Butyrivibrio proteoclasticus B316 plasmid pCY186, complete sequence.
Bacteria; Bacillota; Clostridia; Eubacteriales; Lachnospiraceae; Butyrivibrio.
The glycobiome of the rumen bacterium Butyrivibrio proteoclasticus B316(T) highlights adaptation to a polysaccharide-rich environment
Submitted (04-NOV-2009) Food, Metabolism & Microbiology Section, AgResearch Limited, Grasslands Research Centre, Tennent Drive, Private Bag 11008, Palmerston North 4442, New Zealand
REFSEQ INFORMATION: The reference sequence is identical to\nCP001813.1.\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/\n\n##Genome-Annotation-Data-START##\nAnnotation Provider :: NCBI RefSeq\nAnnotation Date :: 03/12/2023 12:09:59\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) :: 3,935\nCDSs (total) :: 3,862\nGenes (coding) :: 3,825\nCDSs (with protein) :: 3,825\nGenes (RNA) :: 73\nrRNAs :: 6, 6, 6 (5S, 16S, 23S)\ncomplete rRNAs :: 6, 6, 6 (5S, 16S, 23S)\ntRNAs :: 51\nncRNAs :: 4\nPseudo Genes (total) :: 37\nCDSs (without protein) :: 37\nPseudo Genes (ambiguous residues) :: 0 of 37\nPseudo Genes (frameshifted) :: 10 of 37\nPseudo Genes (incomplete) :: 28 of 37\nPseudo Genes (internal stop) :: 1 of 37\nPseudo Genes (multiple problems) :: 2 of 37\n##Genome-Annotation-Data-END##\nCOMPLETENESS: full length.
type strain of Butyrivibrio proteoclasticus
type strain of Butyrivibrio proteoclasticus B316
COORDINATES: protein motif:HMM:NF013235.2
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:NF024919.2
COORDINATES: protein motif:HMM:NF040179.1
type IV secretory system conjugative DNA transfer family protein
COORDINATES: similar to AA sequence:RefSeq:WP_005600466.1
GO:0004803 - transposase activity [Evidence IEA]
COORDINATES: protein motif:HMM:NF014581.2
COORDINATES: protein motif:HMM:NF015022.2
COORDINATES: similar to AA sequence:RefSeq:WP_009252200.1
COORDINATES: protein motif:HMM:NF019474.2
COORDINATES: protein motif:HMM:NF019956.2
COORDINATES: protein motif:HMM:NF013073.2
COORDINATES: protein motif:HMM:NF019128.2
GO:0016787 - hydrolase activity [Evidence IEA]
COORDINATES: protein motif:HMM:NF012784.2
GO:0003676 - nucleic acid binding [Evidence IEA]
S1 RNA-binding domain-containing protein
COORDINATES: protein motif:HMM:NF020250.2
COORDINATES: protein motif:HMM:NF012652.2
COORDINATES: similar to AA sequence:RefSeq:WP_006856616.1
COORDINATES: protein motif:HMM:NF025387.2
COORDINATES: protein motif:HMM:NF012493.2
COORDINATES: similar to AA sequence:RefSeq:WP_005347174.1
COORDINATES: similar to AA sequence:RefSeq:WP_013280467.1
COORDINATES: protein motif:HMM:NF022018.2
COORDINATES: protein motif:HMM:NF017321.2
COORDINATES: protein motif:HMM:NF039828.1
COORDINATES: protein motif:HMM:NF018837.2
COORDINATES: similar to AA sequence:RefSeq:WP_013280082.1
COORDINATES: similar to AA sequence:RefSeq:WP_015549234.1
COORDINATES: similar to AA sequence:RefSeq:WP_002576045.1
GO:0006355 - regulation of DNA-templated transcription [Evidence IEA]
type II toxin-antitoxin system RelB/DinJ family antitoxin
COORDINATES: similar to AA sequence:RefSeq:WP_012743403.1
COORDINATES: protein motif:HMM:NF016362.2
COORDINATES: similar to AA sequence:RefSeq:WP_013497420.1
GO:0003677 - DNA binding [Evidence IEA]; GO:0004519 - endonuclease activity [Evidence IEA]
GO:0009307 - DNA restriction-modification system [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_004602177.1
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: similar to AA sequence:RefSeq:WP_012102937.1
GO:0006304 - DNA modification [Evidence IEA]
COORDINATES: protein motif:HMM:NF013579.2
COORDINATES: similar to AA sequence:RefSeq:WP_012741760.1
GO:0019812 - type I site-specific deoxyribonuclease complex [Evidence IEA]
GO:0009035 - type I site-specific deoxyribonuclease activity [Evidence IEA]
HsdR family type I site-specific deoxyribonuclease
COORDINATES: protein motif:HMM:NF015734.2
COORDINATES: similar to AA sequence:RefSeq:WP_007545946.1
incomplete; partial in the middle of a contig; missing N-terminus; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: protein motif:HMM:NF012798.2
GO:0015074 - DNA integration [Evidence IEA]; GO:0006310 - DNA recombination [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_013282105.1
COORDINATES: similar to AA sequence:RefSeq:WP_013283121.1
SWIM zinc finger domain-containing protein
Derived by automated computational analysis using gene prediction method: tRNAscan-SE.
COORDINATES: protein motif:HMM:NF012862.2
COORDINATES: protein motif:HMM:NF012534.2
COORDINATES: protein motif:HMM:NF019884.2
COORDINATES: similar to AA sequence:RefSeq:WP_019613662.1
COORDINATES: protein motif:HMM:NF012298.2
COORDINATES: similar to AA sequence:RefSeq:WP_013282344.1
COORDINATES: similar to AA sequence:RefSeq:WP_013279692.1
COORDINATES: similar to AA sequence:RefSeq:WP_013279672.1
GO:0005524 - ATP binding [Evidence IEA]; GO:0003677 - DNA binding [Evidence IEA]; GO:0003678 - DNA helicase activity [Evidence IEA]
GO:0006260 - DNA replication [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_016279963.1
GO:0008408 - 3'-5' exonuclease activity [Evidence IEA]; GO:0003677 - DNA binding [Evidence IEA]; GO:0003887 - DNA-directed DNA polymerase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_019189692.1
COORDINATES: protein motif:HMM:NF012529.2
COORDINATES: protein motif:HMM:NF019353.2
COORDINATES: similar to AA sequence:RefSeq:WP_013282437.1
GO:0005524 - ATP binding [Evidence IEA]; GO:0016887 - ATP hydrolysis activity [Evidence IEA]
COORDINATES: protein motif:HMM:NF036968.2
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]
COORDINATES: protein motif:HMM:NF024118.2
COORDINATES: similar to AA sequence:RefSeq:WP_013282435.1
COORDINATES: protein motif:HMM:NF019903.2
GO:0005524 - ATP binding [Evidence IEA]; GO:0043565 - sequence-specific DNA binding [Evidence IEA]
GO:0006270 - DNA replication initiation [Evidence IEA]; GO:0006275 - regulation of DNA replication [Evidence IEA]
helix-turn-helix domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_003621743.1
COORDINATES: similar to AA sequence:RefSeq:WP_008751881.1
COORDINATES: similar to AA sequence:RefSeq:WP_008976217.1
5-methylcytosine-specific restriction endonuclease system specificity protein McrC
COORDINATES: similar to AA sequence:RefSeq:WP_014016941.1
COORDINATES: protein motif:HMM:NF019313.2
COORDINATES: similar to AA sequence:RefSeq:WP_013281267.1
Mor transcription activator family protein
COORDINATES: similar to AA sequence:RefSeq:WP_000398312.1
COORDINATES: similar to AA sequence:RefSeq:WP_000467902.1
COORDINATES: similar to AA sequence:RefSeq:WP_007889267.1
COORDINATES: similar to AA sequence:RefSeq:WP_015514777.1
COORDINATES: similar to AA sequence:RefSeq:WP_004613165.1
COORDINATES: similar to AA sequence:RefSeq:WP_013280924.1
COORDINATES: protein motif:HMM:NF024139.2
COORDINATES: similar to AA sequence:RefSeq:WP_013282997.1
COORDINATES: protein motif:HMM:NF013053.2
isochorismatase family cysteine hydrolase
COORDINATES: protein motif:HMM:NF012792.2
GO:0008080 - N-acetyltransferase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_005601614.1
COORDINATES: similar to AA sequence:RefSeq:WP_002564906.1
COORDINATES: protein motif:HMM:NF039349.1
COORDINATES: protein motif:HMM:NF024367.2
COORDINATES: protein motif:HMM:NF024991.2
COORDINATES: similar to AA sequence:RefSeq:WP_019680917.1
COORDINATES: protein motif:HMM:TIGR02227.1
GO:0004252 - serine-type endopeptidase activity [Evidence IEA]
GO:0009306 - protein secretion [Evidence IEA]; GO:0006465 - signal peptide processing [Evidence IEA]
COORDINATES: protein motif:HMM:NF024252.2
COORDINATES: similar to AA sequence:RefSeq:WP_008394701.1
COORDINATES: protein motif:HMM:NF018290.2
COORDINATES: protein motif:HMM:TIGR00180.1
ParB/RepB/Spo0J family partition protein