Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539 strain ATCC 13939 plasmid pMP1, complete sequence.
Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539
Bacteria; Deinococcota; Deinococci; Deinococcales; Deinococcaceae; Deinococcus.
Landscape of structural changes in the genome of Deinococcus radiodurans recA mutants
Submitted (02-APR-2019) Division of Molecular Biology, Ruder Boskovic Institute, Bijenicka cesta 54, Zagreb 10000, Croatia
REFSEQ INFORMATION: The reference sequence is identical to\nCP038665.1.\nBacteria and source DNA available from Molecular Microbiology\nLaboratory, Ruder Boskovic Institute.\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 Date :: 2016\nAssembly Method :: Canu v. 2016\nGenome Representation :: Full\nExpected Final Version :: Yes\nGenome Coverage :: 373.0x\nSequencing Technology :: PacBio RSII\n##Genome-Assembly-Data-END##\n\n##Genome-Annotation-Data-START##\nAnnotation Provider :: NCBI RefSeq\nAnnotation Date :: 03/09/2023 03:06:06\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) :: 3,202\nCDSs (total) :: 3,140\nGenes (coding) :: 3,112\nCDSs (with protein) :: 3,112\nGenes (RNA) :: 62\nrRNAs :: 3, 3, 3 (5S, 16S, 23S)\ncomplete rRNAs :: 3, 3, 3 (5S, 16S, 23S)\ntRNAs :: 50\nncRNAs :: 3\nPseudo Genes (total) :: 28\nCDSs (without protein) :: 28\nPseudo Genes (ambiguous residues) :: 0 of 28\nPseudo Genes (frameshifted) :: 7 of 28\nPseudo Genes (incomplete) :: 19 of 28\nPseudo Genes (internal stop) :: 2 of 28\n##Genome-Annotation-Data-END##\nCOMPLETENESS: full length.
COORDINATES: similar to AA sequence:RefSeq:WP_014695817.1
Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_010884026.1
GO:0007059 - chromosome segregation [Evidence IEA]; GO:0000910 - cytokinesis [Evidence IEA]
ParB/RepB/Spo0J family partition protein
COORDINATES: ab initio prediction:GeneMarkS-2+
Derived by automated computational analysis using gene prediction method: GeneMarkS-2+.
COORDINATES: similar to AA sequence:RefSeq:WP_010886790.1
IS4-like element ISDra1 family transposase
COORDINATES: similar to AA sequence:RefSeq:WP_014695407.1
ABC transporter substrate-binding protein
COORDINATES: similar to AA sequence:RefSeq:WP_014695406.1
GO:0008817 - corrinoid adenosyltransferase activity [Evidence IEA]
GO:0009236 - cobalamin biosynthetic process [Evidence IEA]
cob(I)yrinic acid a,c-diamide adenosyltransferase
COORDINATES: similar to AA sequence:RefSeq:WP_012695310.1
GO:0042242 - cobyrinic acid a,c-diamide synthase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_011525704.1
GO:0016880 - acid-ammonia (or amide) ligase activity [Evidence IEA]
adenosylcobinamide-phosphate synthase CbiB
COORDINATES: similar to AA sequence:RefSeq:WP_013557242.1
COORDINATES: similar to AA sequence:RefSeq:WP_014695787.1
GO:0003824 - catalytic activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_015231661.1
COORDINATES: protein motif:HMM:TIGR01439.1
AbrB/MazE/SpoVT family DNA-binding domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_017869436.1
hemin ABC transporter substrate-binding protein
COORDINATES: similar to AA sequence:RefSeq:WP_017869435.1
COORDINATES: similar to AA sequence:RefSeq:WP_010883994.1
heme ABC transporter ATP-binding protein
COORDINATES: similar to AA sequence:RefSeq:WP_013555469.1
COORDINATES: similar to AA sequence:RefSeq:WP_076611356.1
IS4-like element ISDra7 family transposase
COORDINATES: protein motif:HMM:NF033516.0
GO:0004803 - transposase activity [Evidence IEA]
COORDINATES: protein motif:HMM:NF013677.2
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_014685531.1
COORDINATES: similar to AA sequence:RefSeq:WP_005666382.1
COORDINATES: similar to AA sequence:RefSeq:WP_013790737.1
COORDINATES: similar to AA sequence:RefSeq:WP_018409414.1
COORDINATES: protein motif:HMM:NF018884.2
GO:0016791 - phosphatase activity [Evidence IEA]
COORDINATES: protein motif:HMM:NF014567.2
COORDINATES: protein motif:HMM:NF012301.2
COORDINATES: protein motif:HMM:TIGR00180.1
COORDINATES: similar to AA sequence:RefSeq:WP_019011614.1
type II toxin-antitoxin system prevent-host-death family antitoxin
COORDINATES: protein motif:HMM:NF012946.2
GO:0016787 - hydrolase activity [Evidence IEA]
alpha/beta hydrolase fold domain-containing protein
COORDINATES: protein motif:HMM:TIGR00254.1
COORDINATES: similar to AA sequence:RefSeq:WP_017679874.1
internal stop; Derived by automated computational analysis using gene prediction method: Protein Homology.
SDR family NAD(P)-dependent oxidoreductase
COORDINATES: similar to AA sequence:RefSeq:WP_011529457.1
COORDINATES: similar to AA sequence:RefSeq:WP_010884047.1
COORDINATES: protein motif:HMM:NF012706.2
COORDINATES: similar to AA sequence:RefSeq:WP_015236601.1
COORDINATES: similar to AA sequence:RefSeq:WP_011526082.1
sensor domain-containing diguanylate cyclase
COORDINATES: similar to AA sequence:RefSeq:WP_014683995.1
COORDINATES: similar to AA sequence:RefSeq:WP_014683994.1
COORDINATES: similar to AA sequence:RefSeq:WP_014683993.1
ATP-binding cassette domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_014683992.1
COORDINATES: similar to AA sequence:RefSeq:WP_006903497.1
GO:0047324 - phosphoenolpyruvate-glycerone phosphotransferase activity [Evidence IEA]
dihydroxyacetone kinase phosphoryl donor subunit DhaM
COORDINATES: similar to AA sequence:RefSeq:WP_013496050.1
GO:0004371 - glycerone kinase activity [Evidence IEA]
GO:0006071 - glycerol metabolic process [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_013496051.1
COORDINATES: similar to AA sequence:RefSeq:WP_076612364.1
programmed frameshift; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_010884008.1
COORDINATES: protein motif:HMM:NF012565.2
COORDINATES: protein motif:HMM:NF023695.2
COORDINATES: similar to AA sequence:RefSeq:WP_014683628.1
COORDINATES: similar to AA sequence:RefSeq:WP_017869162.1
ExeM/NucH family extracellular endonuclease
COORDINATES: protein motif:HMM:NF037015.2
COORDINATES: similar to AA sequence:RefSeq:WP_019586498.1
COORDINATES: similar to AA sequence:RefSeq:WP_011389232.1
COORDINATES: similar to AA sequence:RefSeq:WP_017869164.1
COORDINATES: protein motif:HMM:NF013646.2
COORDINATES: similar to AA sequence:RefSeq:WP_014686039.1
GO:0022877 - protein-N(PI)-phosphohistidine-fructose phosphotransferase system transporter activity [Evidence IEA]
GO:0009401 - phosphoenolpyruvate-dependent sugar phosphotransferase system [Evidence IEA]
PTS fructose-like transporter subunit IIB
COORDINATES: similar to AA sequence:RefSeq:WP_011531293.1
GO:0008662 - 1-phosphofructokinase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_017870734.1
GO:0008965 - phosphoenolpyruvate-protein phosphotransferase activity [Evidence IEA]
GO:0009401 - phosphoenolpyruvate-dependent sugar phosphotransferase system [Evidence IEA]; GO:0006808 - regulation of nitrogen utilization [Evidence IEA]
phosphoenolpyruvate--protein phosphotransferase
COORDINATES: similar to AA sequence:RefSeq:WP_011531291.1
DeoR/GlpR family DNA-binding transcription regulator
COORDINATES: similar to AA sequence:RefSeq:WP_016329766.1
GO:0008080 - N-acetyltransferase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_014629472.1
COORDINATES: similar to AA sequence:RefSeq:WP_012692243.1
GO:0016836 - hydro-lyase activity [Evidence IEA]
GO:0009234 - menaquinone biosynthetic process [Evidence IEA]
COORDINATES: protein motif:HMM:NF013530.2
COORDINATES: similar to AA sequence:RefSeq:WP_010883952.1
COORDINATES: similar to AA sequence:RefSeq:WP_017870646.1
HAMP domain-containing sensor histidine kinase
COORDINATES: similar to AA sequence:RefSeq:WP_010883953.1
GO:0031004 - potassium ion-transporting ATPase complex [Evidence IEA]
GO:0008556 - P-type potassium transmembrane transporter activity [Evidence IEA]
GO:0006813 - potassium ion transport [Evidence IEA]
potassium-transporting ATPase subunit KdpB
COORDINATES: similar to AA sequence:RefSeq:WP_010883954.1
potassium-transporting ATPase subunit KdpA
COORDINATES: similar to AA sequence:RefSeq:WP_010883955.1
potassium-transporting ATPase subunit KdpC
COORDINATES: similar to AA sequence:RefSeq:WP_017870638.1
COORDINATES: similar to AA sequence:RefSeq:WP_014683676.1
COORDINATES: similar to AA sequence:RefSeq:WP_010883957.1
two-component system response regulator RadR
COORDINATES: similar to AA sequence:RefSeq:WP_010883958.1
two-component system sensor histidine kinase RadS
COORDINATES: similar to AA sequence:RefSeq:WP_010883959.1
COORDINATES: similar to AA sequence:RefSeq:WP_014685650.1
COORDINATES: similar to AA sequence:RefSeq:WP_013558404.1
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_012852250.1
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_020705935.1
COORDINATES: protein motif:HMM:NF025052.2
COORDINATES: similar to AA sequence:RefSeq:WP_007417300.1
COORDINATES: similar to AA sequence:RefSeq:WP_019586920.1
COORDINATES: similar to AA sequence:RefSeq:WP_020180434.1
COORDINATES: similar to AA sequence:RefSeq:WP_018074380.1
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_019012216.1
GO:0015074 - DNA integration [Evidence IEA]; GO:0006310 - DNA recombination [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_013703650.1
COORDINATES: similar to AA sequence:RefSeq:WP_010883964.1
GO:0009263 - deoxyribonucleotide biosynthetic process [Evidence IEA]
class Ib ribonucleoside-diphosphate reductase assembly flavoprotein NrdI
COORDINATES: similar to AA sequence:RefSeq:WP_017871906.1
GO:0005524 - ATP binding [Evidence IEA]; GO:0004748 - ribonucleoside-diphosphate reductase activity, thioredoxin disulfide as acceptor [Evidence IEA]
GO:0006260 - DNA replication [Evidence IEA]
class 1b ribonucleoside-diphosphate reductase subunit alpha
COORDINATES: similar to AA sequence:RefSeq:WP_013623052.1
ribonucleotide-diphosphate reductase subunit beta
COORDINATES: similar to AA sequence:RefSeq:WP_014695608.1
COORDINATES: similar to AA sequence:RefSeq:WP_017871903.1
GO:0008081 - phosphoric diester hydrolase activity [Evidence IEA]
GO:0006629 - lipid metabolic process [Evidence IEA]
glycerophosphodiester phosphodiesterase family protein
COORDINATES: protein motif:HMM:NF023580.2
COORDINATES: protein motif:HMM:NF021529.2
COORDINATES: similar to AA sequence:RefSeq:WP_013557077.1
COORDINATES: similar to AA sequence:RefSeq:WP_012693658.1
COORDINATES: similar to AA sequence:RefSeq:WP_076612365.1
COORDINATES: similar to AA sequence:RefSeq:WP_011525813.1
COORDINATES: similar to AA sequence:RefSeq:WP_015231172.1
COORDINATES: similar to AA sequence:RefSeq:WP_014695475.1
COORDINATES: protein motif:HMM:NF016818.2
COORDINATES: similar to AA sequence:RefSeq:WP_019010369.1
iron-siderophore ABC transporter substrate-binding protein
COORDINATES: protein motif:HMM:NF012655.2
TetR/AcrR family transcriptional regulator
COORDINATES: similar to AA sequence:RefSeq:WP_013614164.1
COORDINATES: similar to AA sequence:RefSeq:WP_013622894.1
COORDINATES: similar to AA sequence:RefSeq:WP_013613984.1
COORDINATES: similar to AA sequence:RefSeq:WP_013613836.1
COORDINATES: similar to AA sequence:RefSeq:WP_011530672.1
GO:0005524 - ATP binding [Evidence IEA]; GO:0003676 - nucleic acid binding [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_011530673.1
COORDINATES: protein motif:HMM:NF014442.2
class I SAM-dependent DNA methyltransferase
IS630-like element ISDra3 family transposase
COORDINATES: similar to AA sequence:RefSeq:WP_002668014.1
type II toxin-antitoxin system HicA family toxin
COORDINATES: similar to AA sequence:RefSeq:WP_007537326.1
type II toxin-antitoxin system HicB family antitoxin
COORDINATES: protein motif:HMM:NF019348.2
COORDINATES: similar to AA sequence:RefSeq:WP_017871839.1
COORDINATES: similar to AA sequence:RefSeq:WP_014686749.1