Butyrivibrio proteoclasticus B316 chromosome 2, 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\nCP001811.1.\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_013283132.1
Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_004063765.1
COORDINATES: similar to AA sequence:RefSeq:WP_013282970.1
COORDINATES: similar to AA sequence:RefSeq:WP_004603284.1
hydrogenase maturation nickel metallochaperone HypA
COORDINATES: similar to AA sequence:RefSeq:WP_015552264.1
nickel pincer cofactor biosynthesis protein LarC
COORDINATES: protein motif:HMM:NF014542.2
COORDINATES: similar to AA sequence:RefSeq:WP_015550600.1
sensor domain-containing diguanylate cyclase
COORDINATES: protein motif:HMM:TIGR00254.1
COORDINATES: similar to AA sequence:RefSeq:WP_015555038.1
COORDINATES: similar to AA sequence:RefSeq:WP_015519927.1
GO:0008959 - phosphate acetyltransferase activity [Evidence IEA]
GO:0006086 - acetyl-CoA biosynthetic process from pyruvate [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_016279601.1
COORDINATES: protein motif:HMM:NF022152.2
COORDINATES: similar to AA sequence:RefSeq:WP_015548393.1
COORDINATES: similar to AA sequence:RefSeq:WP_015357825.1
COORDINATES: ab initio prediction:GeneMarkS-2+
Derived by automated computational analysis using gene prediction method: GeneMarkS-2+.
COORDINATES: protein motif:HMM:NF013256.2
GO:0004559 - alpha-mannosidase activity [Evidence IEA]
GO:0006013 - mannose metabolic process [Evidence IEA]
glycoside hydrolase family 38 C-terminal domain-containing protein
COORDINATES: protein motif:HMM:NF038032.1
GO:0003824 - catalytic activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_007710285.1
COORDINATES: similar to AA sequence:RefSeq:WP_007710290.1
COORDINATES: protein motif:HMM:NF012692.2
COORDINATES: similar to AA sequence:RefSeq:WP_009254347.1
COORDINATES: protein motif:HMM:NF012706.2
ABC transporter substrate-binding protein
COORDINATES: similar to AA sequence:RefSeq:WP_015358585.1
COORDINATES: similar to AA sequence:RefSeq:WP_015358586.1
COORDINATES: similar to AA sequence:RefSeq:WP_004454983.1
COORDINATES: similar to AA sequence:RefSeq:WP_009252698.1
ATP-binding cassette domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_006735306.1
GO:0004342 - glucosamine-6-phosphate deaminase activity [Evidence IEA]
GO:0006046 - N-acetylglucosamine catabolic process [Evidence IEA]
COORDINATES: protein motif:HMM:NF002968.0
COORDINATES: similar to AA sequence:RefSeq:WP_004843703.1
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_009245647.1
GO:0008998 - ribonucleoside-triphosphate reductase activity [Evidence IEA]
GO:0006260 - DNA replication [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_016290285.1
COORDINATES: similar to AA sequence:RefSeq:WP_002847179.1
GO:0055085 - transmembrane transport [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_010250053.1
GO:0015663 - nicotinamide mononucleotide transmembrane transporter activity [Evidence IEA]
GO:0015890 - nicotinamide mononucleotide transport [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_003515322.1
COORDINATES: protein motif:HMM:NF025601.2
COORDINATES: similar to AA sequence:RefSeq:WP_009251131.1
COORDINATES: similar to AA sequence:RefSeq:WP_015548493.1
COORDINATES: protein motif:HMM:NF013961.2
transglutaminase-like domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_005604110.1
COORDINATES: similar to AA sequence:RefSeq:WP_018594554.1
COORDINATES: similar to AA sequence:RefSeq:WP_013497751.1
COORDINATES: protein motif:HMM:NF013731.2
GO:0006935 - chemotaxis [Evidence IEA]; GO:0007165 - signal transduction [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_015549461.1
COORDINATES: similar to AA sequence:RefSeq:WP_015550922.1
GO:0033744 - L-methionine:thioredoxin-disulfide S-oxidoreductase activity [Evidence IEA]; GO:0008113 - peptide-methionine (S)-S-oxide reductase activity [Evidence IEA]
GO:0030091 - protein repair [Evidence IEA]; GO:0006979 - response to oxidative stress [Evidence IEA]
peptide-methionine (S)-S-oxide reductase MsrA
COORDINATES: protein motif:HMM:NF024808.2
COORDINATES: protein motif:HMM:NF012245.2
GO:0007165 - signal transduction [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_005358521.1
GO:0003677 - DNA binding [Evidence IEA]; GO:0046872 - metal ion binding [Evidence IEA]
GO:0006355 - regulation of DNA-templated transcription [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_015549095.1
GO:0042625 - ATPase-coupled ion transmembrane transporter activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_013977514.1
COORDINATES: nucleotide motif:Rfam:14.4:RF00177
Derived by automated computational analysis using gene prediction method: cmsearch.
COORDINATES: nucleotide motif:Rfam:14.4:RF00001
COORDINATES: nucleotide motif:Rfam:14.4:RF02541
Derived by automated computational analysis using gene prediction method: tRNAscan-SE.
COORDINATES: similar to AA sequence:RefSeq:WP_015550017.1
bifunctional UDP-sugar hydrolase/5'-nucleotidase
COORDINATES: similar to AA sequence:RefSeq:WP_014080490.1
COORDINATES: similar to AA sequence:RefSeq:WP_003019278.1
GO:0004252 - serine-type endopeptidase activity [Evidence IEA]
rhomboid family intramembrane serine protease
COORDINATES: protein motif:HMM:NF025496.2
COORDINATES: similar to AA sequence:RefSeq:WP_015564063.1
GlsB/YeaQ/YmgE family stress response membrane protein
COORDINATES: similar to AA sequence:RefSeq:WP_013499251.1
GO:0016798 - hydrolase activity, acting on glycosyl bonds [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_008396342.1
ABC-F family ATP-binding cassette domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_016148623.1
GO:0005524 - ATP binding [Evidence IEA]; GO:0016787 - hydrolase activity [Evidence IEA]
COORDINATES: protein motif:HMM:TIGR01813.1
GO:0010181 - FMN binding [Evidence IEA]; GO:0016491 - oxidoreductase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_006855609.1
COORDINATES: similar to AA sequence:RefSeq:WP_015513699.1
sulfite exporter TauE/SafE family protein
COORDINATES: similar to AA sequence:RefSeq:WP_005541585.1
GO:0009349 - riboflavin synthase complex [Evidence IEA]
incomplete; partial in the middle of a contig; missing N-terminus; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_013282614.1
COORDINATES: similar to AA sequence:RefSeq:WP_017413317.1
GO:0022857 - transmembrane transporter activity [Evidence IEA]
glutamate/gamma-aminobutyrate family transporter YjeM
COORDINATES: protein motif:HMM:NF023166.2
COORDINATES: protein motif:HMM:NF013088.2
COORDINATES: protein motif:HMM:NF014999.2
COORDINATES: similar to AA sequence:RefSeq:WP_015299610.1
GO:0003677 - DNA binding [Evidence IEA]; GO:0004803 - transposase activity [Evidence IEA]
GO:0006313 - transposition, DNA-mediated [Evidence IEA]
frameshifted; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_013282462.1
RNA-guided endonuclease TnpB family protein
COORDINATES: similar to AA sequence:RefSeq:WP_006862845.1
COORDINATES: protein motif:HMM:NF015534.2
GO:0008236 - serine-type peptidase activity [Evidence IEA]
Type 1 glutamine amidotransferase-like domain-containing protein
COORDINATES: protein motif:HMM:NF014566.2
CPBP family intramembrane metalloprotease
COORDINATES: similar to AA sequence:RefSeq:WP_013498766.1
COORDINATES: similar to AA sequence:RefSeq:WP_015573105.1
COORDINATES: similar to AA sequence:RefSeq:WP_002317271.1
GO:0004803 - transposase activity [Evidence IEA]
type II CAAX endopeptidase family protein
COORDINATES: protein motif:HMM:NF012514.2
COORDINATES: similar to AA sequence:RefSeq:WP_007059343.1
RpiB/LacA/LacB family sugar-phosphate isomerase
COORDINATES: similar to AA sequence:RefSeq:WP_019679216.1
COORDINATES: similar to AA sequence:RefSeq:WP_005600466.1
COORDINATES: protein motif:HMM:NF019365.2
GO:0015926 - glucosidase activity [Evidence IEA]
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_013283148.1
COORDINATES: protein motif:HMM:NF024118.2
COORDINATES: protein motif:HMM:NF013593.2
GO:0005524 - ATP binding [Evidence IEA]; GO:0016887 - ATP hydrolysis activity [Evidence IEA]
COORDINATES: protein motif:HMM:NF025639.2
COORDINATES: protein motif:HMM:NF022525.2
COORDINATES: similar to AA sequence:RefSeq:WP_013283157.1
COORDINATES: protein motif:HMM:NF012234.2
COORDINATES: protein motif:HMM:NF015736.2
GO:0005524 - ATP binding [Evidence IEA]; GO:0003678 - DNA helicase activity [Evidence IEA]
DnaB-like helicase C-terminal domain-containing protein
COORDINATES: protein motif:HMM:NF012301.2
COORDINATES: protein motif:HMM:NF025637.2
COORDINATES: similar to AA sequence:RefSeq:WP_019160297.1
GO:0003964 - RNA-directed DNA polymerase activity [Evidence IEA]
GO:0000373 - Group II intron splicing [Evidence IEA]
group II intron reverse transcriptase/maturase
COORDINATES: similar to AA sequence:RefSeq:WP_012062303.1
COORDINATES: protein motif:HMM:NF013828.2
COORDINATES: protein motif:HMM:NF024252.2
helix-turn-helix transcriptional regulator
COORDINATES: protein motif:HMM:NF013319.2
GO:0008452 - RNA ligase activity [Evidence IEA]
GO:0006396 - RNA processing [Evidence IEA]
COORDINATES: protein motif:HMM:NF012792.2
GO:0008080 - N-acetyltransferase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_007859645.1
COORDINATES: similar to AA sequence:RefSeq:WP_008400146.1
COORDINATES: similar to AA sequence:RefSeq:WP_007783294.1
COORDINATES: similar to AA sequence:RefSeq:WP_013282418.1
COORDINATES: similar to AA sequence:RefSeq:WP_006439680.1
GO:0003950 - NAD+ ADP-ribosyltransferase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_015550952.1
COORDINATES: similar to AA sequence:RefSeq:WP_015549740.1
GO:0016787 - hydrolase activity [Evidence IEA]
GO:0008152 - metabolic process [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_007888697.1
NAD-dependent epimerase/dehydratase family protein
COORDINATES: similar to AA sequence:RefSeq:WP_004844968.1
COORDINATES: protein motif:HMM:NF019540.2
type II toxin-antitoxin system HicA family toxin
COORDINATES: similar to AA sequence:RefSeq:WP_019226908.1
type II toxin-antitoxin system HicB family antitoxin
COORDINATES: similar to AA sequence:RefSeq:WP_013281315.1
COORDINATES: similar to AA sequence:RefSeq:WP_007590819.1
GO:1903425 - fluoride transmembrane transporter activity [Evidence IEA]
GO:1903424 - fluoride transmembrane transport [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_013282474.1
COORDINATES: protein motif:HMM:NF025636.2
TetR/AcrR family transcriptional regulator
COORDINATES: similar to AA sequence:RefSeq:WP_004604656.1
GO:0003824 - catalytic activity [Evidence IEA]; GO:0051536 - iron-sulfur cluster binding [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_004604620.1
COORDINATES: similar to AA sequence:RefSeq:WP_015557778.1
COORDINATES: similar to AA sequence:RefSeq:WP_015551008.1
COORDINATES: protein motif:HMM:NF015380.2
COORDINATES: similar to AA sequence:RefSeq:WP_009253189.1
COORDINATES: similar to AA sequence:RefSeq:WP_009003144.1
COORDINATES: similar to AA sequence:RefSeq:WP_009253191.1
COORDINATES: similar to AA sequence:RefSeq:WP_016295196.1
COORDINATES: similar to AA sequence:RefSeq:WP_015549134.1
COORDINATES: similar to AA sequence:RefSeq:WP_007049118.1
COORDINATES: similar to AA sequence:RefSeq:WP_015548938.1
COORDINATES: protein motif:HMM:NF036578.2
alpha-L-rhamnosidase C-terminal domain-containing protein
COORDINATES: protein motif:HMM:NF012869.2
COORDINATES: protein motif:HMM:NF012235.2
COORDINATES: protein motif:HMM:TIGR02104.1
GO:0051060 - pullulanase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_002844541.1
COORDINATES: protein motif:HMM:NF025851.2
COORDINATES: similar to AA sequence:RefSeq:WP_008400229.1
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_009242253.1
COORDINATES: similar to AA sequence:RefSeq:WP_009263151.1
COORDINATES: similar to AA sequence:RefSeq:WP_007062922.1
COORDINATES: protein motif:HMM:NF024854.2
GO:0003700 - DNA-binding transcription factor activity [Evidence IEA]
COORDINATES: protein motif:HMM:NF013540.2
COORDINATES: protein motif:HMM:NF039470.1
COORDINATES: protein motif:HMM:NF024242.2
COORDINATES: similar to AA sequence:RefSeq:WP_015549748.1
COORDINATES: similar to AA sequence:RefSeq:WP_014426071.1
COORDINATES: similar to AA sequence:RefSeq:WP_014426072.1
radical SAM mobile pair system MarR family transcriptional regulator
COORDINATES: similar to AA sequence:RefSeq:WP_003508807.1
COORDINATES: similar to AA sequence:RefSeq:WP_013273348.1
helix-turn-helix domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_009325144.1
frameshifted; 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:NF012371.2
COORDINATES: protein motif:HMM:NF025054.2
COORDINATES: similar to AA sequence:RefSeq:WP_008402814.1
COORDINATES: protein motif:HMM:NF024803.2
COORDINATES: similar to AA sequence:RefSeq:WP_016292700.1
COORDINATES: similar to AA sequence:RefSeq:WP_007047106.1
COORDINATES: similar to AA sequence:RefSeq:WP_012741190.1
COORDINATES: similar to AA sequence:RefSeq:WP_014256509.1
COORDINATES: similar to AA sequence:RefSeq:WP_015541629.1
COORDINATES: similar to AA sequence:RefSeq:WP_013497844.1
COORDINATES: similar to AA sequence:RefSeq:WP_015450220.1
COORDINATES: similar to AA sequence:RefSeq:WP_007883004.1
COORDINATES: similar to AA sequence:RefSeq:WP_002853281.1
COORDINATES: similar to AA sequence:RefSeq:WP_012102493.1
GO:0015093 - ferrous iron transmembrane transporter activity [Evidence IEA]
GO:0006826 - iron ion transport [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_015564402.1
GO:0046914 - transition metal ion binding [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_009256530.1
GO:0004553 - hydrolase activity, hydrolyzing O-glycosyl compounds [Evidence IEA]
GO:0005975 - carbohydrate metabolic process [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_009172542.1
COORDINATES: similar to AA sequence:RefSeq:WP_015564191.1
COORDINATES: protein motif:HMM:NF013697.2
GO:0000160 - phosphorelay signal transduction system [Evidence IEA]
COORDINATES: protein motif:HMM:NF014567.2
COORDINATES: protein motif:HMM:NF014036.2
COORDINATES: protein motif:HMM:NF012772.2
COORDINATES: protein motif:HMM:NF013126.2
COORDINATES: similar to AA sequence:RefSeq:WP_009253705.1
glycoside hydrolase family 2 TIM barrel-domain containing protein
GO:0009975 - cyclase activity [Evidence IEA]
GO:0009966 - regulation of signal transduction [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_016297874.1
substrate-binding domain-containing protein
COORDINATES: protein motif:HMM:NF040112.1
COORDINATES: protein motif:HMM:NF013793.2
COORDINATES: similar to AA sequence:RefSeq:WP_009986817.1
COORDINATES: protein motif:HMM:NF019161.2
bacterial Ig-like domain-containing protein
COORDINATES: protein motif:HMM:NF014026.2
glycoside hydrolase family 3 C-terminal domain-containing protein
COORDINATES: protein motif:HMM:NF025854.2
LytTR family DNA-binding domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_016292348.1
COORDINATES: similar to AA sequence:RefSeq:WP_015550883.1
GO:0004077 - biotin-[acetyl-CoA-carboxylase] ligase activity [Evidence IEA]
GO:0036211 - protein modification process [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_020071688.1
amino acid ABC transporter ATP-binding protein
COORDINATES: similar to AA sequence:RefSeq:WP_006568355.1
COORDINATES: similar to AA sequence:RefSeq:WP_016293383.1
basic amino acid ABC transporter substrate-binding protein
COORDINATES: similar to AA sequence:RefSeq:WP_002848058.1
PLP-dependent aminotransferase family protein
COORDINATES: similar to AA sequence:RefSeq:WP_019679258.1
COORDINATES: protein motif:HMM:NF018271.2
COORDINATES: protein motif:HMM:NF022702.2
COORDINATES: protein motif:HMM:NF012383.2
GO:0009116 - nucleoside metabolic process [Evidence IEA]
phosphoribosyltransferase family protein
COORDINATES: similar to AA sequence:RefSeq:WP_013282640.1
COORDINATES: similar to AA sequence:RefSeq:WP_009255667.1
COORDINATES: similar to AA sequence:RefSeq:WP_006573797.1
COORDINATES: similar to AA sequence:RefSeq:WP_002579775.1
COORDINATES: similar to AA sequence:RefSeq:WP_015514908.1
COORDINATES: similar to AA sequence:RefSeq:WP_016322837.1
membrane component of a putative sugar ABC transporter system; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_005332252.1
COORDINATES: similar to AA sequence:RefSeq:WP_006780380.1
sugar ABC transporter ATP-binding protein
COORDINATES: similar to AA sequence:RefSeq:WP_016292980.1
COORDINATES: similar to AA sequence:RefSeq:WP_016292981.1
COORDINATES: protein motif:HMM:NF037653.2
COORDINATES: protein motif:HMM:NF016119.2
COORDINATES: similar to AA sequence:RefSeq:WP_009663514.1
GO:0043190 - ATP-binding cassette (ABC) transporter complex [Evidence IEA]
sugar ABC transporter substrate-binding protein
COORDINATES: protein motif:HMM:NF016292.2
ABC transporter substrate binding protein
COORDINATES: similar to AA sequence:RefSeq:WP_003021957.1
COORDINATES: similar to AA sequence:RefSeq:WP_018595022.1
COORDINATES: similar to AA sequence:RefSeq:WP_013283081.1