Clostridium argentinense strain 89G plasmid pRSJ17_1, complete sequence.
Bacteria; Bacillota; Clostridia; Eubacteriales; Clostridiaceae; Clostridium.
Submitted (26-JAN-2016) BioScience B11, Los Alamos National Laboratory, PO Box 1663 M888, Los Alamos, NM 87545, USA
REFSEQ INFORMATION: The reference sequence is identical to\nCP014175.1.\nSource DNA available from Shannon Johnson.\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 :: Velvet v. 1.2.08; HGAP v. 3; Phrap v. 4.24\nGenome Coverage :: 152x; 328x\nSequencing Technology :: Illumina; PacBio\n##Genome-Assembly-Data-END##\n\n##Genome-Annotation-Data-START##\nAnnotation Provider :: NCBI RefSeq\nAnnotation Date :: 02/06/2023 05:34:35\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) :: 4,426\nCDSs (total) :: 4,296\nGenes (coding) :: 4,231\nCDSs (with protein) :: 4,231\nGenes (RNA) :: 130\nrRNAs :: 10, 10, 10 (5S, 16S, 23S)\ncomplete rRNAs :: 10, 10, 10 (5S, 16S, 23S)\ntRNAs :: 96\nncRNAs :: 4\nPseudo Genes (total) :: 65\nCDSs (without protein) :: 65\nPseudo Genes (ambiguous residues) :: 0 of 65\nPseudo Genes (frameshifted) :: 23 of 65\nPseudo Genes (incomplete) :: 42 of 65\nPseudo Genes (internal stop) :: 19 of 65\nPseudo Genes (multiple problems) :: 15 of 65\nCRISPR Arrays :: 2\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:NF025501.2
Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_007064308.1
COORDINATES: similar to AA sequence:RefSeq:WP_003485517.1
RNA-guided endonuclease TnpB family protein
COORDINATES: protein motif:HMM:TIGR00621.2
COORDINATES: protein motif:HMM:NF013311.2
GO:0003677 - DNA binding [Evidence IEA]; GO:0003916 - DNA topoisomerase activity [Evidence IEA]
GO:0006265 - DNA topological change [Evidence IEA]
COORDINATES: protein motif:HMM:NF013878.2
helix-turn-helix transcriptional regulator
COORDINATES: protein motif:HMM:NF014069.2
COORDINATES: protein motif:HMM:TIGR00254.1
COORDINATES: protein motif:HMM:NF016047.2
cell wall-binding repeat-containing protein
COORDINATES: protein motif:HMM:NF012652.2
COORDINATES: protein motif:HMM:NF013073.2
COORDINATES: protein motif:HMM:NF015935.2
COORDINATES: protein motif:HMM:NF040179.1
COORDINATES: protein motif:HMM:NF024078.2
COORDINATES: protein motif:HMM:NF039493.1
COORDINATES: protein motif:HMM:TIGR02937.1
GO:0003677 - DNA binding [Evidence IEA]; GO:0003700 - DNA-binding transcription factor activity [Evidence IEA]; GO:0016987 - sigma factor activity [Evidence IEA]
GO:0006352 - DNA-templated transcription initiation [Evidence IEA]; GO:0006355 - regulation of DNA-templated transcription [Evidence IEA]
sigma-70 family RNA polymerase sigma factor
COORDINATES: protein motif:HMM:NF024804.2
winged helix-turn-helix transcriptional regulator
COORDINATES: similar to AA sequence:RefSeq:WP_004460194.1
COORDINATES: protein motif:HMM:NF024367.2
COORDINATES: protein motif:HMM:NF014787.2
COORDINATES: protein motif:HMM:NF004046.0
GO:0009360 - DNA polymerase III complex [Evidence IEA]
GO:0005524 - ATP binding [Evidence IEA]; GO:0003677 - DNA binding [Evidence IEA]; GO:0003887 - DNA-directed DNA polymerase activity [Evidence IEA]
GO:0006260 - DNA replication [Evidence IEA]
COORDINATES: protein motif:HMM:NF013094.2
GO:0008641 - ubiquitin-like modifier activating enzyme activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_019260132.1
COORDINATES: similar to AA sequence:RefSeq:WP_013386323.1
COORDINATES: similar to AA sequence:RefSeq:WP_010700457.1
COORDINATES: similar to AA sequence:RefSeq:WP_010076700.1
GO:0004803 - transposase activity [Evidence IEA]
COORDINATES: protein motif:HMM:NF016724.2
GO:0005524 - ATP binding [Evidence IEA]; GO:0003677 - DNA binding [Evidence IEA]; GO:0016787 - hydrolase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_013386157.1
COORDINATES: protein motif:HMM:NF024252.2
COORDINATES: similar to AA sequence:RefSeq:WP_017210183.1
COORDINATES: similar to AA sequence:RefSeq:WP_017210956.1
COORDINATES: similar to AA sequence:RefSeq:WP_017352479.1
COORDINATES: protein motif:HMM:NF015377.2
GO:0005524 - ATP binding [Evidence IEA]; GO:0008233 - peptidase activity [Evidence IEA]
cysteine peptidase family C39 domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_003375364.1
COORDINATES: protein motif:HMM:TIGR01877.1
GO:0004521 - endoribonuclease activity [Evidence IEA]
GO:0043571 - maintenance of CRISPR repeat elements [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_039635782.1
COORDINATES: similar to AA sequence:RefSeq:WP_003404192.1
GO:0005576 - extracellular region [Evidence IEA]
GO:0004222 - metalloendopeptidase activity [Evidence IEA]; GO:0008270 - zinc ion binding [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_014520037.1
botulinum neurotoxin transcription-activating sigma factor BotR
COORDINATES: similar to AA sequence:RefSeq:WP_012291566.1
COORDINATES: similar to AA sequence:RefSeq:WP_011948507.1
botulinum neurotoxin hemagglutinin HA70 subunit
COORDINATES: similar to AA sequence:RefSeq:WP_003380408.1
COORDINATES: similar to AA sequence:RefSeq:WP_016391146.1
COORDINATES: similar to AA sequence:RefSeq:WP_013298745.1
COORDINATES: similar to AA sequence:RefSeq:WP_009900042.1
GO:0008236 - serine-type peptidase activity [Evidence IEA]
COORDINATES: protein motif:HMM:NF015983.2
radical SAM/SPASM domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_003422439.1
COORDINATES: protein motif:HMM:NF012234.2
GO:0005524 - ATP binding [Evidence IEA]; GO:0016887 - ATP hydrolysis activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_010292701.1
GO:0015074 - DNA integration [Evidence IEA]; GO:0006310 - DNA recombination [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_012061035.1
AbrB/MazE/SpoVT family DNA-binding domain-containing protein
COORDINATES: protein motif:HMM:NF019344.2
COORDINATES: protein motif:HMM:NF039505.1
COORDINATES: similar to AA sequence:RefSeq:WP_010233414.1
COORDINATES: protein motif:HMM:NF012784.2
GO:0003676 - nucleic acid binding [Evidence IEA]
S1 RNA-binding domain-containing protein
COORDINATES: protein motif:HMM:NF014581.2
type IV secretory system conjugative DNA transfer family protein
COORDINATES: protein motif:HMM:NF024754.2
COORDINATES: protein motif:HMM:NF021637.2