Gordonia rubripertincta strain SD5 plasmid pGRS1, complete sequence.
Bacteria; Actinomycetota; Actinomycetes; Mycobacteriales; Gordoniaceae; Gordonia.
Complete genome sequence of Gordonia rubripertincta SD5
Submitted (29-JUL-2020) Microbial Research Department, Nakdonggang National Institute of Biological Resources, 137, Donam 2-Gil, Sangju, Gyeongsangbuk-Do 37242, South Korea
REFSEQ INFORMATION: The reference sequence is identical to\nCP059695.1.\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 :: FALCON v. v2.1.4\nGenome Representation :: Full\nExpected Final Version :: Yes\nGenome Coverage :: 177.0x\nSequencing Technology :: Illumina HiSeq; PacBio RSII\n##Genome-Assembly-Data-END##\n\n##Genome-Annotation-Data-START##\nAnnotation Provider :: NCBI RefSeq\nAnnotation Date :: 04/28/2023 11:03:56\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) :: 4,891\nCDSs (total) :: 4,828\nGenes (coding) :: 4,775\nCDSs (with protein) :: 4,775\nGenes (RNA) :: 63\nrRNAs :: 4, 4, 4 (5S, 16S, 23S)\ncomplete rRNAs :: 4, 4, 4 (5S, 16S, 23S)\ntRNAs :: 48\nncRNAs :: 3\nPseudo Genes (total) :: 53\nCDSs (without protein) :: 53\nPseudo Genes (ambiguous residues) :: 0 of 53\nPseudo Genes (frameshifted) :: 25 of 53\nPseudo Genes (incomplete) :: 28 of 53\nPseudo Genes (internal stop) :: 5 of 53\nPseudo Genes (multiple problems) :: 5 of 53\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: similar to AA sequence:RefSeq:WP_014928772.1
Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_011161105.1
COORDINATES: similar to AA sequence:RefSeq:WP_003887303.1
GO:0004803 - transposase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_006329169.1
COORDINATES: protein motif:HMM:NF017885.2
COORDINATES: similar to AA sequence:RefSeq:WP_076611192.1
programmed frameshift; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_006329161.1
helix-turn-helix domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_005564120.1
helix-turn-helix transcriptional regulator
COORDINATES: protein motif:HMM:NF013265.2
GO:0016787 - hydrolase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_014928868.1
COORDINATES: similar to AA sequence:RefSeq:WP_014928845.1
COORDINATES: similar to AA sequence:RefSeq:WP_014928876.1
COORDINATES: similar to AA sequence:RefSeq:WP_012836522.1
COORDINATES: similar to AA sequence:RefSeq:WP_014928879.1
TraM recognition domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_014928880.1
COORDINATES: similar to AA sequence:RefSeq:WP_014928882.1
GO:0005524 - ATP binding [Evidence IEA]; GO:0003677 - DNA binding [Evidence IEA]; GO:0016787 - hydrolase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_020171069.1
COORDINATES: similar to AA sequence:RefSeq:WP_014926787.1
PLD nuclease N-terminal domain-containing protein
COORDINATES: protein motif:HMM:NF017393.2
COORDINATES: similar to AA sequence:RefSeq:WP_005199737.1
COORDINATES: similar to AA sequence:RefSeq:WP_012836515.1
COORDINATES: similar to AA sequence:RefSeq:WP_012836514.1
COORDINATES: similar to AA sequence:RefSeq:WP_014928894.1
COORDINATES: similar to AA sequence:RefSeq:WP_014928896.1
COORDINATES: similar to AA sequence:RefSeq:WP_014928897.1
COORDINATES: protein motif:HMM:NF012974.2
GO:0005524 - ATP binding [Evidence IEA]; GO:0003678 - DNA helicase activity [Evidence IEA]
GO:0006260 - DNA replication [Evidence IEA]
DnaB-like helicase N-terminal domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_006435923.1
GO:0003677 - DNA binding [Evidence IEA]; GO:0003700 - DNA-binding transcription factor activity [Evidence IEA]
GO:0006355 - regulation of DNA-templated transcription [Evidence IEA]
metalloregulator ArsR/SmtB family transcription factor
COORDINATES: similar to AA sequence:RefSeq:WP_006435924.1
GO:0008490 - arsenite secondary active transmembrane transporter activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_012687286.1
GO:0030612 - arsenate reductase (thioredoxin) activity [Evidence IEA]
frameshifted; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_014928482.1
COORDINATES: similar to AA sequence:RefSeq:WP_006338241.1
low molecular weight phosphatase family protein
COORDINATES: similar to AA sequence:RefSeq:WP_006435927.1
ArsI/CadI family heavy metal resistance metalloenzyme
COORDINATES: similar to AA sequence:RefSeq:WP_006551768.1
Rv2640c family ArsR-like transcriptional regulator
COORDINATES: similar to AA sequence:RefSeq:WP_006357307.1
COORDINATES: similar to AA sequence:RefSeq:WP_016432237.1
GO:0015074 - DNA integration [Evidence IEA]; GO:0006310 - DNA recombination [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_010842717.1
incomplete; partial in the middle of a contig; missing N-terminus and C-terminus; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_020500973.1
COORDINATES: similar to AA sequence:RefSeq:WP_010227554.1
COORDINATES: similar to AA sequence:RefSeq:WP_007622773.1
COORDINATES: similar to AA sequence:RefSeq:WP_006901460.1
COORDINATES: similar to AA sequence:RefSeq:WP_019972002.1
COORDINATES: similar to AA sequence:RefSeq:WP_012402750.1
GO:0003677 - DNA binding [Evidence IEA]; GO:0008170 - N-methyltransferase activity [Evidence IEA]
GO:0006306 - DNA methylation [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_007171692.1
GO:0000150 - DNA strand exchange activity [Evidence IEA]
GO:0006310 - DNA recombination [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_020173126.1
COORDINATES: similar to AA sequence:RefSeq:WP_020173131.1
GO:0005524 - ATP binding [Evidence IEA]; GO:0003677 - DNA binding [Evidence IEA]; GO:0000166 - nucleotide binding [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_020173132.1
COORDINATES: protein motif:HMM:NF014430.2
GO:0003677 - DNA binding [Evidence IEA]; GO:0004803 - transposase activity [Evidence IEA]
GO:0006313 - transposition, DNA-mediated [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_020173147.1
COORDINATES: similar to AA sequence:RefSeq:WP_011562066.1
GO:0051287 - NAD binding [Evidence IEA]; GO:0016491 - oxidoreductase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_008642583.1
GO:0016746 - acyltransferase activity [Evidence IEA]
GO:0006635 - fatty acid beta-oxidation [Evidence IEA]
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_018178626.1
TetR/AcrR family transcriptional regulator
COORDINATES: protein motif:HMM:NF024867.2
COORDINATES: protein motif:HMM:NF024685.2
COORDINATES: similar to AA sequence:RefSeq:WP_076611217.1
COORDINATES: protein motif:HMM:NF024945.2
COORDINATES: similar to AA sequence:RefSeq:WP_019891231.1
GO:0022857 - transmembrane transporter activity [Evidence IEA]
GO:0055085 - transmembrane transport [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_013006314.1
COORDINATES: similar to AA sequence:RefSeq:WP_003942916.1
COORDINATES: similar to AA sequence:RefSeq:WP_018269644.1
SDR family NAD(P)-dependent oxidoreductase
COORDINATES: similar to AA sequence:RefSeq:WP_014349344.1
GO:0016627 - oxidoreductase activity, acting on the CH-CH group of donors [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_006897086.1
COORDINATES: similar to AA sequence:RefSeq:WP_006897085.1
COORDINATES: similar to AA sequence:RefSeq:WP_008382193.1
GO:0008410 - CoA-transferase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_006897083.1
COORDINATES: similar to AA sequence:RefSeq:WP_008382195.1
COORDINATES: similar to AA sequence:RefSeq:WP_008382197.1
GO:0003824 - catalytic activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_006897080.1
COORDINATES: similar to AA sequence:RefSeq:WP_006898348.1
MaoC/PaaZ C-terminal domain-containing protein
COORDINATES: protein motif:HMM:NF012798.2
COORDINATES: similar to AA sequence:RefSeq:WP_006897076.1
COORDINATES: similar to AA sequence:RefSeq:WP_013599799.1
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_006897073.1
IclR family transcriptional regulator C-terminal domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_006897072.1
GO:0003700 - DNA-binding transcription factor activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_020674403.1
GO:0016491 - oxidoreductase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_013076269.1
aromatic ring-hydroxylating dioxygenase subunit alpha
COORDINATES: similar to AA sequence:RefSeq:WP_006897069.1
GO:0019439 - aromatic compound catabolic process [Evidence IEA]; GO:0006725 - cellular aromatic compound metabolic process [Evidence IEA]
aromatic-ring-hydroxylating dioxygenase subunit beta
COORDINATES: similar to AA sequence:RefSeq:WP_007574654.1
COORDINATES: protein motif:HMM:NF024109.2
COORDINATES: similar to AA sequence:RefSeq:WP_006897066.1
COORDINATES: similar to AA sequence:RefSeq:WP_006897065.1
COORDINATES: similar to AA sequence:RefSeq:WP_006897064.1
COORDINATES: similar to AA sequence:RefSeq:WP_013350597.1
leucine zipper domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_017835819.1
COORDINATES: similar to AA sequence:RefSeq:WP_016895393.1
COORDINATES: similar to AA sequence:RefSeq:WP_016644843.1
polysaccharide deacetylase family protein
COORDINATES: similar to AA sequence:RefSeq:WP_017834456.1
COORDINATES: similar to AA sequence:RefSeq:WP_013603009.1
COORDINATES: similar to AA sequence:RefSeq:WP_020171244.1
COORDINATES: similar to AA sequence:RefSeq:WP_006897059.1
COORDINATES: similar to AA sequence:RefSeq:WP_006897058.1
aromatic-ring-hydroxylating dioxygenase subunit alpha
COORDINATES: similar to AA sequence:RefSeq:WP_006897057.1
GO:0008695 - 3-phenylpropionate dioxygenase activity [Evidence IEA]
GO:0019380 - 3-phenylpropionate catabolic process [Evidence IEA]
3-phenylpropionate/cinnamic acid dioxygenase subunit beta
COORDINATES: similar to AA sequence:RefSeq:WP_006897056.1
COORDINATES: similar to AA sequence:RefSeq:WP_006897055.1
GO:0051539 - 4 iron, 4 sulfur cluster binding [Evidence IEA]; GO:0009055 - electron transfer activity [Evidence IEA]; GO:0005506 - iron ion binding [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_006897054.1
GO:0000166 - nucleotide binding [Evidence IEA]; GO:0016491 - oxidoreductase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_006897053.1
class II aldolase/adducin family protein
COORDINATES: similar to AA sequence:RefSeq:WP_006897052.1
COORDINATES: similar to AA sequence:RefSeq:WP_076612351.1
COORDINATES: protein motif:HMM:NF019310.2
COORDINATES: similar to AA sequence:RefSeq:WP_006898357.1
COORDINATES: similar to AA sequence:RefSeq:WP_006898356.1
GO:0018578 - protocatechuate 3,4-dioxygenase activity [Evidence IEA]
GO:0046278 - 3,4-dihydroxybenzoate metabolic process [Evidence IEA]
protocatechuate 3,4-dioxygenase subunit beta
COORDINATES: similar to AA sequence:RefSeq:WP_006898355.1
protocatechuate 3,4-dioxygenase subunit alpha
COORDINATES: similar to AA sequence:RefSeq:WP_016895385.1
COORDINATES: similar to AA sequence:RefSeq:WP_016895384.1
GO:0047575 - 4-carboxymuconolactone decarboxylase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_020171242.1
GO:0003677 - DNA binding [Evidence IEA]; GO:0000150 - DNA strand exchange activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_010148261.1
GO:0015103 - inorganic anion transmembrane transporter activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_007631522.1
COORDINATES: similar to AA sequence:RefSeq:WP_002857200.1
COORDINATES: similar to AA sequence:RefSeq:WP_003939267.1
Mu transposase C-terminal domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_007633164.1
COORDINATES: similar to AA sequence:RefSeq:WP_019044393.1
COORDINATES: similar to AA sequence:RefSeq:WP_017835874.1
COORDINATES: similar to AA sequence:RefSeq:WP_003410139.1