Citrobacter koseri ATCC BAA-895 plasmid pCKO2, complete sequence.
Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales; Enterobacteriaceae; Citrobacter.
Submitted (29-AUG-2007) Genetics, Genome Sequencing Center, 4444 Forest Park Parkway, St. Louis, MO 63108, USA
REFSEQ INFORMATION: The reference sequence is identical to\nCP000824.1.\nCitrobacter (diversus) koseri--Citrobacter cells are isolated from\nwater, sewage, soils, and food, as well as from the feces of man\nand other animals, where they may be normal inhabitants. They can\nbe found in urine, sputum, and other clinical specimens. They can\nsometimes be opportunistic pathogens particularly in\nimmunocompromised patients in hospitals or in infants (Pepperell et\nal., Antimicrob Agents Chemother. 2002 Nov;46(11):3555-60. and\nreferences therein).\n\nThe strain of Citrobacter koseri being sequenced, strain CDC\n4225-83, was isolated in 1983 in Maryland, where it caused neonatal\nmeningitis. It was provided by Caroline Mohr and Melissa Campbell\nof CDC. The strain is available from the American Type Culture\nCollection as ATCC BAA-895 or from the Salmonella Genetic Stock\nCentre as SGSC4696. The genome was sequenced to 8X coverage, using\nplasmid and fosmid libraries and was finished to an error rate of\nless than 1 per 10,000 bases. Automated annotation was performed\nand manual annotation will continue in the labs of Michael\nMcClelland and Kenneth Sanderson. The National Institute of Allergy\nand Infectious Diseases (NIAID), National Institutes of Health\n(NIH) has funded this project.\n\nCoding sequences below are predicted using GeneMark v3.3 and\nGlimmer2 v2.13.Intergenic regions not spanned by GeneMark and\nGlimmer2 were blasted against NCBI's non-redundant (NR) database\nand predictions generated based on protein alignments. RNA genes\nwere determined usingtRNAscan-SE 1.23 or Rfam v8.0. This sequence\nwas finished as follows unless otherwise noted: all regions were\ndouble stranded, sequenced with an alternate chemistries or covered\nby high quality data (i.e., phred quality >=30); an attempt was\nmade to resolve all sequencing problems, such as compressions and\nrepeats; all regions were covered by sequence from more than one\nm13 subclone.\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-Annotation-Data-START##\nAnnotation Provider :: NCBI RefSeq\nAnnotation Date :: 04/23/2023 01:31:01\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) :: 4,417\nCDSs (total) :: 4,306\nGenes (coding) :: 4,257\nCDSs (with protein) :: 4,257\nGenes (RNA) :: 111\nrRNAs :: 8, 7, 7 (5S, 16S, 23S)\ncomplete rRNAs :: 8, 7, 7 (5S, 16S, 23S)\ntRNAs :: 82\nncRNAs :: 7\nPseudo Genes (total) :: 49\nCDSs (without protein) :: 49\nPseudo Genes (ambiguous residues) :: 0 of 49\nPseudo Genes (frameshifted) :: 24 of 49\nPseudo Genes (incomplete) :: 23 of 49\nPseudo Genes (internal stop) :: 10 of 49\nPseudo Genes (multiple problems) :: 7 of 49\nPseudo Genes (short protein) :: 1 of 49\nCRISPR Arrays :: 1\n##Genome-Annotation-Data-END##\nCOMPLETENESS: full length.
COORDINATES: similar to AA sequence:RefSeq:WP_004197757.1
Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_006122514.1
MobC family plasmid mobilization relaxosome protein
COORDINATES: protein motif:HMM:NF015397.2
incomplete; partial in the middle of a contig; missing C-terminus; Derived by automated computational analysis using gene prediction method: Protein Homology.
relaxase/mobilization nuclease domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_020325392.1
COORDINATES: similar to AA sequence:RefSeq:WP_000137423.1
MbeD family mobilization/exclusion protein
COORDINATES: similar to AA sequence:RefSeq:WP_000523570.1
COORDINATES: similar to AA sequence:RefSeq:WP_000879771.1
COORDINATES: similar to AA sequence:RefSeq:WP_000262326.1
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_004197756.1
COORDINATES: similar to AA sequence:RefSeq:WP_004197758.1
COORDINATES: similar to AA sequence:RefSeq:WP_004198370.1