Burkholderia ambifaria strain FDAARGOS_1027 plasmid unnamed.
Bacteria; Pseudomonadota; Betaproteobacteria; Burkholderiales; Burkholderiaceae; Burkholderia; Burkholderia cepacia complex.
FDA dAtabase for Regulatory Grade micrObial Sequences (FDA-ARGOS): Supporting development and validation of Infectious Disease Dx tests
Submitted (08-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\nCP066039.1.\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. 8.0.0, HGAP v. 4\nGenome Coverage :: 1102.72x\nSequencing Technology :: Pacbio; Illumina\n##Genome-Assembly-Data-END##\n\n##Genome-Annotation-Data-START##\nAnnotation Provider :: NCBI RefSeq\nAnnotation Date :: 12/19/2022 15:43:22\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) :: 6,764\nCDSs (total) :: 6,673\nGenes (coding) :: 6,598\nCDSs (with protein) :: 6,598\nGenes (RNA) :: 91\nrRNAs :: 6, 6, 6 (5S, 16S, 23S)\ncomplete rRNAs :: 6, 6, 6 (5S, 16S, 23S)\ntRNAs :: 69\nncRNAs :: 4\nPseudo Genes (total) :: 75\nCDSs (without protein) :: 75\nPseudo Genes (ambiguous residues) :: 0 of 75\nPseudo Genes (frameshifted) :: 29 of 75\nPseudo Genes (incomplete) :: 67 of 75\nPseudo Genes (internal stop) :: 8 of 75\nPseudo Genes (multiple problems) :: 26 of 75\n##Genome-Annotation-Data-END##
COORDINATES: similar to AA sequence:RefSeq:WP_011137971.1
Derived by automated computational analysis using gene prediction method: Protein Homology.
TraI/MobA(P) family conjugative relaxase
COORDINATES: similar to AA sequence:RefSeq:WP_011655356.1
type IV secretory system conjugative DNA transfer family protein
COORDINATES: similar to AA sequence:RefSeq:WP_000086826.1
GO:0030288 - outer membrane-bounded periplasmic space [Evidence IEA]
GO:0008233 - peptidase activity [Evidence IEA]
conjugative transfer signal peptidase TraF
COORDINATES: similar to AA sequence:RefSeq:WP_011114056.1
COORDINATES: similar to AA sequence:RefSeq:WP_006122510.1
COORDINATES: similar to AA sequence:RefSeq:WP_006122509.1
zincin-like metallopeptidase domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_086558120.1
GO:0004803 - transposase activity [Evidence IEA]
incomplete; partial in the middle of a contig; missing C-terminus; Derived by automated computational analysis using gene prediction method: Protein Homology.
Tn3-like element IS1071 family transposase
COORDINATES: ab initio prediction:GeneMarkS-2+
Derived by automated computational analysis using gene prediction method: GeneMarkS-2+.
COORDINATES: similar to AA sequence:RefSeq:WP_001665065.1
COORDINATES: similar to AA sequence:RefSeq:WP_011798696.1
COORDINATES: similar to AA sequence:RefSeq:WP_011798697.1
COORDINATES: similar to AA sequence:RefSeq:WP_011798698.1
transglycosylase SLT domain-containing protein
probable role in the formation of the mating lock (cell-cell contact between donor and recipient) during conjugation on the basis that TrbM shows homology to Haemophilus influenzae adhesin and has an export signal sequence
COORDINATES: similar to AA sequence:RefSeq:WP_010890138.1
TrbM/KikA/MpfK family conjugal transfer protein
COORDINATES: similar to AA sequence:RefSeq:WP_011114051.1
GO:0009291 - unidirectional conjugation [Evidence IEA]
P-type conjugative transfer protein TrbL
COORDINATES: similar to AA sequence:RefSeq:WP_000644148.1
GO:0005886 - plasma membrane [Evidence IEA]
GO:0009292 - horizontal gene transfer [Evidence IEA]
mating pair formation and entry exclusion
COORDINATES: similar to AA sequence:RefSeq:WP_000802794.1
P-type conjugative transfer protein TrbJ
COORDINATES: similar to AA sequence:RefSeq:WP_011114050.1
COORDINATES: similar to AA sequence:RefSeq:WP_011798704.1
COORDINATES: similar to AA sequence:RefSeq:WP_000753228.1
P-type conjugative transfer protein TrbG
COORDINATES: similar to AA sequence:RefSeq:WP_006122481.1
COORDINATES: similar to AA sequence:RefSeq:WP_011013264.1
VirB4 family type IV secretion/conjugal transfer ATPase
COORDINATES: similar to AA sequence:RefSeq:WP_010676131.1
COORDINATES: similar to AA sequence:RefSeq:WP_011114046.1
COORDINATES: similar to AA sequence:RefSeq:WP_000132020.1
COORDINATES: similar to AA sequence:RefSeq:WP_000283041.1
COORDINATES: similar to AA sequence:RefSeq:WP_000019167.1
COORDINATES: similar to AA sequence:RefSeq:WP_011114072.1
COORDINATES: similar to AA sequence:RefSeq:WP_011117139.1
type II toxin-antitoxin system RelE/ParE family toxin
COORDINATES: similar to AA sequence:RefSeq:WP_012207631.1
type II toxin-antitoxin system ParD family antitoxin
COORDINATES: similar to AA sequence:RefSeq:WP_011137973.1
COORDINATES: similar to AA sequence:RefSeq:WP_011114068.1
COORDINATES: similar to AA sequence:RefSeq:WP_011117141.1
COORDINATES: similar to AA sequence:RefSeq:WP_015913627.1
COORDINATES: similar to AA sequence:RefSeq:WP_010890114.1
COORDINATES: similar to AA sequence:RefSeq:WP_012478184.1
COORDINATES: similar to AA sequence:RefSeq:WP_010890112.1
COORDINATES: similar to AA sequence:RefSeq:WP_010890110.1
COORDINATES: similar to AA sequence:RefSeq:WP_011114061.1
DNA binding protein involved in transcriptional regulation
COORDINATES: similar to AA sequence:RefSeq:WP_010890108.1
GO:0007059 - chromosome segregation [Evidence IEA]; GO:0000910 - cytokinesis [Evidence IEA]
ParB/RepB/Spo0J family partition protein