Segatella copri DSM 18205 strain FDAARGOS_1573 plasmid unnamed1, complete sequence.
Bacteria; Bacteroidota; Bacteroidia; Bacteroidales; Prevotellaceae; Segatella.
FDA dAtabase for Regulatory Grade micrObial Sequences (FDA-ARGOS): Supporting development and validation of Infectious Disease Dx tests
Submitted (26-OCT-2021) Center for Devices and Radiological Health, US Food and Drug Administration, 10903 New Hampshire Avenue, White Oak, MD 20903, USA
REFSEQ INFORMATION: The reference sequence is identical to\nCP085933.1.\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-Assembly-Data-START##\nAssembly Method :: SMRT v. 9.0.0, HGAP v. 4.0\nGenome Coverage :: 2127.21x\nSequencing Technology :: Pacbio; Illumina\n##Genome-Assembly-Data-END##\n\n##Genome-Annotation-Data-START##\nAnnotation Provider :: NCBI RefSeq\nAnnotation Date :: 07/30/2023 11:04:49\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) :: 2,998\nCDSs (total) :: 2,917\nGenes (coding) :: 2,855\nCDSs (with protein) :: 2,855\nGenes (RNA) :: 81\nrRNAs :: 6, 6, 6 (5S, 16S, 23S)\ncomplete rRNAs :: 6, 6, 6 (5S, 16S, 23S)\ntRNAs :: 61\nncRNAs :: 2\nPseudo Genes (total) :: 62\nCDSs (without protein) :: 62\nPseudo Genes (ambiguous residues) :: 0 of 62\nPseudo Genes (frameshifted) :: 11 of 62\nPseudo Genes (incomplete) :: 54 of 62\nPseudo Genes (internal stop) :: 7 of 62\nPseudo Genes (multiple problems) :: 10 of 62\n##Genome-Annotation-Data-END##\nCOMPLETENESS: full length.
COORDINATES: similar to AA sequence:RefSeq:WP_006849278.1
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: similar to AA sequence:RefSeq:WP_008140689.1
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_018361448.1
COORDINATES: protein motif:HMM:NF024700.2
GO:0005524 - ATP binding [Evidence IEA]; GO:0016887 - ATP hydrolysis activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_008310555.1
COORDINATES: similar to AA sequence:RefSeq:WP_006800170.1
GO:0004417 - hydroxyethylthiazole kinase activity [Evidence IEA]
GO:0009228 - thiamine biosynthetic process [Evidence IEA]
COORDINATES: protein motif:HMM:NF019843.2
GO:0005515 - protein binding [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_006848144.1
COORDINATES: similar to AA sequence:RefSeq:WP_006846409.1
COORDINATES: similar to AA sequence:RefSeq:WP_004377490.1
incomplete; partial in the middle of a contig; missing N-terminus; Derived by automated computational analysis using gene prediction method: Protein Homology.
type IV secretory system conjugative DNA transfer family protein
COORDINATES: similar to AA sequence:RefSeq:WP_010420328.1
COORDINATES: similar to AA sequence:RefSeq:WP_005939411.1
COORDINATES: similar to AA sequence:RefSeq:WP_005939408.1
COORDINATES: similar to AA sequence:RefSeq:WP_005939406.1
COORDINATES: protein motif:HMM:NF024702.2
leucine-rich repeat domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_020879378.1
GO:0016787 - hydrolase activity [Evidence IEA]
isochorismatase family cysteine hydrolase
COORDINATES: similar to AA sequence:RefSeq:WP_008564146.1
COORDINATES: similar to AA sequence:RefSeq:WP_003362415.1
GO:0004803 - transposase activity [Evidence IEA]
COORDINATES: protein motif:HMM:NF040570.1
RNA-guided endonuclease TnpB family protein
COORDINATES: protein motif:HMM:NF024676.2
GO:0003676 - nucleic acid binding [Evidence IEA]
COORDINATES: protein motif:HMM:NF021631.2
nucleotidyltransferase domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_015298345.1
COORDINATES: protein motif:HMM:NF015210.2
COORDINATES: similar to AA sequence:RefSeq:WP_076611162.1
COORDINATES: similar to AA sequence:RefSeq:WP_005832925.1
COORDINATES: similar to AA sequence:RefSeq:WP_006848437.1
COORDINATES: protein motif:HMM:NF025869.2
COORDINATES: protein motif:HMM:NF037735.2
COORDINATES: similar to AA sequence:RefSeq:WP_006848438.1
COORDINATES: similar to AA sequence:RefSeq:WP_006847178.1
COORDINATES: similar to AA sequence:RefSeq:WP_013065176.1
COORDINATES: similar to AA sequence:RefSeq:WP_013064419.1
COORDINATES: similar to AA sequence:RefSeq:WP_004356852.1
COORDINATES: similar to AA sequence:RefSeq:WP_018709872.1
COORDINATES: protein motif:HMM:NF022151.2
COORDINATES: similar to AA sequence:RefSeq:WP_004295681.1
COORDINATES: similar to AA sequence:RefSeq:WP_004295682.1
GO:1990814 - DNA/DNA annealing activity [Evidence IEA]
GO:0009294 - DNA-mediated transformation [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_012055686.1
COORDINATES: protein motif:HMM:NF037510.2
GO:0005524 - ATP binding [Evidence IEA]; GO:0004386 - helicase activity [Evidence IEA]; GO:0003676 - nucleic acid binding [Evidence IEA]
COORDINATES: protein motif:HMM:NF017539.2
COORDINATES: protein motif:HMM:NF022633.2
COORDINATES: protein motif:HMM:NF012789.2
COORDINATES: protein motif:HMM:NF022840.2
COORDINATES: protein motif:HMM:NF024573.2
COORDINATES: protein motif:HMM:NF019310.2
GO:0022857 - transmembrane transporter activity [Evidence IEA]
GO:0055085 - transmembrane transport [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_006045502.1
COORDINATES: similar to AA sequence:RefSeq:WP_007855533.1
Qat anti-phage system QueC-like protein QatC
COORDINATES: similar to AA sequence:RefSeq:WP_007833407.1
COORDINATES: similar to AA sequence:RefSeq:WP_005646236.1
COORDINATES: similar to AA sequence:RefSeq:WP_016276365.1
GO:0004360 - glutamine-fructose-6-phosphate transaminase (isomerizing) activity [Evidence IEA]
GO:0006040 - amino sugar metabolic process [Evidence IEA]; GO:0009252 - peptidoglycan biosynthetic process [Evidence IEA]
glutamine--fructose-6-phosphate transaminase (isomerizing)
COORDINATES: protein motif:HMM:NF026257.2
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_007216540.1
COORDINATES: protein motif:HMM:NF013970.2
type II toxin-antitoxin system VapC family toxin
helicase associated domain-containing protein
COORDINATES: protein motif:HMM:NF017885.2
COORDINATES: similar to AA sequence:RefSeq:WP_010537680.1
DegT/DnrJ/EryC1/StrS family aminotransferase
COORDINATES: similar to AA sequence:RefSeq:WP_005638271.1
COORDINATES: protein motif:HMM:NF012744.2
COORDINATES: protein motif:HMM:NF024831.2
COORDINATES: similar to AA sequence:RefSeq:WP_009750592.1
COORDINATES: similar to AA sequence:RefSeq:WP_086254410.1
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: similar to AA sequence:RefSeq:WP_005638275.1
GO:0016740 - transferase activity [Evidence IEA]
GO:0006486 - protein glycosylation [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_009128297.1
COORDINATES: similar to AA sequence:RefSeq:WP_009018251.1
COORDINATES: protein motif:HMM:TIGR00492.1
GO:0008784 - alanine racemase activity [Evidence IEA]
GO:0009252 - peptidoglycan biosynthetic process [Evidence IEA]
COORDINATES: protein motif:HMM:NF014571.2
GO:0046353 - aminoglycoside 3-N-acetyltransferase activity [Evidence IEA]
GO:0046677 - response to antibiotic [Evidence IEA]
COORDINATES: protein motif:HMM:NF012759.2
GO:0000036 - acyl carrier activity [Evidence IEA]
GO:0006633 - fatty acid biosynthetic process [Evidence IEA]
COORDINATES: protein motif:HMM:NF012711.2
amino acid adenylation domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_005923038.1
COORDINATES: protein motif:HMM:NF021616.2
COORDINATES: protein motif:HMM:NF024832.2
COORDINATES: protein motif:HMM:TIGR04370.1
GO:0008755 - O antigen polymerase activity [Evidence IEA]
COORDINATES: protein motif:HMM:NF016357.2
GO:0047355 - CDP-glycerol glycerophosphotransferase activity [Evidence IEA]
CDP-glycerol glycerophosphotransferase family protein
COORDINATES: similar to AA sequence:RefSeq:WP_004291143.1
COORDINATES: similar to AA sequence:RefSeq:WP_007843286.1
GO:0033980 - phosphonopyruvate decarboxylase activity [Evidence IEA]
GO:0017000 - antibiotic biosynthetic process [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_003510783.1
GO:0050188 - phosphoenolpyruvate mutase activity [Evidence IEA]
GO:0019634 - organic phosphonate metabolic process [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_008772576.1
COORDINATES: similar to AA sequence:RefSeq:WP_005813273.1
COORDINATES: similar to AA sequence:RefSeq:WP_012056197.1
GO:0003824 - catalytic activity [Evidence IEA]
NAD-dependent epimerase/dehydratase family protein
COORDINATES: similar to AA sequence:RefSeq:WP_004317917.1
GO:0016853 - isomerase activity [Evidence IEA]; GO:0008761 - UDP-N-acetylglucosamine 2-epimerase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_004325733.1
GO:0051287 - NAD binding [Evidence IEA]; GO:0016616 - oxidoreductase activity, acting on the CH-OH group of donors, NAD or NADP as acceptor [Evidence IEA]; GO:0003979 - UDP-glucose 6-dehydrogenase activity [Evidence IEA]
GO:0000271 - polysaccharide biosynthetic process [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_005858744.1
nucleoside-diphosphate sugar epimerase/dehydratase
COORDINATES: similar to AA sequence:RefSeq:WP_006848986.1
COORDINATES: similar to AA sequence:RefSeq:WP_006848656.1
COORDINATES: similar to AA sequence:RefSeq:WP_006848657.1
COORDINATES: similar to AA sequence:RefSeq:WP_006849555.1
COORDINATES: similar to AA sequence:RefSeq:WP_007837524.1
GO:0008745 - N-acetylmuramoyl-L-alanine amidase activity [Evidence IEA]
GO:0009253 - peptidoglycan catabolic process [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_007216172.1
COORDINATES: protein motif:HMM:NF024787.2
HNH endonuclease domain-containing protein
COORDINATES: protein motif:HMM:TIGR00608.1
COORDINATES: similar to AA sequence:RefSeq:WP_004345305.1
GO:0003697 - single-stranded DNA binding [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_006848425.1
COORDINATES: similar to AA sequence:RefSeq:WP_007833401.1
type II toxin-antitoxin system HipA family toxin
COORDINATES: similar to AA sequence:RefSeq:WP_007833400.1
helix-turn-helix transcriptional regulator
COORDINATES: similar to AA sequence:RefSeq:WP_006848714.1
COORDINATES: similar to AA sequence:RefSeq:WP_007411832.1
COORDINATES: protein motif:HMM:NF013793.2
COORDINATES: protein motif:HMM:NF013235.2
GO:0003887 - DNA-directed DNA polymerase activity [Evidence IEA]
GO:0006270 - DNA replication initiation [Evidence IEA]
COORDINATES: protein motif:HMM:NF013753.2