Rhizorhabdus dicambivorans strain Ndbn-20 plasmid p4, complete sequence.
Bacteria; Proteobacteria; Alphaproteobacteria; Sphingomonadales; Sphingomonadaceae; Rhizorhabdus.
A Tetrahydrofolate-Dependent Methyltransferase Catalyzing the Demethylation of Dicamba in Sphingomonas sp. Strain Ndbn-20
Submitted (17-SEP-2017) College of Life Science, Nanjing Agricultural University, Number 6 of Tongwei Road, Nanjing, Jiangsu 210000, China
REFSEQ INFORMATION: The reference sequence is identical to\nCP023453.1.\nBacteria and source DNA available from culture-collection.\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_Assembly v. SMRT Analysis 2.3.0\nExpected Final Version :: yes\nGenome Coverage :: 100.0x\nSequencing Technology :: Single Molecule, Real-Time\n##Genome-Assembly-Data-END##\n\n##Genome-Annotation-Data-START##\nAnnotation Provider :: NCBI RefSeq\nAnnotation Date :: 12/19/2022 13:40:06\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) :: 5,308\nCDSs (total) :: 5,250\nGenes (coding) :: 5,152\nCDSs (with protein) :: 5,152\nGenes (RNA) :: 58\nrRNAs :: 2, 2, 2 (5S, 16S, 23S)\ncomplete rRNAs :: 2, 2, 2 (5S, 16S, 23S)\ntRNAs :: 49\nncRNAs :: 3\nPseudo Genes (total) :: 98\nCDSs (without protein) :: 98\nPseudo Genes (ambiguous residues) :: 0 of 98\nPseudo Genes (frameshifted) :: 50 of 98\nPseudo Genes (incomplete) :: 64 of 98\nPseudo Genes (internal stop) :: 7 of 98\nPseudo Genes (multiple problems) :: 21 of 98\n##Genome-Annotation-Data-END##\nCOMPLETENESS: full length.
type strain of Rhizorhabdus dicambivorans
COORDINATES: similar to AA sequence:RefSeq:WP_013849922.1
frameshifted; 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_009823969.1
frameshifted; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_017503361.1
COORDINATES: similar to AA sequence:RefSeq:WP_007683376.1
response regulator for histidine kinase FixL; part of global network that controls expression of aerobic respiratory terminal oxidases and carbon and nitrogen metabolic enzymes; 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_008994784.1
frameshifted; 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_032490499.1
GO:0004803 - transposase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_013849885.1
COORDINATES: similar to AA sequence:RefSeq:WP_017184065.1
Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: ab initio prediction:GeneMarkS-2+
Derived by automated computational analysis using gene prediction method: GeneMarkS-2+.
COORDINATES: similar to AA sequence:RefSeq:WP_010189117.1
COORDINATES: similar to AA sequence:RefSeq:WP_015449240.1
Ti-type conjugative transfer relaxase TraA
COORDINATES: similar to AA sequence:RefSeq:WP_020817745.1
COORDINATES: similar to AA sequence:RefSeq:WP_018251320.1
COORDINATES: similar to AA sequence:RefSeq:WP_020817742.1
type IV secretory system conjugative DNA transfer family protein
COORDINATES: similar to AA sequence:RefSeq:WP_008832586.1
COORDINATES: similar to AA sequence:RefSeq:WP_013041578.1
COORDINATES: similar to AA sequence:RefSeq:WP_012554518.1
COORDINATES: similar to AA sequence:RefSeq:WP_008831324.1
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_020817758.1
GO:0004521 - endoribonuclease activity [Evidence IEA]; GO:0005515 - protein binding [Evidence IEA]
putative toxin-antitoxin system toxin component, PIN family
COORDINATES: similar to AA sequence:RefSeq:WP_020817757.1
toxin-antitoxin system HicB family antitoxin
COORDINATES: similar to AA sequence:RefSeq:WP_004213387.1
COORDINATES: similar to AA sequence:RefSeq:WP_004212934.1
GO:0015074 - DNA integration [Evidence IEA]; GO:0006310 - DNA recombination [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_013041572.1
COORDINATES: protein motif:HMM:NF012655.2
helix-turn-helix domain-containing protein
COORDINATES: protein motif:HMM:NF025605.2
TetR/AcrR family transcriptional regulator
COORDINATES: similar to AA sequence:RefSeq:WP_004618417.1
GO:0009279 - cell outer membrane [Evidence IEA]
GO:0015288 - porin activity [Evidence IEA]
efflux transporter outer membrane subunit
COORDINATES: similar to AA sequence:RefSeq:WP_019847701.1
HlyD family efflux transporter periplasmic adaptor subunit
COORDINATES: similar to AA sequence:RefSeq:WP_019847702.1
GO:0005886 - plasma membrane [Evidence IEA]
GO:0009410 - response to xenobiotic stimulus [Evidence IEA]; GO:0006855 - xenobiotic transmembrane transport [Evidence IEA]
DHA2 family efflux MFS transporter permease subunit
COORDINATES: similar to AA sequence:RefSeq:WP_013849887.1
COORDINATES: similar to AA sequence:RefSeq:WP_017501669.1
COORDINATES: protein motif:HMM:NF033527.1
COORDINATES: similar to AA sequence:RefSeq:WP_006961814.1
COORDINATES: similar to AA sequence:RefSeq:WP_011199097.1
COORDINATES: similar to AA sequence:RefSeq:WP_008994783.1
COORDINATES: similar to AA sequence:RefSeq:WP_013038680.1
COORDINATES: similar to AA sequence:RefSeq:WP_008832588.1
COORDINATES: similar to AA sequence:RefSeq:WP_004208107.1