Deinococcus gobiensis I-0 plasmid P3, complete sequence.
Bacteria; Deinococcota; Deinococci; Deinococcales; Deinococcaceae; Deinococcus.
Genome sequence and transcriptome analysis of the radioresistant bacterium Deinococcus gobiensis: insights into the extreme environmental adaptations
Submitted (06-SEP-2010) Chinese Acadamy of Agricultural Sciences, Biotechnology Research Institute, Zhongguancun South Street 12, Haidian District, Beijing 100081, PR China
REFSEQ INFORMATION: The reference sequence is identical to\nCP002194.1.\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 :: 03/12/2023 12:50:54\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) :: 4,320\nCDSs (total) :: 4,255\nGenes (coding) :: 4,193\nCDSs (with protein) :: 4,193\nGenes (RNA) :: 65\nrRNAs :: 5, 5, 5 (5S, 16S, 23S)\ncomplete rRNAs :: 5, 5, 5 (5S, 16S, 23S)\ntRNAs :: 47\nncRNAs :: 3\nPseudo Genes (total) :: 62\nCDSs (without protein) :: 62\nPseudo Genes (ambiguous residues) :: 0 of 62\nPseudo Genes (frameshifted) :: 31 of 62\nPseudo Genes (incomplete) :: 32 of 62\nPseudo Genes (internal stop) :: 14 of 62\nPseudo Genes (multiple problems) :: 13 of 62\nCRISPR Arrays :: 4\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:NF022337.2
Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_076612279.1
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_008291535.1
class I SAM-dependent DNA methyltransferase
COORDINATES: protein motif:HMM:NF013579.2
GO:0006304 - DNA modification [Evidence IEA]
COORDINATES: protein motif:HMM:NF037510.2
GO:0003677 - DNA binding [Evidence IEA]; GO:0004519 - endonuclease activity [Evidence IEA]
COORDINATES: protein motif:HMM:NF018259.2
COORDINATES: protein motif:HMM:NF017437.2
COORDINATES: similar to AA sequence:RefSeq:WP_013615395.1
Mu transposase C-terminal domain-containing protein
COORDINATES: protein motif:HMM:NF020305.2
heteromeric transposase endonuclease subunit TnsA
COORDINATES: protein motif:HMM:TIGR03741.1
COORDINATES: similar to AA sequence:RefSeq:WP_013615835.1
COORDINATES: protein motif:HMM:TIGR03737.1
COORDINATES: protein motif:HMM:TIGR03736.1
COORDINATES: protein motif:HMM:NF021637.2
COORDINATES: protein motif:HMM:NF024642.2
COORDINATES: similar to AA sequence:RefSeq:WP_010889415.1
COORDINATES: similar to AA sequence:RefSeq:WP_014686533.1
COORDINATES: similar to AA sequence:RefSeq:WP_013615864.1
COORDINATES: similar to AA sequence:RefSeq:WP_015231502.1
COORDINATES: protein motif:HMM:NF014069.2
COORDINATES: similar to AA sequence:RefSeq:WP_013177220.1
COORDINATES: protein motif:HMM:NF013440.2
COORDINATES: similar to AA sequence:RefSeq:WP_014686513.1
COORDINATES: similar to AA sequence:RefSeq:WP_013615981.1
COORDINATES: similar to AA sequence:RefSeq:WP_014686434.1
COORDINATES: similar to AA sequence:RefSeq:WP_014686721.1
COORDINATES: similar to AA sequence:RefSeq:WP_014686717.1
COORDINATES: similar to AA sequence:RefSeq:WP_014686718.1
COORDINATES: similar to AA sequence:RefSeq:WP_076612364.1
incomplete; partial in the middle of a contig; missing N-terminus; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: protein motif:HMM:NF024753.2
PQQ-binding-like beta-propeller repeat protein
COORDINATES: protein motif:HMM:NF024758.2
COORDINATES: similar to AA sequence:RefSeq:WP_014682767.1
COORDINATES: similar to AA sequence:RefSeq:WP_008125612.1
COORDINATES: similar to AA sequence:RefSeq:WP_015824188.1
COORDINATES: protein motif:HMM:NF022338.2
COORDINATES: protein motif:HMM:NF024880.2
COORDINATES: protein motif:HMM:NF016178.2
COORDINATES: similar to AA sequence:RefSeq:WP_013678335.1
GO:0004803 - transposase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_017586428.1
COORDINATES: similar to AA sequence:RefSeq:WP_014686496.1
COORDINATES: similar to AA sequence:RefSeq:WP_014686497.1
COORDINATES: protein motif:HMM:NF013508.2
GO:0018262 - isopeptide cross-linking [Evidence IEA]
isopeptide-forming domain-containing fimbrial protein
COORDINATES: protein motif:HMM:NF039430.1
effector-associated domain EAD1-containing protein
COORDINATES: protein motif:HMM:NF039772.1
GTPase-associated system all-helical protein GASH
COORDINATES: protein motif:HMM:NF040097.1
COORDINATES: protein motif:HMM:NF039436.1
COORDINATES: protein motif:HMM:NF039446.1
COORDINATES: similar to AA sequence:RefSeq:WP_014686514.1
helix-turn-helix transcriptional regulator
COORDINATES: similar to AA sequence:RefSeq:WP_017869773.1
COORDINATES: similar to AA sequence:RefSeq:WP_019009321.1
GO:0003677 - DNA binding [Evidence IEA]; GO:0000014 - single-stranded DNA endodeoxyribonuclease activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_014686386.1
COORDINATES: similar to AA sequence:RefSeq:WP_014682811.1
COORDINATES: similar to AA sequence:RefSeq:WP_014682810.1
COORDINATES: protein motif:HMM:NF014691.2
COORDINATES: protein motif:HMM:TIGR00621.2
GO:0003697 - single-stranded DNA binding [Evidence IEA]
GO:0006310 - DNA recombination [Evidence IEA]; GO:0006281 - DNA repair [Evidence IEA]; GO:0006260 - DNA replication [Evidence IEA]; GO:0006351 - DNA-templated transcription [Evidence IEA]
COORDINATES: protein motif:HMM:NF018154.2
COORDINATES: protein motif:HMM:NF025577.2
COORDINATES: protein motif:HMM:NF012993.2
GO:0006807 - nitrogen compound metabolic process [Evidence IEA]
nitrilase-related carbon-nitrogen hydrolase
COORDINATES: similar to AA sequence:RefSeq:WP_012694948.1
COORDINATES: similar to AA sequence:RefSeq:WP_013158681.1
COORDINATES: similar to AA sequence:RefSeq:WP_013555289.1
COORDINATES: protein motif:HMM:NF016994.2
GO:0046677 - response to antibiotic [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_017505630.1
COORDINATES: protein motif:HMM:NF019000.2
GO:0003690 - double-stranded DNA binding [Evidence IEA]
GO:0042262 - DNA protection [Evidence IEA]
host-nuclease inhibitor Gam family protein
COORDINATES: similar to AA sequence:RefSeq:WP_007917503.1
GO:0003677 - DNA binding [Evidence IEA]; GO:0000166 - nucleotide binding [Evidence IEA]
DNA polymerase domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_014686987.1
COORDINATES: similar to AA sequence:RefSeq:WP_019009149.1
ABC transporter substrate-binding protein
COORDINATES: protein motif:HMM:NF012442.2
COORDINATES: protein motif:HMM:TIGR00180.1
ParB/RepB/Spo0J family partition protein
COORDINATES: similar to AA sequence:RefSeq:WP_014686793.1
GO:0007059 - chromosome segregation [Evidence IEA]; GO:0000910 - cytokinesis [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_013615822.1
COORDINATES: protein motif:HMM:NF025642.2
COORDINATES: protein motif:HMM:NF012234.2
GO:0005524 - ATP binding [Evidence IEA]; GO:0016887 - ATP hydrolysis activity [Evidence IEA]
COORDINATES: protein motif:HMM:NF025141.2
COORDINATES: similar to AA sequence:RefSeq:WP_012695021.1
GO:0003677 - DNA binding [Evidence IEA]; GO:0004803 - transposase activity [Evidence IEA]
GO:0006313 - transposition, DNA-mediated [Evidence IEA]
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_076612365.1
programmed frameshift; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: protein motif:HMM:NF013700.2
COORDINATES: similar to AA sequence:RefSeq:WP_015235523.1
four-helix bundle copper-binding protein
COORDINATES: similar to AA sequence:RefSeq:WP_011525996.1
COORDINATES: similar to AA sequence:RefSeq:WP_019009413.1
GO:0042625 - ATPase-coupled ion transmembrane transporter activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_019009383.1
COORDINATES: similar to AA sequence:RefSeq:WP_011529238.1
HAMP domain-containing sensor histidine kinase
COORDINATES: similar to AA sequence:RefSeq:WP_013555478.1
COORDINATES: similar to AA sequence:RefSeq:WP_013614295.1
COORDINATES: similar to AA sequence:RefSeq:WP_014686422.1
COORDINATES: protein motif:HMM:NF013677.2
COORDINATES: protein motif:HMM:NF025063.2
GO:0015074 - DNA integration [Evidence IEA]
integrase core domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_019009343.1
COORDINATES: similar to AA sequence:RefSeq:WP_019009131.1
COORDINATES: similar to AA sequence:RefSeq:WP_019009313.1
COORDINATES: similar to AA sequence:RefSeq:WP_019008665.1
COORDINATES: similar to AA sequence:RefSeq:WP_019585767.1
COORDINATES: protein motif:HMM:NF019604.2
NAD(P)-binding domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_019009339.1
GO:0008324 - monoatomic cation transmembrane transporter activity [Evidence IEA]
GO:0006812 - monoatomic cation transport [Evidence IEA]; GO:0055085 - transmembrane transport [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_019009337.1
GO:0005886 - plasma membrane [Evidence IEA]
GO:0004190 - aspartic-type endopeptidase activity [Evidence IEA]
GO:0009306 - protein secretion [Evidence IEA]; GO:0006508 - proteolysis [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_019009336.1
GO:0050380 - undecaprenyl-diphosphatase activity [Evidence IEA]
GO:0016311 - dephosphorylation [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_019009335.1
metalloregulator ArsR/SmtB family transcription factor
COORDINATES: similar to AA sequence:RefSeq:WP_019009334.1
COORDINATES: similar to AA sequence:RefSeq:WP_019009333.1
COORDINATES: protein motif:HMM:NF040024.1
COORDINATES: protein motif:HMM:NF033540.1
COORDINATES: similar to AA sequence:RefSeq:WP_076611084.1
frameshifted; internal stop; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_013615895.1
COORDINATES: similar to AA sequence:RefSeq:WP_004915940.1
COORDINATES: similar to AA sequence:RefSeq:WP_019009329.1
COORDINATES: similar to AA sequence:RefSeq:WP_019008663.1
COORDINATES: similar to AA sequence:RefSeq:WP_012694382.1
COORDINATES: similar to AA sequence:RefSeq:WP_013615899.1
COORDINATES: similar to AA sequence:RefSeq:WP_010889330.1
COORDINATES: similar to AA sequence:RefSeq:WP_014686666.1
COORDINATES: similar to AA sequence:RefSeq:WP_014682926.1
COORDINATES: similar to AA sequence:RefSeq:WP_014682927.1
COORDINATES: similar to AA sequence:RefSeq:WP_019009363.1
COORDINATES: protein motif:HMM:NF013752.2
COORDINATES: protein motif:HMM:NF014442.2
COORDINATES: protein motif:HMM:NF012798.2
GO:0015074 - DNA integration [Evidence IEA]; GO:0006310 - DNA recombination [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_014684985.1
COORDINATES: similar to AA sequence:RefSeq:WP_014684984.1
COORDINATES: similar to AA sequence:RefSeq:WP_019008506.1
COORDINATES: protein motif:HMM:NF012422.2
GO:0006355 - regulation of DNA-templated transcription [Evidence IEA]
LuxR C-terminal-related transcriptional regulator
COORDINATES: similar to AA sequence:RefSeq:WP_009341227.1
COORDINATES: similar to AA sequence:RefSeq:WP_003605583.1
COORDINATES: similar to AA sequence:RefSeq:WP_076611297.1
COORDINATES: similar to AA sequence:RefSeq:WP_011526017.1
GO:1903425 - fluoride transmembrane transporter activity [Evidence IEA]
GO:1903424 - fluoride transmembrane transport [Evidence IEA]
COORDINATES: nucleotide motif:Rfam:14.4:RF01734
Fluoride riboswitches increase expression of downstream genes that help mitigate the toxic effects of very high levels of fluoride; They are found in a wide variety of bacteria and archaea; Derived by automated computational analysis using gene prediction method: cmsearch.
COORDINATES: similar to AA sequence:RefSeq:WP_013614122.1
internal stop; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_012694904.1
COORDINATES: similar to AA sequence:RefSeq:WP_019008504.1
COORDINATES: similar to AA sequence:RefSeq:WP_014684133.1
COORDINATES: protein motif:HMM:NF021604.2
GO:0016020 - membrane [Evidence IEA]; GO:0005886 - plasma membrane [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_019008499.1
GO:0003677 - DNA binding [Evidence IEA]; GO:0003700 - DNA-binding transcription factor activity [Evidence IEA]; GO:0016987 - sigma factor activity [Evidence IEA]
GO:0006352 - DNA-templated transcription initiation [Evidence IEA]; GO:0006355 - regulation of DNA-templated transcription [Evidence IEA]
sigma-70 family RNA polymerase sigma factor
COORDINATES: similar to AA sequence:RefSeq:WP_014684002.1
high frequency lysogenization protein HflD
COORDINATES: similar to AA sequence:RefSeq:WP_011525626.1
COORDINATES: similar to AA sequence:RefSeq:WP_027480237.1
COORDINATES: similar to AA sequence:RefSeq:WP_014686458.1
GO:0003677 - DNA binding [Evidence IEA]; GO:0003917 - DNA topoisomerase type I (single strand cut, ATP-independent) activity [Evidence IEA]
GO:0006260 - DNA replication [Evidence IEA]; GO:0006265 - DNA topological change [Evidence IEA]