Butyrivibrio proteoclasticus B316 plasmid pCY360, 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\nCP001812.1.\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: similar to AA sequence:RefSeq:WP_013282344.1
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:NF012798.2
GO:0015074 - DNA integration [Evidence IEA]; GO:0006310 - DNA recombination [Evidence IEA]
Flp pilus assembly complex ATPase component TadA
COORDINATES: protein motif:HMM:NF013970.2
COORDINATES: protein motif:HMM:NF018894.2
COORDINATES: protein motif:HMM:NF013593.2
GO:0005524 - ATP binding [Evidence IEA]; GO:0016887 - ATP hydrolysis activity [Evidence IEA]
FtsH/Yme1/Tma family ATP-dependent metallopeptidase
COORDINATES: similar to AA sequence:RefSeq:WP_013282409.1
COORDINATES: similar to AA sequence:RefSeq:WP_019001308.1
PDDEXK nuclease domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_012742344.1
COORDINATES: protein motif:HMM:NF012792.2
GO:0008080 - N-acetyltransferase activity [Evidence IEA]
COORDINATES: protein motif:HMM:NF024991.2
COORDINATES: similar to AA sequence:RefSeq:WP_013281010.1
COORDINATES: similar to AA sequence:RefSeq:WP_013282803.1
COORDINATES: protein motif:HMM:NF037897.2
COORDINATES: protein motif:HMM:NF037816.2
COORDINATES: protein motif:HMM:NF013540.2
helix-turn-helix domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_004613214.1
COORDINATES: similar to AA sequence:RefSeq:WP_012200122.1
COORDINATES: similar to AA sequence:RefSeq:WP_004069080.1
COORDINATES: protein motif:HMM:TIGR02452.1
COORDINATES: similar to AA sequence:RefSeq:WP_076611432.1
frameshifted; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_006572335.1
GO:0003824 - catalytic activity [Evidence IEA]
phosphoadenosine phosphosulfate reductase family protein
COORDINATES: similar to AA sequence:RefSeq:WP_009300893.1
RNA-guided endonuclease TnpB family protein
COORDINATES: similar to AA sequence:RefSeq:WP_014895380.1
COORDINATES: similar to AA sequence:RefSeq:WP_012744489.1
COORDINATES: similar to AA sequence:RefSeq:WP_015569833.1
COORDINATES: similar to AA sequence:RefSeq:WP_019893412.1
helix-turn-helix transcriptional regulator
COORDINATES: similar to AA sequence:RefSeq:WP_016298228.1
COORDINATES: similar to AA sequence:RefSeq:WP_016296157.1
COORDINATES: similar to AA sequence:RefSeq:WP_016440807.1
IS200/IS605 family element RNA-guided endonuclease TnpB
COORDINATES: similar to AA sequence:RefSeq:WP_005340033.1
COORDINATES: protein motif:HMM:NF033573.1
GO:0004803 - transposase activity [Evidence IEA]
COORDINATES: protein motif:HMM:NF037906.2
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: protein motif:HMM:NF005932.1
GO:0003677 - DNA binding [Evidence IEA]; GO:0003911 - DNA ligase (NAD+) activity [Evidence IEA]
GO:0006281 - DNA repair [Evidence IEA]; GO:0006260 - DNA replication [Evidence IEA]
COORDINATES: protein motif:HMM:NF040570.1
COORDINATES: similar to AA sequence:RefSeq:WP_016518354.1
COORDINATES: similar to AA sequence:RefSeq:WP_009429905.1
COORDINATES: protein motif:HMM:NF012376.2
COORDINATES: protein motif:HMM:NF021498.2
COORDINATES: protein motif:HMM:NF024867.2
SbcC/MukB-like Walker B domain-containing protein
COORDINATES: protein motif:HMM:NF025205.2
COORDINATES: protein motif:HMM:NF039513.1
COORDINATES: protein motif:HMM:NF013658.2
COORDINATES: protein motif:HMM:NF012464.2
COORDINATES: similar to AA sequence:RefSeq:WP_013282643.1
COORDINATES: similar to AA sequence:RefSeq:WP_013282806.1
COORDINATES: similar to AA sequence:RefSeq:WP_013282804.1
COORDINATES: protein motif:HMM:NF037909.2
COORDINATES: protein motif:HMM:NF025642.2
COORDINATES: protein motif:HMM:NF040163.1
COORDINATES: similar to AA sequence:RefSeq:WP_013280467.1
COORDINATES: protein motif:HMM:NF012789.2
COORDINATES: protein motif:HMM:NF012851.2
poly(ADP-ribose) polymerase catalytic domain-containing protein
COORDINATES: protein motif:HMM:NF024550.2
COORDINATES: protein motif:HMM:NF014069.2
COORDINATES: similar to AA sequence:RefSeq:WP_013282838.1
COORDINATES: similar to AA sequence:RefSeq:WP_013282837.1
COORDINATES: protein motif:HMM:NF013122.2
COORDINATES: protein motif:HMM:NF016364.2
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:NF012651.2
GO:0003697 - single-stranded DNA binding [Evidence IEA]
COORDINATES: protein motif:HMM:NF025088.2
COORDINATES: similar to AA sequence:RefSeq:WP_013282919.1
COORDINATES: protein motif:HMM:TIGR00594.1
GO:0009360 - DNA polymerase III complex [Evidence IEA]
GO:0003887 - DNA-directed DNA polymerase activity [Evidence IEA]
GO:0006260 - DNA replication [Evidence IEA]
COORDINATES: protein motif:HMM:NF014826.2
COORDINATES: protein motif:HMM:NF040179.1
COORDINATES: protein motif:HMM:NF024078.2
COORDINATES: protein motif:HMM:NF014581.2
type IV secretory system conjugative DNA transfer family protein
COORDINATES: similar to AA sequence:RefSeq:WP_012207866.1
COORDINATES: protein motif:HMM:NF012652.2
COORDINATES: protein motif:HMM:NF020250.2
COORDINATES: protein motif:HMM:NF013073.2
GO:0016787 - hydrolase activity [Evidence IEA]
COORDINATES: protein motif:HMM:NF012774.2
COORDINATES: similar to AA sequence:RefSeq:WP_005346762.1
GO:0004844 - uracil DNA N-glycosylase activity [Evidence IEA]
GO:0006284 - base-excision repair [Evidence IEA]
COORDINATES: protein motif:HMM:NF037161.2
GO:0042132 - fructose 1,6-bisphosphate 1-phosphatase activity [Evidence IEA]
GO:0006094 - gluconeogenesis [Evidence IEA]
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:NF013528.2
COORDINATES: protein motif:HMM:NF021981.2
COORDINATES: protein motif:HMM:NF012492.2
GO:0005524 - ATP binding [Evidence IEA]; GO:0003676 - nucleic acid binding [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_013282935.1
GO:0006355 - regulation of DNA-templated transcription [Evidence IEA]
COORDINATES: protein motif:HMM:NF021468.2
COORDINATES: similar to AA sequence:RefSeq:WP_013282947.1
COORDINATES: protein motif:HMM:NF017548.2
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: similar to AA sequence:RefSeq:WP_004848601.1
GO:0005524 - ATP binding [Evidence IEA]; GO:0016301 - kinase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_015516014.1
COORDINATES: similar to AA sequence:RefSeq:WP_013282849.1
COORDINATES: protein motif:HMM:NF018751.2
COORDINATES: protein motif:HMM:TIGR00254.1
COORDINATES: protein motif:HMM:NF024754.2
COORDINATES: similar to AA sequence:RefSeq:WP_013282900.1
ribbon-helix-helix domain-containing protein
COORDINATES: protein motif:HMM:NF016515.2
COORDINATES: protein motif:HMM:NF026941.2
COORDINATES: similar to AA sequence:RefSeq:WP_013282906.1
COORDINATES: protein motif:HMM:NF013930.2
GO:0003677 - DNA binding [Evidence IEA]; GO:0003896 - DNA primase activity [Evidence IEA]; GO:0008270 - zinc ion binding [Evidence IEA]
CHC2 zinc finger domain-containing protein
COORDINATES: protein motif:HMM:NF012415.2
COORDINATES: similar to AA sequence:RefSeq:WP_012749072.1
COORDINATES: protein motif:HMM:NF016119.2
COORDINATES: similar to AA sequence:RefSeq:WP_018370715.1
frameshifted; 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:NF017509.2
COORDINATES: protein motif:HMM:NF019941.2
SpaA isopeptide-forming pilin-related protein
COORDINATES: similar to AA sequence:RefSeq:WP_013282964.1
COORDINATES: protein motif:HMM:NF012832.2
COORDINATES: protein motif:HMM:NF025562.2
COORDINATES: similar to AA sequence:RefSeq:WP_006844778.1
COORDINATES: protein motif:HMM:NF016214.2
COORDINATES: protein motif:HMM:NF039828.1
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_004604188.1
COORDINATES: similar to AA sequence:RefSeq:WP_004604187.1
COORDINATES: protein motif:HMM:TIGR04330.1
type V CRISPR-associated protein Cas12a/Cpf1
COORDINATES: similar to AA sequence:RefSeq:WP_013283188.1
COORDINATES: protein motif:HMM:NF014566.2
type II CAAX endopeptidase family protein
COORDINATES: protein motif:HMM:NF037419.2
COORDINATES: similar to AA sequence:RefSeq:WP_015569816.1
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_008752520.1
GO:0051539 - 4 iron, 4 sulfur cluster binding [Evidence IEA]
GO:0009265 - 2'-deoxyribonucleotide biosynthetic process [Evidence IEA]; GO:0051353 - positive regulation of oxidoreductase activity [Evidence IEA]
anaerobic ribonucleoside-triphosphate reductase activating protein
COORDINATES: similar to AA sequence:RefSeq:WP_005340597.1
COORDINATES: similar to AA sequence:RefSeq:WP_013282300.1
GO:0008998 - ribonucleoside-triphosphate reductase activity [Evidence IEA]
anaerobic ribonucleoside-triphosphate reductase
COORDINATES: protein motif:HMM:NF018601.2
COORDINATES: protein motif:HMM:NF013793.2