Hoyosella subflava DQS3-9A1 plasmid pAS9A-2, complete sequence.
Bacteria; Actinomycetota; Actinomycetes; Mycobacteriales; Hoyosellaceae; Hoyosella.
Complete genome sequence of Amycolicicoccus subflavus DQS3-9A1T, an actinomycete isolated from crude oil-polluted soil
Submitted (11-MAY-2011) Department of Energy and Resources Engineering, College of Engineering, Peking University, No.5 Yiheyuan Road, Haidian District, Beijing 100871, P. R. China
REFSEQ INFORMATION: The reference sequence is identical to\nCP002788.1.\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-Annotation-Data-START##\nAnnotation Provider :: NCBI RefSeq\nAnnotation Date :: 04/16/2023 14:44:17\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) :: 4,577\nCDSs (total) :: 4,520\nGenes (coding) :: 4,460\nCDSs (with protein) :: 4,460\nGenes (RNA) :: 57\nrRNAs :: 3, 3, 3 (5S, 16S, 23S)\ncomplete rRNAs :: 3, 3, 3 (5S, 16S, 23S)\ntRNAs :: 45\nncRNAs :: 3\nPseudo Genes (total) :: 60\nCDSs (without protein) :: 60\nPseudo Genes (ambiguous residues) :: 0 of 60\nPseudo Genes (frameshifted) :: 23 of 60\nPseudo Genes (incomplete) :: 51 of 60\nPseudo Genes (internal stop) :: 2 of 60\nPseudo Genes (multiple problems) :: 15 of 60\n##Genome-Annotation-Data-END##\nCOMPLETENESS: full length.
type strain of Amycolicicoccus subflavus
COORDINATES: similar to AA sequence:RefSeq:WP_014379194.1
GO:0004803 - transposase activity [Evidence IEA]
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_013115857.1
COORDINATES: similar to AA sequence:RefSeq:WP_003873882.1
GO:0051536 - iron-sulfur cluster binding [Evidence IEA]; GO:0046872 - metal ion binding [Evidence IEA]
frameshifted; 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: protein motif:HMM:NF019913.2
COORDINATES: similar to AA sequence:RefSeq:WP_008713913.1
GO:0000160 - phosphorelay signal transduction system [Evidence IEA]; GO:0006355 - regulation of DNA-templated transcription [Evidence IEA]
COORDINATES: protein motif:HMM:NF019350.2
GO:0000155 - phosphorelay sensor kinase activity [Evidence IEA]; GO:0046983 - protein dimerization activity [Evidence IEA]
GO:0000160 - phosphorelay signal transduction system [Evidence IEA]
COORDINATES: protein motif:HMM:NF038151.1
GO:0005524 - ATP binding [Evidence IEA]; GO:0004672 - protein kinase activity [Evidence IEA]
GO:0005975 - carbohydrate metabolic process [Evidence IEA]; GO:0006468 - protein phosphorylation [Evidence IEA]
COORDINATES: protein motif:HMM:NF022169.2
ribbon-helix-helix domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_011599367.1
COORDINATES: protein motif:HMM:NF012798.2
GO:0015074 - DNA integration [Evidence IEA]; GO:0006310 - DNA recombination [Evidence IEA]
COORDINATES: protein motif:HMM:NF024700.2
helix-turn-helix domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_011178505.1
COORDINATES: similar to AA sequence:RefSeq:WP_013798036.1
COORDINATES: similar to AA sequence:RefSeq:WP_009472480.1
COORDINATES: similar to AA sequence:RefSeq:WP_011600214.1
COORDINATES: similar to AA sequence:RefSeq:WP_019306091.1
COORDINATES: protein motif:HMM:NF013335.2
COORDINATES: protein motif:HMM:NF024949.2
helix-turn-helix transcriptional regulator
COORDINATES: similar to AA sequence:RefSeq:WP_011599405.1
COORDINATES: similar to AA sequence:RefSeq:WP_008720851.1
GO:0016787 - hydrolase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_016885088.1
COORDINATES: similar to AA sequence:RefSeq:WP_009475965.1
COORDINATES: similar to AA sequence:RefSeq:WP_019749787.1
COORDINATES: similar to AA sequence:RefSeq:WP_006553221.1
COORDINATES: similar to AA sequence:RefSeq:WP_003936287.1
COORDINATES: similar to AA sequence:RefSeq:WP_006553218.1
COORDINATES: similar to AA sequence:RefSeq:WP_011331181.1
COORDINATES: similar to AA sequence:RefSeq:WP_016885098.1
COORDINATES: similar to AA sequence:RefSeq:WP_009475891.1
COORDINATES: similar to AA sequence:RefSeq:WP_016885101.1
COORDINATES: protein motif:HMM:NF014581.2
type IV secretory system conjugative DNA transfer family protein
COORDINATES: similar to AA sequence:RefSeq:WP_006553212.1
sigma-70 family RNA polymerase sigma factor
COORDINATES: protein motif:HMM:NF041492.1
COORDINATES: similar to AA sequence:RefSeq:WP_014805431.1
COORDINATES: similar to AA sequence:RefSeq:WP_020109750.1
COORDINATES: protein motif:HMM:NF012493.2
COORDINATES: similar to AA sequence:RefSeq:WP_009475907.1
COORDINATES: similar to AA sequence:RefSeq:WP_020109886.1
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_009086077.1
COORDINATES: protein motif:HMM:NF025713.2
COORDINATES: similar to AA sequence:RefSeq:WP_006770259.1
GO:0008168 - methyltransferase activity [Evidence IEA]; GO:1904047 - S-adenosyl-L-methionine binding [Evidence IEA]
class I SAM-dependent DNA methyltransferase
COORDINATES: protein motif:HMM:NF013579.2
GO:0006304 - DNA modification [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_016893500.1
GO:0019812 - type I site-specific deoxyribonuclease complex [Evidence IEA]
GO:0009035 - type I site-specific deoxyribonuclease activity [Evidence IEA]
GO:0009307 - DNA restriction-modification system [Evidence IEA]
HsdR family type I site-specific deoxyribonuclease
COORDINATES: similar to AA sequence:RefSeq:WP_016893499.1
GO:0046872 - metal ion binding [Evidence IEA]; GO:0008237 - metallopeptidase activity [Evidence IEA]
SprT family zinc-dependent metalloprotease
COORDINATES: similar to AA sequence:RefSeq:WP_005573158.1
COORDINATES: similar to AA sequence:RefSeq:WP_006361011.1
adenylate/guanylate cyclase domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_015293394.1
GO:0110001 - toxin-antitoxin complex [Evidence IEA]
type II toxin-antitoxin system Phd/YefM family antitoxin
COORDINATES: similar to AA sequence:RefSeq:WP_013807050.1
type II toxin-antitoxin system VapC family toxin
COORDINATES: similar to AA sequence:RefSeq:WP_010981551.1
COORDINATES: similar to AA sequence:RefSeq:WP_017568656.1
COORDINATES: similar to AA sequence:RefSeq:WP_011756889.1
COORDINATES: similar to AA sequence:RefSeq:WP_005186799.1
COORDINATES: similar to AA sequence:RefSeq:WP_015619705.1
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_020522417.1
COORDINATES: similar to AA sequence:RefSeq:WP_014373943.1
COORDINATES: similar to AA sequence:RefSeq:WP_014373944.1
GO:0005524 - ATP binding [Evidence IEA]; GO:0016887 - ATP hydrolysis activity [Evidence IEA]; GO:0003677 - DNA binding [Evidence IEA]; GO:0004386 - helicase activity [Evidence IEA]