Deinococcus wulumuqiensis R12 plasmid unnamed2, complete sequence.
Bacteria; Deinococcota; Deinococci; Deinococcales; Deinococcaceae; Deinococcus.
Complete Genome Sequence of Deinococcus wulumuqiensis R12
Submitted (27-FEB-2020) Nanjing Tech University, Nanjing Tech University, No. 30 Pu Zhunan Road, Nanjing, Jiangsu 211800, China
REFSEQ INFORMATION: The reference sequence is identical to\nCP049359.1.\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 :: Unicycler v. 0.4.8\nGenome Representation :: Full\nExpected Final Version :: No\nGenome Coverage :: 100.0x\nSequencing Technology :: Nanopore\n##Genome-Assembly-Data-END##\n\n##Genome-Annotation-Data-START##\nAnnotation Provider :: NCBI RefSeq\nAnnotation Date :: 04/06/2023 03:39:11\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) :: 3,359\nCDSs (total) :: 3,300\nGenes (coding) :: 3,254\nCDSs (with protein) :: 3,254\nGenes (RNA) :: 59\nrRNAs :: 3, 3, 3 (5S, 16S, 23S)\ncomplete rRNAs :: 3, 3, 3 (5S, 16S, 23S)\ntRNAs :: 47\nncRNAs :: 3\nPseudo Genes (total) :: 46\nCDSs (without protein) :: 46\nPseudo Genes (ambiguous residues) :: 0 of 46\nPseudo Genes (frameshifted) :: 6 of 46\nPseudo Genes (incomplete) :: 40 of 46\nPseudo Genes (internal stop) :: 5 of 46\nPseudo Genes (multiple problems) :: 5 of 46\nCRISPR Arrays :: 2\n##Genome-Annotation-Data-END##\nCOMPLETENESS: full length.
type strain of Deinococcus wulumuqiensis
COORDINATES: ab initio prediction:GeneMarkS-2+
Derived by automated computational analysis using gene prediction method: GeneMarkS-2+.
COORDINATES: similar to AA sequence:RefSeq:WP_007597537.1
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:NF037627.2
Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_010889556.1
COORDINATES: similar to AA sequence:RefSeq:WP_013178014.1
GO:0003824 - catalytic activity [Evidence IEA]
GO:0005975 - carbohydrate metabolic process [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_013623142.1
COORDINATES: similar to AA sequence:RefSeq:WP_003249964.1
COORDINATES: protein motif:HMM:NF013752.2
COORDINATES: similar to AA sequence:RefSeq:WP_010889602.1
NAD-dependent succinate-semialdehyde dehydrogenase
COORDINATES: similar to AA sequence:RefSeq:WP_012694031.1
GO:0004851 - uroporphyrin-III C-methyltransferase activity [Evidence IEA]
GO:0019354 - siroheme biosynthetic process [Evidence IEA]
uroporphyrinogen-III C-methyltransferase
COORDINATES: similar to AA sequence:RefSeq:WP_010889272.1
GO:0016829 - lyase activity [Evidence IEA]
CbiX/SirB N-terminal domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_014685122.1
GO:0051539 - 4 iron, 4 sulfur cluster binding [Evidence IEA]; GO:0020037 - heme binding [Evidence IEA]; GO:0046872 - metal ion binding [Evidence IEA]; GO:0050311 - sulfite reductase (ferredoxin) activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_015237332.1
GO:0004020 - adenylylsulfate kinase activity [Evidence IEA]
GO:0006790 - sulfur compound metabolic process [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_012693458.1
GO:0003824 - catalytic activity [Evidence IEA]; GO:0004604 - phosphoadenylyl-sulfate reductase (thioredoxin) activity [Evidence IEA]
GO:0019379 - sulfate assimilation, phosphoadenylyl sulfate reduction by phosphoadenylyl-sulfate reductase (thioredoxin) [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_010889276.1
GO:0004781 - sulfate adenylyltransferase (ATP) activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_007506445.1
GO:0051537 - 2 iron, 2 sulfur cluster binding [Evidence IEA]; GO:0051539 - 4 iron, 4 sulfur cluster binding [Evidence IEA]; GO:0004076 - biotin synthase activity [Evidence IEA]; GO:1904047 - S-adenosyl-L-methionine binding [Evidence IEA]
GO:0009102 - biotin biosynthetic process [Evidence IEA]
COORDINATES: protein motif:HMM:NF024891.2
GO:0004141 - dethiobiotin synthase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_017870016.1
GO:0004803 - transposase activity [Evidence IEA]
RNA-guided endonuclease TnpB family protein
COORDINATES: similar to AA sequence:RefSeq:WP_014199921.1
GO:0004015 - adenosylmethionine-8-amino-7-oxononanoate transaminase activity [Evidence IEA]
adenosylmethionine--8-amino-7-oxononanoate transaminase
COORDINATES: similar to AA sequence:RefSeq:WP_006675144.1
GO:0008710 - 8-amino-7-oxononanoate synthase activity [Evidence IEA]; GO:0030170 - pyridoxal phosphate binding [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_013556984.1
GO:0015074 - DNA integration [Evidence IEA]; GO:0006310 - DNA recombination [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_017871977.1
GO:0000271 - polysaccharide biosynthetic process [Evidence IEA]
nucleoside-diphosphate sugar epimerase/dehydratase
COORDINATES: similar to AA sequence:RefSeq:WP_018466004.1
GO:0008483 - transaminase activity [Evidence IEA]
DegT/DnrJ/EryC1/StrS family aminotransferase
COORDINATES: similar to AA sequence:RefSeq:WP_018466003.1
COORDINATES: protein motif:HMM:NF014453.2
COORDINATES: similar to AA sequence:RefSeq:WP_010886790.1
frameshifted; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_011525675.1
COORDINATES: similar to AA sequence:RefSeq:WP_013555926.1
GO:0003677 - DNA binding [Evidence IEA]; GO:0000150 - DNA strand exchange activity [Evidence IEA]
GO:0006310 - DNA recombination [Evidence IEA]
COORDINATES: protein motif:HMM:NF024118.2
GO:0016787 - hydrolase activity [Evidence IEA]; GO:0046872 - metal ion binding [Evidence IEA]
COORDINATES: protein motif:HMM:NF022449.2
MBL fold metallo-hydrolase RNA specificity domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_004636773.1
COORDINATES: similar to AA sequence:RefSeq:WP_011525984.1
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_011525983.1
GO:0042625 - ATPase-coupled ion transmembrane transporter activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_011525982.1
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_011525981.1
GO:0015036 - disulfide oxidoreductase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_011525980.1
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_019380893.1
COORDINATES: protein motif:HMM:NF024835.2
helix-turn-helix transcriptional regulator
COORDINATES: similar to AA sequence:RefSeq:WP_076612350.1
COORDINATES: similar to AA sequence:RefSeq:WP_010884008.1
COORDINATES: protein motif:HMM:NF020811.2
COORDINATES: similar to AA sequence:RefSeq:WP_017871209.1
COORDINATES: similar to AA sequence:RefSeq:WP_016448598.1
COORDINATES: similar to AA sequence:RefSeq:WP_013800178.1
internal stop; Derived by automated computational analysis using gene prediction method: Protein Homology.
type II toxin-antitoxin system RelE/ParE family toxin
COORDINATES: protein motif:HMM:NF013540.2
COORDINATES: similar to AA sequence:RefSeq:WP_019588423.1
COORDINATES: protein motif:HMM:NF024252.2
COORDINATES: protein motif:HMM:NF033527.1
COORDINATES: protein motif:HMM:NF012798.2
COORDINATES: protein motif:HMM:NF019500.2
GO:0005267 - potassium channel activity [Evidence IEA]
GO:0034220 - monoatomic ion transmembrane transport [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_015236287.1
COORDINATES: protein motif:HMM:NF021098.2
COORDINATES: similar to AA sequence:RefSeq:WP_017804264.1
COORDINATES: similar to AA sequence:RefSeq:WP_009502591.1
GO:0005524 - ATP binding [Evidence IEA]; GO:0016887 - ATP hydrolysis activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_017870805.1
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_019011892.1
COORDINATES: protein motif:HMM:NF012791.2
GO:0032559 - adenyl ribonucleotide binding [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_015231458.1
trypsin-like peptidase domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_020675519.1
COORDINATES: protein motif:HMM:NF024784.2
GO:0004519 - endonuclease activity [Evidence IEA]
HNH endonuclease signature motif containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_017871708.1
COORDINATES: similar to AA sequence:RefSeq:WP_012173261.1
COORDINATES: similar to AA sequence:RefSeq:WP_015231498.1
COORDINATES: similar to AA sequence:RefSeq:WP_020417083.1
COORDINATES: protein motif:HMM:NF033591.1
COORDINATES: protein motif:HMM:NF033516.0
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_014682916.1
peptidoglycan DD-metalloendopeptidase family protein
COORDINATES: protein motif:HMM:NF022747.2
COORDINATES: protein motif:HMM:NF021778.2
beta-propeller fold lactonase family protein
COORDINATES: similar to AA sequence:RefSeq:WP_011930948.1
GO:0005507 - copper ion binding [Evidence IEA]
multicopper oxidase domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_011525974.1
COORDINATES: similar to AA sequence:RefSeq:WP_017871110.1
GO:0005524 - ATP binding [Evidence IEA]; GO:0019829 - ATPase-coupled monoatomic cation transmembrane transporter activity [Evidence IEA]
GO:0006812 - monoatomic cation transport [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_011529240.1
COORDINATES: similar to AA sequence:RefSeq:WP_011529241.1
metal-sensitive transcriptional regulator
COORDINATES: similar to AA sequence:RefSeq:WP_013616070.1
COORDINATES: similar to AA sequence:RefSeq:WP_013616029.1
COORDINATES: similar to AA sequence:RefSeq:WP_011530381.1
GO:0016491 - oxidoreductase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_011526002.1
COORDINATES: similar to AA sequence:RefSeq:WP_017292182.1
COORDINATES: similar to AA sequence:RefSeq:WP_013616027.1
COORDINATES: similar to AA sequence:RefSeq:WP_019011930.1
COORDINATES: protein motif:HMM:NF024752.2
COORDINATES: similar to AA sequence:RefSeq:WP_013616026.1
GO:0005524 - ATP binding [Evidence IEA]; GO:0000156 - phosphorelay response regulator activity [Evidence IEA]; GO:0004673 - protein histidine kinase activity [Evidence IEA]
GO:0007165 - signal transduction [Evidence IEA]
HAMP domain-containing sensor histidine kinase
COORDINATES: similar to AA sequence:RefSeq:WP_013616025.1
GO:0000160 - phosphorelay signal transduction system [Evidence IEA]; GO:0006355 - regulation of DNA-templated transcription [Evidence IEA]
COORDINATES: protein motif:HMM:NF025013.2
COORDINATES: similar to AA sequence:RefSeq:WP_013616022.1
COORDINATES: similar to AA sequence:RefSeq:WP_019010867.1
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_076612053.1
frameshifted; internal stop; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: protein motif:HMM:NF024751.2
COORDINATES: similar to AA sequence:RefSeq:WP_010888222.1
COORDINATES: protein motif:HMM:NF024935.2
COORDINATES: protein motif:HMM:NF019291.2
GO:0003824 - catalytic activity [Evidence IEA]; GO:0003677 - DNA binding [Evidence IEA]
GO:0006304 - DNA modification [Evidence IEA]
Eco57I restriction-modification methylase domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_015162932.1
GO:0003677 - DNA binding [Evidence IEA]; GO:0009036 - type II site-specific deoxyribonuclease activity [Evidence IEA]
GO:0009307 - DNA restriction-modification system [Evidence IEA]
COORDINATES: protein motif:HMM:NF013793.2
COORDINATES: similar to AA sequence:RefSeq:WP_013294818.1
COORDINATES: similar to AA sequence:RefSeq:WP_019011224.1
COORDINATES: similar to AA sequence:RefSeq:WP_004638036.1
GO:0051539 - 4 iron, 4 sulfur cluster binding [Evidence IEA]; GO:0003824 - catalytic activity [Evidence IEA]; GO:1904047 - S-adenosyl-L-methionine binding [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_015231331.1
COORDINATES: protein motif:HMM:NF024803.2
COORDINATES: similar to AA sequence:RefSeq:WP_019010184.1
COORDINATES: similar to AA sequence:RefSeq:WP_013320834.1
type I restriction-modification system subunit M N-terminal domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_076611852.1
COORDINATES: similar to AA sequence:RefSeq:WP_019562032.1
COORDINATES: protein motif:HMM:NF019371.2
COORDINATES: similar to AA sequence:RefSeq:WP_015198906.1
PDDEXK nuclease domain-containing protein
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_020909877.1
COORDINATES: similar to AA sequence:RefSeq:WP_011530829.1
COORDINATES: protein motif:HMM:NF013559.2
GO:0004222 - metalloendopeptidase activity [Evidence IEA]
COORDINATES: protein motif:HMM:NF015649.2
BTAD domain-containing putative transcriptional regulator
COORDINATES: protein motif:HMM:NF016800.2
COORDINATES: similar to AA sequence:RefSeq:WP_017871949.1
COORDINATES: similar to AA sequence:RefSeq:WP_013822817.1
COORDINATES: similar to AA sequence:RefSeq:WP_018902931.1
COORDINATES: similar to AA sequence:RefSeq:WP_013561327.1
GO:0003978 - UDP-glucose 4-epimerase activity [Evidence IEA]
GO:0006012 - galactose metabolic process [Evidence IEA]
COORDINATES: protein motif:HMM:NF025025.2
COORDINATES: protein motif:HMM:NF026247.2
COORDINATES: protein motif:HMM:NF012744.2
COORDINATES: similar to AA sequence:RefSeq:WP_017313168.1
GO:0008767 - UDP-galactopyranose mutase activity [Evidence IEA]
GO:0009273 - peptidoglycan-based cell wall biogenesis [Evidence IEA]
COORDINATES: protein motif:HMM:NF024832.2
COORDINATES: protein motif:HMM:NF024940.2
winged helix-turn-helix domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_013703175.1
rhodanese-like domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_018768799.1
COORDINATES: similar to AA sequence:RefSeq:WP_010884014.1
GO:0003700 - DNA-binding transcription factor activity [Evidence IEA]
DeoR/GlpR family DNA-binding transcription regulator
COORDINATES: similar to AA sequence:RefSeq:WP_014686037.1
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_010884013.1
GO:0008662 - 1-phosphofructokinase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_013557070.1
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_019011319.1
COORDINATES: protein motif:HMM:NF018691.2
type II toxin-antitoxin system prevent-host-death family antitoxin
COORDINATES: protein motif:HMM:TIGR00180.1
GO:0007059 - chromosome segregation [Evidence IEA]; GO:0000910 - cytokinesis [Evidence IEA]
ParB/RepB/Spo0J family partition protein
COORDINATES: similar to AA sequence:RefSeq:WP_013012725.1
COORDINATES: similar to AA sequence:RefSeq:WP_005566868.1
COORDINATES: protein motif:HMM:NF019349.2
COORDINATES: protein motif:HMM:TIGR00229.1
COORDINATES: protein motif:HMM:NF020037.2
COORDINATES: similar to AA sequence:RefSeq:WP_011525798.1
COORDINATES: similar to AA sequence:RefSeq:WP_011790220.1
GO:0015105 - arsenite transmembrane transporter activity [Evidence IEA]
GO:0046685 - response to arsenic-containing substance [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_011525804.1
GO:0030612 - arsenate reductase (thioredoxin) activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_019011947.1
DDE-type integrase/transposase/recombinase
internal stop; 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:NF024139.2
helix-turn-helix domain-containing protein
COORDINATES: protein motif:HMM:NF024861.2
COORDINATES: similar to AA sequence:RefSeq:WP_011531000.1
GO:0010181 - FMN binding [Evidence IEA]; GO:0003955 - NAD(P)H dehydrogenase (quinone) activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_012694936.1
COORDINATES: similar to AA sequence:RefSeq:WP_015234054.1
COORDINATES: similar to AA sequence:RefSeq:WP_009653479.1
COORDINATES: similar to AA sequence:RefSeq:WP_010884088.1
IS5-like element ISDra5 family transposase
COORDINATES: protein motif:HMM:NF040570.1
COORDINATES: similar to AA sequence:RefSeq:WP_012693002.1
GO:0022857 - transmembrane transporter activity [Evidence IEA]
GO:0055085 - transmembrane transport [Evidence IEA]