Segatella copri DSM 18205 strain FDAARGOS_1573 plasmid unnamed2, 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\nCP085934.1.\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_006848056.1
GO:0004803 - transposase activity [Evidence IEA]
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_006848499.1
COORDINATES: similar to AA sequence:RefSeq:WP_006848498.1
COORDINATES: similar to AA sequence:RefSeq:WP_006848655.1
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_007837526.1
COORDINATES: similar to AA sequence:RefSeq:WP_006847513.1
GO:0008745 - N-acetylmuramoyl-L-alanine amidase activity [Evidence IEA]
GO:0009253 - peptidoglycan catabolic process [Evidence IEA]
COORDINATES: protein motif:HMM:NF016876.2
GO:0008657 - DNA topoisomerase type II (double strand cut, ATP-hydrolyzing) inhibitor activity [Evidence IEA]; GO:0042803 - protein homodimerization activity [Evidence IEA]
GO:0030541 - plasmid partitioning [Evidence IEA]; GO:0051290 - protein heterotetramerization [Evidence IEA]
type II toxin-antitoxin system RelE/ParE family toxin
COORDINATES: protein motif:HMM:NF014417.2
GO:0006355 - regulation of DNA-templated transcription [Evidence IEA]
transcription termination/antitermination NusG family protein
COORDINATES: nucleotide motif:Rfam:14.4:RF00001
Derived by automated computational analysis using gene prediction method: cmsearch.
COORDINATES: nucleotide motif:Rfam:14.4:RF02541
COORDINATES: nucleotide motif:Rfam:14.4:RF00177
COORDINATES: similar to AA sequence:RefSeq:WP_008759824.1
COORDINATES: similar to AA sequence:RefSeq:WP_015546476.1
GO:0005283 - amino acid:sodium symporter activity [Evidence IEA]; GO:0015293 - symporter activity [Evidence IEA]
GO:0006865 - amino acid transport [Evidence IEA]; GO:0006814 - sodium ion transport [Evidence IEA]
alanine/glycine:cation symporter family protein
COORDINATES: similar to AA sequence:RefSeq:WP_007573593.1
GO:0000286 - alanine dehydrogenase activity [Evidence IEA]
GO:0006522 - alanine metabolic process [Evidence IEA]
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]
RepB family plasmid replication initiator protein
COORDINATES: similar to AA sequence:RefSeq:WP_005680304.1
COORDINATES: similar to AA sequence:RefSeq:WP_007173461.1
GO:0016829 - lyase activity [Evidence IEA]
GO:0006520 - amino acid metabolic process [Evidence IEA]
COORDINATES: protein motif:HMM:NF013540.2
helix-turn-helix transcriptional regulator
COORDINATES: similar to AA sequence:RefSeq:WP_008779537.1
HipA N-terminal domain-containing protein
COORDINATES: protein motif:HMM:NF019421.2
COORDINATES: similar to AA sequence:RefSeq:WP_007897631.1
COORDINATES: similar to AA sequence:RefSeq:WP_009125837.1
GO:0003908 - methylated-DNA-[protein]-cysteine S-methyltransferase activity [Evidence IEA]
methylated-DNA--[protein]-cysteine S-methyltransferase
COORDINATES: similar to AA sequence:RefSeq:WP_015547661.1
COORDINATES: similar to AA sequence:RefSeq:WP_018463975.1
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_006848182.1
helix-turn-helix domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_007410986.1
COORDINATES: similar to AA sequence:RefSeq:WP_018965526.1
COORDINATES: similar to AA sequence:RefSeq:WP_008766470.1
COORDINATES: similar to AA sequence:RefSeq:WP_006849435.1
COORDINATES: protein motif:HMM:NF026257.2
COORDINATES: similar to AA sequence:RefSeq:WP_008668736.1
GO:0016757 - glycosyltransferase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_008627541.1
GO:0051539 - 4 iron, 4 sulfur cluster binding [Evidence IEA]; GO:0003824 - catalytic activity [Evidence IEA]; GO:1904047 - S-adenosyl-L-methionine binding [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_004315200.1
COORDINATES: similar to AA sequence:RefSeq:WP_006849470.1
COORDINATES: similar to AA sequence:RefSeq:WP_009039545.1
COORDINATES: protein motif:HMM:NF017416.2
GO:0003677 - DNA binding [Evidence IEA]; GO:0004803 - transposase activity [Evidence IEA]
GO:0006313 - DNA transposition [Evidence IEA]
COORDINATES: protein motif:HMM:NF013884.2
GO:0016747 - acyltransferase activity, transferring groups other than amino-acyl groups [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_005680744.1
COORDINATES: similar to AA sequence:RefSeq:WP_006847521.1
COORDINATES: similar to AA sequence:RefSeq:WP_006847520.1