Oligella ureolytica strain FDAARGOS_872 plasmid unnamed, complete sequence.
Bacteria; Pseudomonadota; Betaproteobacteria; Burkholderiales; Alcaligenaceae; Oligella.
FDA dAtabase for Regulatory Grade micrObial Sequences (FDA-ARGOS): Supporting development and validation of Infectious Disease Dx tests
Submitted (02-DEC-2020) Center for Devices and Radiological Health, US Food and Drug Administration, 10903 New Hampshire Avenue, Silver Spring, MD 20993-0002, USA
REFSEQ INFORMATION: The reference sequence is identical to\nCP065724.1.\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. 6.0.0, HGAP v. 4\nGenome Coverage :: 1000x\nSequencing Technology :: Pacbio; Illumina\n##Genome-Assembly-Data-END##\n\n##Genome-Annotation-Data-START##\nAnnotation Provider :: NCBI RefSeq\nAnnotation Date :: 12/28/2022 02:45:27\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) :: 2,724\nCDSs (total) :: 2,668\nGenes (coding) :: 2,579\nCDSs (with protein) :: 2,579\nGenes (RNA) :: 56\nrRNAs :: 3, 3, 3 (5S, 16S, 23S)\ncomplete rRNAs :: 3, 3, 3 (5S, 16S, 23S)\ntRNAs :: 43\nncRNAs :: 4\nPseudo Genes (total) :: 89\nCDSs (without protein) :: 89\nPseudo Genes (ambiguous residues) :: 0 of 89\nPseudo Genes (frameshifted) :: 35 of 89\nPseudo Genes (incomplete) :: 52 of 89\nPseudo Genes (internal stop) :: 20 of 89\nPseudo Genes (multiple problems) :: 16 of 89\nCRISPR Arrays :: 4\n##Genome-Annotation-Data-END##\nCOMPLETENESS: full length.
COORDINATES: similar to AA sequence:RefSeq:WP_015399404.1
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_004862607.1
Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_004856333.1
COORDINATES: similar to AA sequence:RefSeq:WP_019222934.1
P-type conjugative transfer protein VirB9
COORDINATES: similar to AA sequence:RefSeq:WP_011179892.1
COORDINATES: similar to AA sequence:RefSeq:WP_005866662.1
GO:0043684 - type IV secretion system complex [Evidence IEA]
GO:0044097 - secretion by the type IV secretion system [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_012632448.1
GO:0004386 - helicase activity [Evidence IEA]
GO:0006259 - DNA metabolic process [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_017158661.1
type IV secretion system DNA-binding domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_015042070.1
COORDINATES: ab initio prediction:GeneMarkS-2+
Derived by automated computational analysis using gene prediction method: GeneMarkS-2+.
COORDINATES: similar to AA sequence:RefSeq:WP_017154898.1
COORDINATES: similar to AA sequence:RefSeq:WP_008891390.1
catalyzes the conversion of glucosamine-6-phosphate to glucosamine-1-phosphate; 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_001043260.1
sulfonamide-resistant dihydropteroate synthase Sul2
COORDINATES: similar to AA sequence:RefSeq:WP_076611501.1
GO:0004803 - transposase activity [Evidence IEA]
frameshifted; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_015728305.1
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_009459754.1
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_009459746.1
COORDINATES: protein motif:HMM:NF027824.2
COORDINATES: protein motif:HMM:NF006039.0
GO:0003697 - single-stranded DNA binding [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_011544391.1
COORDINATES: similar to AA sequence:RefSeq:WP_011655457.1
zincin-like metallopeptidase domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_012196451.1
COORDINATES: protein motif:HMM:NF023168.2
COORDINATES: similar to AA sequence:RefSeq:WP_002804303.1
COORDINATES: similar to AA sequence:RefSeq:WP_011630685.1
COORDINATES: similar to AA sequence:RefSeq:WP_017154883.1
COORDINATES: similar to AA sequence:RefSeq:WP_019223238.1
GO:0003677 - DNA binding [Evidence IEA]; GO:0000150 - DNA strand exchange activity [Evidence IEA]
GO:0006310 - DNA recombination [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_004862646.1
COORDINATES: similar to AA sequence:RefSeq:WP_008343651.1
COORDINATES: similar to AA sequence:RefSeq:WP_006925973.1
lytic transglycosylase domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_007346482.1
COORDINATES: similar to AA sequence:RefSeq:WP_011179882.1
VirB2 family type IV secretion system major pilin TrwL
COORDINATES: similar to AA sequence:RefSeq:WP_019222928.1
VirB3 family type IV secretion system protein
COORDINATES: similar to AA sequence:RefSeq:WP_015398574.1
VirB4 family type IV secretion/conjugal transfer ATPase
COORDINATES: similar to AA sequence:RefSeq:WP_015042067.1
COORDINATES: similar to AA sequence:RefSeq:WP_015042068.1