence IEA]
CPBP family intramembrane metalloprotease
COORDINATES: similar to AA sequence:RefSeq:WP_019418121.1
GO:0022857 - transmembrane transporter activity [Evidence IEA]
GO:0055085 - transmembrane transport [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_019418120.1
COORDINATES: similar to AA sequence:RefSeq:WP_012985462.1
COORDINATES: similar to AA sequence:RefSeq:WP_019418118.1
GO:0016787 - hydrolase activity [Evidence IEA]
GO:0008152 - metabolic process [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_012985464.1
COORDINATES: similar to AA sequence:RefSeq:WP_012985465.1
COORDINATES: protein motif:HMM:NF013227.2
frameshifted; Derived by automated computational analysis using gene prediction method: Protein Homology.
aminotransferase class V-fold PLP-dependent enzyme
COORDINATES: similar to AA sequence:RefSeq:WP_019418114.1
GO:0016491 - oxidoreductase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_019418112.1
COORDINATES: similar to AA sequence:RefSeq:WP_008881272.1
GO:0004803 - transposase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_019418111.1
COORDINATES: similar to AA sequence:RefSeq:WP_019418110.1
COORDINATES: similar to AA sequence:RefSeq:WP_012985472.1
COORDINATES: similar to AA sequence:RefSeq:WP_019418108.1
GO:0046872 - metal ion binding [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_013878226.1
GO:0015074 - DNA integration [Evidence IEA]; GO:0006310 - DNA recombination [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_003248346.1
COORDINATES: similar to AA sequence:RefSeq:WP_011232406.1
COORDINATES: similar to AA sequence:RefSeq:WP_008909975.1
incomplete; partial in the middle of a contig; missing N-terminus; Derived by automated computational analysis using gene prediction method: Protein Homology.
RNA-guided endonuclease TnpB family protein
COORDINATES: similar to AA sequence:RefSeq:WP_008881758.1
COORDINATES: similar to AA sequence:RefSeq:WP_011888468.1
COORDINATES: protein motif:HMM:NF040152.1
COORDINATES: protein motif:HMM:NF012437.2
adenylate/guanylate cyclase domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_008881755.1
COORDINATES: similar to AA sequence:RefSeq:WP_008881754.1
COORDINATES: similar to AA sequence:RefSeq:WP_008881753.1
COORDINATES: similar to AA sequence:RefSeq:WP_008881752.1
COORDINATES: similar to AA sequence:RefSeq:WP_008881751.1
COORDINATES: similar to AA sequence:RefSeq:WP_011888474.1
COORDINATES: similar to AA sequence:RefSeq:WP_011888475.1
COORDINATES: similar to AA sequence:RefSeq:WP_008881748.1
COORDINATES: similar to AA sequence:RefSeq:WP_008881747.1
COORDINATES: similar to AA sequence:RefSeq:WP_000495110.1
COORDINATES: similar to AA sequence:RefSeq:WP_011888478.1
COORDINATES: similar to AA sequence:RefSeq:WP_011888480.1
GO:0006355 - regulation of DNA-templated transcription [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_008881741.1
COORDINATES: similar to AA sequence:RefSeq:WP_011888482.1
COORDINATES: similar to AA sequence:RefSeq:WP_000460750.1
helix-turn-helix transcriptional regulator
COORDINATES: similar to AA sequence:RefSeq:WP_008881737.1
GO:0005524 - ATP binding [Evidence IEA]; GO:0003677 - DNA binding [Evidence IEA]; GO:0000166 - nucleotide binding [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_008881736.1
COORDINATES: similar to AA sequence:RefSeq:WP_008881735.1
COORDINATES: similar to AA sequence:RefSeq:WP_008881734.1
COORDINATES: similar to AA sequence:RefSeq:WP_011888487.1
GO:0000166 - nucleotide binding [Evidence IEA]
GO:0030541 - plasmid partitioning [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_003351373.1
COORDINATES: similar to AA sequence:RefSeq:WP_008881731.1
COORDINATES: similar to AA sequence:RefSeq:WP_011888494.1
COORDINATES: similar to AA sequence:RefSeq:WP_008881729.1