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Literature summary for 1.14.11.33 extracted from

  • van den Born, E.; Omelchenko, M.V.; Bekkelund, A.; Leihne, V.; Koonin, E.V.; Dolja, V.V.; Falnes, P.?.
    Viral AlkB proteins repair RNA damage by oxidative demethylation (2008), Nucleic Acids Res., 36, 5451-5461.
    View publication on PubMedView publication on EuropePMC

Cloned(Commentary)

Cloned (Comment) Organism
expressed in Escherichia coli BL21-CodonPlus(DE3)-RIPL cells blueberry scorch virus
expressed in Escherichia coli BL21-CodonPlus(DE3)-RIPL cells Blackberry virus Y
expressed in Escherichia coli BL21-CodonPlus(DE3)-RIPL cells grapevine virus A

Protein Variants

Protein Variants Comment Organism
D61A the mutant is unable to rescue methylated RNA phage MS2 and is unable to convert 2-oxoglutarate to succinate Blackberry virus Y
H59A the mutant is unable to rescue methylated RNA phage MS2 and is unable to convert 2-oxoglutarate to succinate Blackberry virus Y

Metals/Ions

Metals/Ions Comment Organism Structure
Fe2+ required for activity Escherichia coli
Fe2+ required for activity blueberry scorch virus
Fe2+ required for activity Blackberry virus Y
Fe2+ required for activity grapevine virus A

Organism

Organism UniProt Comment Textmining
Blackberry virus Y
-
-
-
blueberry scorch virus
-
-
-
Escherichia coli
-
-
-
grapevine virus A
-
-
-

Purification (Commentary)

Purification (Comment) Organism
TALON metal affinity resin column chromatography blueberry scorch virus
TALON metal affinity resin column chromatography Blackberry virus Y
TALON metal affinity resin column chromatography grapevine virus A

Substrates and Products (Substrate)

Substrates Comment Substrates Organism Products Comment (Products) Rev. Reac.
DNA-1-methyladenine + 2-oxoglutarate + O2
-
Escherichia coli DNA-adenine + formaldehyde + succinate + CO2
-
?
DNA-1-methyladenine + 2-oxoglutarate + O2
-
blueberry scorch virus DNA-adenine + formaldehyde + succinate + CO2
-
?
DNA-1-methyladenine + 2-oxoglutarate + O2
-
Blackberry virus Y DNA-adenine + formaldehyde + succinate + CO2
-
?
DNA-1-methyladenine + 2-oxoglutarate + O2
-
grapevine virus A DNA-adenine + formaldehyde + succinate + CO2
-
?
DNA-3-methylcytosine + 2-oxoglutarate + O2
-
Escherichia coli DNA-cytosine + formaldehyde + succinate + CO2
-
?
DNA-3-methylcytosine + 2-oxoglutarate + O2
-
blueberry scorch virus DNA-cytosine + formaldehyde + succinate + CO2
-
?
DNA-3-methylcytosine + 2-oxoglutarate + O2
-
Blackberry virus Y DNA-cytosine + formaldehyde + succinate + CO2
-
?
DNA-3-methylcytosine + 2-oxoglutarate + O2
-
grapevine virus A DNA-cytosine + formaldehyde + succinate + CO2
-
?
methylated DNA bacteriophage M13mp18 + 2-oxoglutarate + O2
-
blueberry scorch virus DNA bacteriophage M13mp18 + formaldehyde + succinate + CO2
-
?
methylated DNA bacteriophage M13mp18 + 2-oxoglutarate + O2
-
Blackberry virus Y DNA bacteriophage M13mp18 + formaldehyde + succinate + CO2
-
?
methylated DNA bacteriophage M13mp18 + 2-oxoglutarate + O2
-
grapevine virus A DNA bacteriophage M13mp18 + formaldehyde + succinate + CO2
-
?
methylated RNA bacteriophage MS2 + 2-oxoglutarate + O2
-
blueberry scorch virus RNA bacteriophage MS2 + formaldehyde + succinate + CO2
-
?
methylated RNA bacteriophage MS2 + 2-oxoglutarate + O2
-
Blackberry virus Y RNA bacteriophage MS2 + formaldehyde + succinate + CO2
-
?
methylated RNA bacteriophage MS2 + 2-oxoglutarate + O2
-
grapevine virus A RNA bacteriophage MS2 + formaldehyde + succinate + CO2
-
?
additional information Escherichia coli AlkB is approximately 10fold more active on single-stranded DNA compared to single-stranded RNA, Eschichia coli AlkB displays a somewhat lower activity on double-stranded RNA substrates than on single-stranded RNA substrates Escherichia coli ?
-
?
additional information the viral AlkB protein prefers single-stranded RNA over single-stranded DNA substrates (10fold) blueberry scorch virus ?
-
?
additional information the viral AlkB protein prefers single-stranded RNA over single-stranded DNA substrates (10fold) Blackberry virus Y ?
-
?
additional information the viral AlkB protein prefers single-stranded RNA over single-stranded DNA substrates (10fold) grapevine virus A ?
-
?
RNA-1-methyladenine + 2-oxoglutarate + O2
-
Escherichia coli RNA-adenine + formaldehyde + succinate + CO2
-
?
RNA-1-methyladenine + 2-oxoglutarate + O2
-
blueberry scorch virus RNA-adenine + formaldehyde + succinate + CO2
-
?
RNA-1-methyladenine + 2-oxoglutarate + O2
-
Blackberry virus Y RNA-adenine + formaldehyde + succinate + CO2
-
?
RNA-1-methyladenine + 2-oxoglutarate + O2
-
grapevine virus A RNA-adenine + formaldehyde + succinate + CO2
-
?
RNA-3-methylcytosine + 2-oxoglutarate + O2
-
Escherichia coli RNA-cytosine + formaldehyde + succinate + CO2
-
?
RNA-3-methylcytosine + 2-oxoglutarate + O2
-
blueberry scorch virus RNA-cytosine + formaldehyde + succinate + CO2
-
?
RNA-3-methylcytosine + 2-oxoglutarate + O2
-
Blackberry virus Y RNA-cytosine + formaldehyde + succinate + CO2
-
?
RNA-3-methylcytosine + 2-oxoglutarate + O2
-
grapevine virus A RNA-cytosine + formaldehyde + succinate + CO2
-
?

Synonyms

Synonyms Comment Organism
AlkB
-
Escherichia coli
AlkB
-
blueberry scorch virus
AlkB
-
Blackberry virus Y
AlkB
-
grapevine virus A

Cofactor

Cofactor Comment Organism Structure
2-oxoglutarate
-
Escherichia coli
2-oxoglutarate
-
blueberry scorch virus
2-oxoglutarate
-
Blackberry virus Y
2-oxoglutarate
-
grapevine virus A

General Information

General Information Comment Organism
physiological function viral AlkB proteins maintain the integrity of the viral RNA genome through repair of deleterious methylation damage blueberry scorch virus
physiological function viral AlkB proteins maintain the integrity of the viral RNA genome through repair of deleterious methylation damage Blackberry virus Y
physiological function viral AlkB proteins maintain the integrity of the viral RNA genome through repair of deleterious methylation damage grapevine virus A