Citrobacter pasteurii strain FDAARGOS 1424 plasmid unnamed2, complete sequence.
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 (17-JUN-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\nCP077263.1.\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, SPAdes v.\n 3.14.1\nGenome Coverage :: 977.80x\nSequencing Technology :: Pacbio; Illumina\n##Genome-Assembly-Data-END##\n\n##Genome-Annotation-Data-START##\nAnnotation Provider :: NCBI RefSeq\nAnnotation Date :: 05/07/2023 05:35:33\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) :: 4,870\nCDSs (total) :: 4,753\nGenes (coding) :: 4,646\nCDSs (with protein) :: 4,646\nGenes (RNA) :: 117\nrRNAs :: 9, 8, 8 (5S, 16S, 23S)\ncomplete rRNAs :: 9, 8, 8 (5S, 16S, 23S)\ntRNAs :: 84\nncRNAs :: 8\nPseudo Genes (total) :: 107\nCDSs (without protein) :: 107\nPseudo Genes (ambiguous residues) :: 0 of 107\nPseudo Genes (frameshifted) :: 35 of 107\nPseudo Genes (incomplete) :: 75 of 107\nPseudo Genes (internal stop) :: 23 of 107\nPseudo Genes (multiple problems) :: 23 of 107\nPseudo Genes (short protein) :: 1 of 107\n##Genome-Annotation-Data-END##\nCOMPLETENESS: full length.
COORDINATES: similar to AA sequence:RefSeq:WP_001699973.1
Derived by automated computational analysis using gene prediction method: Protein Homology.
type II secretion system F family protein
COORDINATES: similar to AA sequence:RefSeq:WP_000908226.1
COORDINATES: similar to AA sequence:RefSeq:WP_000012998.1
lytic transglycosylase domain-containing protein
COORDINATES: protein motif:HMM:NF013632.2
GO:0004190 - aspartic-type endopeptidase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_024132209.1
shufflon system plasmid conjugative transfer pilus tip adhesin PilV
COORDINATES: ab initio prediction:GeneMarkS-2+
Derived by automated computational analysis using gene prediction method: GeneMarkS-2+.
COORDINATES: similar to AA sequence:RefSeq:WP_000488652.1
GO:0015074 - DNA integration [Evidence IEA]; GO:0006310 - DNA recombination [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_003557916.1
COORDINATES: similar to AA sequence:RefSeq:WP_001755100.1
Members of this family include DotD of type IVB secretion systems and TraH of plasmid conjugative plasmid systems, both lipoproteins; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_000646094.1
type IV secretory system conjugative DNA transfer family protein
COORDINATES: similar to AA sequence:RefSeq:WP_001597012.1
COORDINATES: similar to AA sequence:RefSeq:WP_001542523.1
COORDINATES: similar to AA sequence:RefSeq:WP_000842452.1
incomplete; partial in the middle of a contig; missing C-terminus; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: protein motif:HMM:NF037421.2
COORDINATES: similar to AA sequence:RefSeq:WP_001623695.1
COORDINATES: similar to AA sequence:RefSeq:WP_000138553.1
COORDINATES: similar to AA sequence:RefSeq:WP_001611718.1
DotH/IcmK family type IV secretion protein
COORDINATES: similar to AA sequence:RefSeq:WP_001272006.1
COORDINATES: protein motif:HMM:NF033885.1
COORDINATES: similar to AA sequence:RefSeq:WP_001090608.1
COORDINATES: similar to AA sequence:RefSeq:WP_001135922.1
COORDINATES: similar to AA sequence:RefSeq:WP_001024755.1
COORDINATES: similar to AA sequence:RefSeq:WP_000286860.1
COORDINATES: similar to AA sequence:RefSeq:WP_001542514.1
COORDINATES: protein motif:HMM:NF033887.1
COORDINATES: similar to AA sequence:RefSeq:WP_001470938.1
COORDINATES: protein motif:HMM:NF033891.1
plasmid IncI1-type surface exclusion protein ExcA
COORDINATES: similar to AA sequence:RefSeq:WP_001303305.1
COORDINATES: similar to AA sequence:RefSeq:WP_001289278.1
F-type conjugative transfer protein TrbC
COORDINATES: protein motif:HMM:NF025323.2
type II toxin-antitoxin system YafO family toxin
COORDINATES: similar to AA sequence:RefSeq:WP_001611995.1
relaxase/mobilization nuclease domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_001281049.1
GO:0006355 - regulation of DNA-templated transcription [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_015873526.1
COORDINATES: similar to AA sequence:RefSeq:WP_000113358.1
COORDINATES: protein motif:HMM:NF039307.1
COORDINATES: similar to AA sequence:RefSeq:WP_000148350.1
helix-turn-helix transcriptional regulator
COORDINATES: similar to AA sequence:RefSeq:WP_017900696.1
COORDINATES: similar to AA sequence:RefSeq:WP_004131746.1
COORDINATES: similar to AA sequence:RefSeq:WP_000080850.1
GO:0003677 - DNA binding [Evidence IEA]; GO:0008170 - N-methyltransferase activity [Evidence IEA]
GO:0006306 - DNA methylation [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_004152749.1
COORDINATES: similar to AA sequence:RefSeq:NP_052660.1
type I toxin-antitoxin system Hok family toxin
COORDINATES: protein motif:HMM:NF036604.2
COORDINATES: similar to AA sequence:RefSeq:WP_016589766.1
COORDINATES: similar to AA sequence:RefSeq:WP_000613062.1
COORDINATES: protein motif:HMM:NF010255.1
COORDINATES: similar to AA sequence:RefSeq:WP_001485380.1
ParB/RepB/Spo0J family partition protein
COORDINATES: similar to AA sequence:RefSeq:WP_001750289.1
COORDINATES: similar to AA sequence:RefSeq:WP_013578318.1
COORDINATES: similar to AA sequence:RefSeq:WP_000108571.1
COORDINATES: similar to AA sequence:RefSeq:NP_490546.1
COORDINATES: similar to AA sequence:RefSeq:WP_008455414.1
translesion error-prone DNA polymerase V autoproteolytic subunit
COORDINATES: similar to AA sequence:RefSeq:WP_000457545.1
COORDINATES: similar to AA sequence:RefSeq:WP_001555635.1
plasmid partitioning/stability family protein
COORDINATES: similar to AA sequence:RefSeq:WP_001505082.1
COORDINATES: similar to AA sequence:RefSeq:WP_004144461.1
COORDINATES: similar to AA sequence:RefSeq:WP_016495516.1
COORDINATES: similar to AA sequence:RefSeq:WP_006122464.1
COORDINATES: similar to AA sequence:RefSeq:WP_000201194.1
type II toxin-antitoxin system RelB/DinJ family antitoxin
COORDINATES: similar to AA sequence:RefSeq:WP_001486567.1
COORDINATES: similar to AA sequence:RefSeq:WP_001486568.1
COORDINATES: similar to AA sequence:RefSeq:WP_000493378.1
COORDINATES: similar to AA sequence:RefSeq:WP_000952219.1
COORDINATES: similar to AA sequence:RefSeq:WP_000273844.1
COORDINATES: similar to AA sequence:RefSeq:WP_015387217.1
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: similar to AA sequence:RefSeq:WP_003915633.1
GO:0051983 - regulation of chromosome segregation [Evidence IEA]
type II toxin-antitoxin system ParD family antitoxin
COORDINATES: similar to AA sequence:RefSeq:WP_020316922.1
COORDINATES: similar to AA sequence:RefSeq:WP_004180198.1
COORDINATES: similar to AA sequence:RefSeq:WP_001495930.1
COORDINATES: similar to AA sequence:RefSeq:WP_001057990.1
GO:0008408 - 3'-5' exonuclease activity [Evidence IEA]; GO:0003677 - DNA binding [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_008322250.1
COORDINATES: protein motif:HMM:NF013080.2
COORDINATES: similar to AA sequence:RefSeq:WP_016487646.1
GO:0016747 - acyltransferase activity, transferring groups other than amino-acyl groups [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_001675606.1
type II toxin-antitoxin system Phd/YefM family antitoxin
COORDINATES: similar to AA sequence:RefSeq:WP_001303319.1
transcription termination/antitermination NusG family protein
COORDINATES: similar to AA sequence:RefSeq:WP_000906149.1
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: protein motif:HMM:NF022136.2
toxin co-regulated pilus biosynthesis Q family protein
COORDINATES: similar to AA sequence:RefSeq:WP_001744073.1
COORDINATES: similar to AA sequence:RefSeq:WP_001744074.1
GO:0019867 - outer membrane [Evidence IEA]
GO:0009297 - pilus assembly [Evidence IEA]; GO:0009306 - protein secretion [Evidence IEA]
PilN family type IVB pilus formation outer membrane protein
COORDINATES: protein motif:HMM:NF018562.2
COORDINATES: similar to AA sequence:RefSeq:WP_003552541.1
GO:0009297 - pilus assembly [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_000362204.1