Comamonas fluminis strain CJ34 plasmid unnamed, complete sequence.
Bacteria; Pseudomonadota; Betaproteobacteria; Burkholderiales; Comamonadaceae; Comamonas.
Comamonas sp. nov., isolated from the Han River, South Korea
Submitted (22-DEC-2020) Systems Biotechnology, Chung-Ang University, Seodong-daero, Anseong 17546, South Korea
REFSEQ INFORMATION: The reference sequence is identical to\nCP066782.1.\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 :: HGAP v. 2\nAssembly Name :: PacBio SMRT Analysis 2.3.0\nGenome Representation :: Full\nExpected Final Version :: Yes\nGenome Coverage :: 137.6x\nSequencing Technology :: PacBio RSII\n##Genome-Assembly-Data-END##\n\n##Genome-Annotation-Data-START##\nAnnotation Provider :: NCBI RefSeq\nAnnotation Date :: 05/07/2023 05:46:37\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) :: 4,507\nCDSs (total) :: 4,387\nGenes (coding) :: 4,354\nCDSs (with protein) :: 4,354\nGenes (RNA) :: 120\nrRNAs :: 7, 7, 7 (5S, 16S, 23S)\ncomplete rRNAs :: 7, 7, 7 (5S, 16S, 23S)\ntRNAs :: 96\nncRNAs :: 3\nPseudo Genes (total) :: 33\nCDSs (without protein) :: 33\nPseudo Genes (ambiguous residues) :: 0 of 33\nPseudo Genes (frameshifted) :: 11 of 33\nPseudo Genes (incomplete) :: 26 of 33\nPseudo Genes (internal stop) :: 3 of 33\nPseudo Genes (multiple problems) :: 6 of 33\nCRISPR Arrays :: 1\n##Genome-Annotation-Data-END##\nCOMPLETENESS: full length.
COORDINATES: similar to AA sequence:RefSeq:WP_012443749.1
Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_013124610.1
type II toxin-antitoxin system YafQ family toxin
COORDINATES: similar to AA sequence:RefSeq:WP_017452571.1
GO:0006355 - regulation of DNA-templated transcription [Evidence IEA]
type II toxin-antitoxin system RelB/DinJ family antitoxin
COORDINATES: similar to AA sequence:RefSeq:WP_018413493.1
GO:0008408 - 3'-5' exonuclease activity [Evidence IEA]; GO:0003676 - nucleic acid binding [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_013124613.1
GO:0016787 - hydrolase activity [Evidence IEA]
GO:0008152 - metabolic process [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_018413495.1
COORDINATES: similar to AA sequence:RefSeq:WP_013124615.1
COORDINATES: similar to AA sequence:RefSeq:WP_005918230.1
COORDINATES: similar to AA sequence:RefSeq:WP_005918229.1
COORDINATES: similar to AA sequence:RefSeq:WP_018413498.1
ParC family partition-associated protein
COORDINATES: similar to AA sequence:RefSeq:WP_011052942.1
COORDINATES: similar to AA sequence:RefSeq:WP_013124620.1
COORDINATES: similar to AA sequence:RefSeq:WP_013124621.1
COORDINATES: similar to AA sequence:RefSeq:WP_008328818.1
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_009205128.1
prepilin-type N-terminal cleavage/methylation domain-containing protein
COORDINATES: protein motif:HMM:NF019575.2
COORDINATES: ab initio prediction:GeneMarkS-2+
Derived by automated computational analysis using gene prediction method: GeneMarkS-2+.
COORDINATES: protein motif:HMM:NF027400.2
GO:0043683 - type IV pilus assembly [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_012836935.1
GO:0005524 - ATP binding [Evidence IEA]; GO:0016773 - phosphotransferase activity, alcohol group as acceptor [Evidence IEA]
GO:0006040 - amino sugar metabolic process [Evidence IEA]; GO:0009254 - peptidoglycan turnover [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_009873359.1
COORDINATES: similar to AA sequence:RefSeq:WP_018413461.1
COORDINATES: similar to AA sequence:RefSeq:WP_009873357.1
COORDINATES: similar to AA sequence:RefSeq:WP_014003869.1
COORDINATES: protein motif:HMM:NF028103.2
TraI/MobA(P) family conjugative relaxase
COORDINATES: similar to AA sequence:RefSeq:WP_013124593.1
COORDINATES: similar to AA sequence:RefSeq:WP_013124600.1
DDE-type integrase/transposase/recombinase
COORDINATES: similar to AA sequence:RefSeq:WP_003155746.1
COORDINATES: similar to AA sequence:RefSeq:WP_011517528.1
COORDINATES: similar to AA sequence:RefSeq:WP_000904941.1
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_005303902.1
GO:0033573 - high-affinity iron permease complex [Evidence IEA]; GO:0016020 - membrane [Evidence IEA]
GO:0005381 - iron ion transmembrane transporter activity [Evidence IEA]
GO:0034755 - iron ion transmembrane transport [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_076611236.1
COORDINATES: protein motif:HMM:NF033517.1
COORDINATES: similar to AA sequence:RefSeq:WP_086558120.1
Tn3-like element IS1071 family transposase
COORDINATES: protein motif:HMM:NF023168.2
COORDINATES: protein motif:HMM:NF012798.2
GO:0015074 - DNA integration [Evidence IEA]; GO:0006310 - DNA recombination [Evidence IEA]
COORDINATES: protein motif:HMM:NF020704.2
COORDINATES: similar to AA sequence:RefSeq:WP_009242029.1
COORDINATES: similar to AA sequence:RefSeq:WP_019574726.1
COORDINATES: protein motif:HMM:NF014074.2
GO:0008236 - serine-type peptidase activity [Evidence IEA]
COORDINATES: protein motif:HMM:NF014273.2
ParB N-terminal domain-containing protein
COORDINATES: protein motif:HMM:NF037161.2
GO:0000166 - nucleotide binding [Evidence IEA]
GO:0030541 - plasmid partitioning [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_076612094.1
programmed frameshift; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: protein motif:HMM:NF037202.2
type ISP restriction/modification enzyme