Citrobacter rodentium NBRC 105723 = DSM 16636 plasmid pCRTS, complete sequence.
Citrobacter rodentium NBRC 105723 = DSM 16636
Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales; Enterobacteriaceae; Citrobacter.
Complete genome of Citrobacter rodentium DSM16636
Submitted (31-AUG-2021) ZIEL; Core Facility Microbiome, TUM, Weihenstephaner Berg 3, Freising 85354, Germany
REFSEQ INFORMATION: The reference sequence is identical to\nCP082834.1.\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 Date :: 29-MAY-2021\nAssembly Method :: Flye v. 2.8.3-b1695\nGenome Representation :: Full\nExpected Final Version :: Yes\nGenome Coverage :: 82.0x\nSequencing Technology :: PacBio\n##Genome-Assembly-Data-END##\n\n##Genome-Annotation-Data-START##\nAnnotation Provider :: NCBI RefSeq\nAnnotation Date :: 03/25/2023 05:38:05\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) :: 5,157\nCDSs (total) :: 5,042\nGenes (coding) :: 4,797\nCDSs (with protein) :: 4,797\nGenes (RNA) :: 115\nrRNAs :: 8, 7, 7 (5S, 16S, 23S)\ncomplete rRNAs :: 8, 7, 7 (5S, 16S, 23S)\ntRNAs :: 85\nncRNAs :: 8\nPseudo Genes (total) :: 245\nCDSs (without protein) :: 245\nPseudo Genes (ambiguous residues) :: 0 of 245\nPseudo Genes (frameshifted) :: 119 of 245\nPseudo Genes (incomplete) :: 136 of 245\nPseudo Genes (internal stop) :: 65 of 245\nPseudo Genes (multiple problems) :: 64 of 245\nPseudo Genes (short protein) :: 1 of 245\nCRISPR Arrays :: 1\n##Genome-Annotation-Data-END##\nCOMPLETENESS: full length.
COORDINATES: similar to AA sequence:RefSeq:WP_000121741.1
Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_001694627.1
type II toxin-antitoxin system RelE/ParE family toxin
COORDINATES: similar to AA sequence:RefSeq:WP_000127484.1
frameshifted; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_001025391.1
COORDINATES: similar to AA sequence:RefSeq:WP_001401654.1
COORDINATES: similar to AA sequence:RefSeq:WP_001565860.1
COORDINATES: similar to AA sequence:RefSeq:WP_000801440.1
COORDINATES: similar to AA sequence:RefSeq:WP_000673428.1
COORDINATES: similar to AA sequence:RefSeq:WP_000854261.1
COORDINATES: similar to AA sequence:RefSeq:WP_005653200.1
type II toxin-antitoxin system HicA family toxin
COORDINATES: similar to AA sequence:RefSeq:WP_000681609.1
type II toxin-antitoxin system HicB family antitoxin
COORDINATES: similar to AA sequence:RefSeq:WP_000781813.1
COORDINATES: similar to AA sequence:RefSeq:WP_001329504.1
COORDINATES: similar to AA sequence:RefSeq:WP_000160396.1
COORDINATES: similar to AA sequence:RefSeq:WP_000121161.1
COORDINATES: similar to AA sequence:RefSeq:WP_012908959.1
lytic transglycosylase domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_000008644.1
COORDINATES: similar to AA sequence:RefSeq:WP_016231857.1
VirB4 family type IV secretion/conjugal transfer ATPase
COORDINATES: protein motif:HMM:NF019608.2
COORDINATES: similar to AA sequence:RefSeq:WP_076611102.1
GO:0004803 - transposase activity [Evidence IEA]
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_000007790.1
GO:0030255 - protein secretion by the type IV secretion system [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_001290765.1
COORDINATES: similar to AA sequence:RefSeq:WP_001299943.1
P-type conjugative transfer protein VirB9
COORDINATES: similar to AA sequence:RefSeq:WP_016231855.1
VirB10/TraB/TrbI family type IV secretion system protein
COORDINATES: similar to AA sequence:RefSeq:WP_001401678.1
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_000847106.1
COORDINATES: similar to AA sequence:RefSeq:WP_001353737.1
cag pathogenicity island Cag12 family protein
COORDINATES: similar to AA sequence:RefSeq:WP_001350475.1
TrbM/KikA/MpfK family conjugal transfer protein
COORDINATES: similar to AA sequence:RefSeq:WP_000869132.1
COORDINATES: similar to AA sequence:RefSeq:WP_000803714.1
COORDINATES: similar to AA sequence:RefSeq:WP_000005456.1
COORDINATES: similar to AA sequence:RefSeq:WP_001576897.1
COORDINATES: similar to AA sequence:RefSeq:WP_000698400.1
COORDINATES: similar to AA sequence:RefSeq:WP_001565871.1
COORDINATES: similar to AA sequence:RefSeq:WP_001330833.1
COORDINATES: similar to AA sequence:RefSeq:WP_012908955.1
COORDINATES: similar to AA sequence:RefSeq:WP_016247728.1
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_000850858.1
COORDINATES: similar to AA sequence:RefSeq:WP_001293133.1
GO:0006355 - regulation of DNA-templated transcription [Evidence IEA]
H-NS family nucleoid-associated regulatory protein
COORDINATES: similar to AA sequence:RefSeq:WP_001478769.1
COORDINATES: ab initio prediction:GeneMarkS-2+
Derived by automated computational analysis using gene prediction method: GeneMarkS-2+.
COORDINATES: similar to AA sequence:RefSeq:WP_000163247.1
COORDINATES: similar to AA sequence:RefSeq:WP_000190057.1
COORDINATES: similar to AA sequence:RefSeq:WP_001487124.1
GO:0015074 - DNA integration [Evidence IEA]; GO:0006310 - DNA recombination [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_000516228.1
COORDINATES: similar to AA sequence:RefSeq:WP_001096506.1
COORDINATES: similar to AA sequence:RefSeq:WP_001482241.1
COORDINATES: similar to AA sequence:RefSeq:WP_001473365.1
COORDINATES: similar to AA sequence:RefSeq:WP_012421203.1
COORDINATES: similar to AA sequence:RefSeq:WP_000243325.1