Rhodococcus ruber strain C1 plasmid unnamed2, complete sequence.
Bacteria; Actinomycetota; Actinomycetes; Mycobacteriales; Nocardiaceae; Rhodococcus.
Biodegradation of phenol by a highly tolerant Rhodococcus ruber C1: Biochemical characterization and comparative genomic analysis
Submitted (22-SEP-2019) School of Chemistry and Chemical Engineering, Chongqing University of Technology, 69 Hong Guang Road, Chongqing 400054, China
REFSEQ INFORMATION: The reference sequence is identical to\nCP044213.1.\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. 3\nGenome Representation :: Full\nExpected Final Version :: Yes\nGenome Coverage :: 295.0x\nSequencing Technology :: PacBio RSII\n##Genome-Assembly-Data-END##\n\n##Genome-Annotation-Data-START##\nAnnotation Provider :: NCBI RefSeq\nAnnotation Date :: 02/22/2023 16:56:15\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) :: 5,254\nCDSs (total) :: 5,185\nGenes (coding) :: 5,121\nCDSs (with protein) :: 5,121\nGenes (RNA) :: 69\nrRNAs :: 5, 4, 4 (5S, 16S, 23S)\ncomplete rRNAs :: 5, 4, 4 (5S, 16S, 23S)\ntRNAs :: 53\nncRNAs :: 3\nPseudo Genes (total) :: 64\nCDSs (without protein) :: 64\nPseudo Genes (ambiguous residues) :: 0 of 64\nPseudo Genes (frameshifted) :: 36 of 64\nPseudo Genes (incomplete) :: 29 of 64\nPseudo Genes (internal stop) :: 4 of 64\nPseudo Genes (multiple problems) :: 5 of 64\n##Genome-Annotation-Data-END##\nCOMPLETENESS: full length.
COORDINATES: ab initio prediction:GeneMarkS-2+
Derived by automated computational analysis using gene prediction method: GeneMarkS-2+.
COORDINATES: protein motif:HMM:NF014442.2
GO:0003677 - DNA binding [Evidence IEA]; GO:0008170 - N-methyltransferase activity [Evidence IEA]
GO:0006306 - DNA methylation [Evidence IEA]
Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: protein motif:HMM:NF037202.2
type ISP restriction/modification enzyme
COORDINATES: protein motif:HMM:NF021134.2
GO:0016758 - hexosyltransferase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_008710414.1
COORDINATES: protein motif:HMM:NF017524.2
MobC family plasmid mobilization relaxosome protein
COORDINATES: protein motif:HMM:NF015397.2
relaxase/mobilization nuclease domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_006939943.1
COORDINATES: similar to AA sequence:RefSeq:WP_017871100.1
type II toxin-antitoxin system RelE/ParE family toxin
COORDINATES: similar to AA sequence:RefSeq:WP_017579412.1
helix-turn-helix transcriptional regulator
COORDINATES: similar to AA sequence:RefSeq:WP_006770465.1
COORDINATES: similar to AA sequence:RefSeq:WP_006901421.1
COORDINATES: similar to AA sequence:RefSeq:WP_006947269.1
helix-turn-helix domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_011331248.1
COORDINATES: similar to AA sequence:RefSeq:WP_013491716.1
COORDINATES: similar to AA sequence:RefSeq:WP_009479615.1
COORDINATES: similar to AA sequence:RefSeq:WP_006936887.1
GO:0003674 - molecular_function [Evidence IEA]
GO:0051301 - cell division [Evidence IEA]; GO:0009252 - peptidoglycan biosynthetic process [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_006936885.1
DUF6355 family natural product biosynthesis protein
COORDINATES: protein motif:HMM:NF014814.2
COORDINATES: similar to AA sequence:RefSeq:WP_007453701.1
incomplete; partial in the middle of a contig; missing C-terminus; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_013808646.1
COORDINATES: similar to AA sequence:RefSeq:WP_019160221.1
COORDINATES: protein motif:HMM:NF025406.2
NucA/NucB deoxyribonuclease domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_018955268.1