Citrobacter amalonaticus strain FDAARGOS_165 plasmid unnamed.
Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales; Enterobacteriaceae; Citrobacter.
FDA dAtabase for Regulatory Grade micrObial Sequences (FDA-ARGOS): Supporting development and validation of Infectious Disease Dx tests
Submitted (26-JAN-2018) Center for Devices and Radiological Health, US Food and Drug Administration, US Food and Drug Administration, 10903 New Hampshire Avenue, Silver Spring, MD 20993-0002, USA
Submitted (14-DEC-2015) Institute for Genome Sciences, University of Maryland, 801 W.Baltimore Street, Baltimore, MD 21201, USA
REFSEQ INFORMATION: The reference sequence is identical to\nCP014069.2.\n\nOn Feb 15, 2018 this sequence version replaced NZ_CP014069.1.\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 :: HGAP3 v. Oct 2014\nGenome Coverage :: 19.345x\nSequencing Technology :: Pacbio; Illumina\n##Genome-Assembly-Data-END##\n\n##Genome-Annotation-Data-START##\nAnnotation Provider :: NCBI RefSeq\nAnnotation Date :: 02/06/2023 08:14:26\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) :: 4,884\nCDSs (total) :: 4,765\nGenes (coding) :: 4,695\nCDSs (with protein) :: 4,695\nGenes (RNA) :: 119\nrRNAs :: 8, 7, 7 (5S, 16S, 23S)\ncomplete rRNAs :: 8, 7, 7 (5S, 16S, 23S)\ntRNAs :: 89\nncRNAs :: 8\nPseudo Genes (total) :: 70\nCDSs (without protein) :: 70\nPseudo Genes (ambiguous residues) :: 0 of 70\nPseudo Genes (frameshifted) :: 28 of 70\nPseudo Genes (incomplete) :: 46 of 70\nPseudo Genes (internal stop) :: 15 of 70\nPseudo Genes (multiple problems) :: 18 of 70\nPseudo Genes (short protein) :: 1 of 70\n##Genome-Annotation-Data-END##
COORDINATES: similar to AA sequence:RefSeq:NP_418750.2
frameshifted; Derived by automated computational analysis using gene prediction method: Protein Homology.
nucleoside recognition domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:NP_463372.1
Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:NP_463371.1
GO:0008798 - beta-aspartyl-peptidase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:NP_463370.1
hypochlorite stress DNA-binding transcriptional regulator HypT
COORDINATES: similar to AA sequence:RefSeq:NP_463369.1
GO:0047689 - aspartate racemase activity [Evidence IEA]
GO:0006520 - amino acid metabolic process [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:YP_005221000.1
GO:0004803 - transposase activity [Evidence IEA]
IS6-like element IS26 family transposase
COORDINATES: similar to AA sequence:RefSeq:WP_001556711.1
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_000422420.1
COORDINATES: similar to AA sequence:RefSeq:WP_004152092.1
incomplete; partial in the middle of a contig; missing C-terminus; Derived by automated computational analysis using gene prediction method: Protein Homology.
helix-turn-helix domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_001549892.1
COORDINATES: similar to AA sequence:RefSeq:WP_000343760.1
ISL3-like element ISKox3 family transposase
COORDINATES: similar to AA sequence:RefSeq:WP_001549893.1
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_000516401.1
COORDINATES: similar to AA sequence:RefSeq:WP_001371664.1
COORDINATES: similar to AA sequence:RefSeq:WP_000469598.1
COORDINATES: similar to AA sequence:RefSeq:WP_001043731.1
COORDINATES: similar to AA sequence:RefSeq:WP_000202950.1
COORDINATES: similar to AA sequence:RefSeq:WP_016247723.1
COORDINATES: similar to AA sequence:RefSeq:WP_001549902.1
COORDINATES: ab initio prediction:GeneMarkS-2+
Derived by automated computational analysis using gene prediction method: GeneMarkS-2+.
COORDINATES: similar to AA sequence:RefSeq:WP_001025391.1
COORDINATES: similar to AA sequence:RefSeq:WP_006122499.1
COORDINATES: similar to AA sequence:RefSeq:WP_001549906.1
COORDINATES: similar to AA sequence:RefSeq:WP_001446884.1
COORDINATES: similar to AA sequence:RefSeq:WP_000008707.1
COORDINATES: similar to AA sequence:RefSeq:WP_001549908.1
COORDINATES: similar to AA sequence:RefSeq:WP_000004083.1
COORDINATES: similar to AA sequence:RefSeq:WP_001549910.1
COORDINATES: similar to AA sequence:RefSeq:WP_000757693.1
COORDINATES: similar to AA sequence:RefSeq:WP_001549912.1
COORDINATES: similar to AA sequence:RefSeq:WP_000455437.1
GO:0006355 - regulation of DNA-templated transcription [Evidence IEA]
transcription termination/antitermination NusG family protein
COORDINATES: similar to AA sequence:RefSeq:WP_001549915.1
lytic transglycosylase domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_000916156.1
COORDINATES: similar to AA sequence:RefSeq:WP_016247738.1
VirB3 family type IV secretion system protein
COORDINATES: similar to AA sequence:RefSeq:WP_001549917.1
COORDINATES: similar to AA sequence:RefSeq:WP_000759841.1
COORDINATES: similar to AA sequence:RefSeq:WP_001549919.1
COORDINATES: similar to AA sequence:RefSeq:WP_004199085.1
COORDINATES: similar to AA sequence:RefSeq:WP_000783379.1
TrbG/VirB9 family P-type conjugative transfer protein
COORDINATES: similar to AA sequence:RefSeq:WP_001295060.1
VirB10/TraB/TrbI family type IV secretion system protein
COORDINATES: similar to AA sequence:RefSeq:WP_001549925.1
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_000053816.1
type IV secretory system conjugative DNA transfer family protein
COORDINATES: similar to AA sequence:RefSeq:WP_000738524.1
cag pathogenicity island Cag12 family protein
COORDINATES: similar to AA sequence:RefSeq:WP_000754496.1
TrbM/KikA/MpfK family conjugal transfer protein
COORDINATES: similar to AA sequence:RefSeq:WP_004208538.1
COORDINATES: similar to AA sequence:RefSeq:WP_001215543.1
COORDINATES: similar to AA sequence:RefSeq:WP_001505436.1
COORDINATES: similar to AA sequence:RefSeq:WP_000280693.1
COORDINATES: similar to AA sequence:RefSeq:WP_001549937.1
GO:0003677 - DNA binding [Evidence IEA]; GO:0003916 - DNA topoisomerase activity [Evidence IEA]
GO:0006265 - DNA topological change [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_001549938.1
H-NS family nucleoid-associated regulatory protein
COORDINATES: similar to AA sequence:RefSeq:WP_004242661.1
COORDINATES: similar to AA sequence:RefSeq:WP_000136657.1
COORDINATES: similar to AA sequence:RefSeq:WP_000196235.1
COORDINATES: similar to AA sequence:RefSeq:WP_000510385.1
COORDINATES: similar to AA sequence:RefSeq:WP_000557557.1
COORDINATES: similar to AA sequence:RefSeq:WP_001093608.1
COORDINATES: similar to AA sequence:RefSeq:WP_000609149.1
COORDINATES: similar to AA sequence:RefSeq:YP_005229637.1
IS110-like element IS4321 family transposase
COORDINATES: similar to AA sequence:RefSeq:WP_001389365.1
IS6-like element IS6100 family transposase
COORDINATES: similar to AA sequence:RefSeq:WP_001137892.1
macrolide-binding transcriptional repressor MphR(A)
COORDINATES: similar to AA sequence:RefSeq:WP_000004159.1
macrolide resistance MFS transporter Mrx(A)
COORDINATES: similar to AA sequence:RefSeq:WP_000219391.1
Mph(A) family macrolide 2'-phosphotransferase
COORDINATES: similar to AA sequence:RefSeq:YP_005221001.1
COORDINATES: similar to AA sequence:RefSeq:WP_076611787.1