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ebi-chebi / ChEBI

Chemical Entities of Biological Interest (ChEBI) is a freely available dictionary of molecular entities focused on ‘small’ chemical compounds.
https://www.ebi.ac.uk/chebi
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Riboflavin biosynthesis compounds #1691

Closed muthuvenkat closed 8 years ago

muthuvenkat commented 14 years ago

Hi,

I need some compounds involved in riboflavin biosynthesis. This is a new IUBMB reaction (EC 3.5.1.102)

2-amino-5-formylamino-6-(D-ribosylamino)pyrimidin-4(3H)-one 5'-phosphate + H2O = 2,5-diamino-6-(D-ribosylamino)pyrimidin-4(3H)-one 5'-phosphate + formate

pmid: 19309161

/Kristian

Reported by: axelsen

muthuvenkat commented 14 years ago

Hi,

Also here there are more compounds needed. The cited reactions are still under review:

EC 1.1.1.302 2,5-diamino-6-(1-D-ribitylamino)-4(3H)-pyrimidinone 5′-phosphate + NAD(P)+ = 2,5-diamino-6-(1-D-ribosylamino)pyrimidin-4(3H)-one 5′-phosphate + NAD(P)H + H+

There is a diagram: http://www.chem.qmul.ac.uk/iubmb/enzyme/reaction/misc/riboflavin1.html

Please create all missing compounds in the pathway.

/Kristian

Original comment by: axelsen

muthuvenkat commented 14 years ago

Hi,

I need even more compounds in this pathway, here EC 2.5.1.78

1-deoxy-L-glycero-tetrulose 4-phosphate + 5-amino-6-(D-ribitylamino)uracil = 6,7-dimethyl-8-(D-ribityl)lumazine + 2 H2O + phosphate

There is also a diagram for the Late stages: http://www.chem.qmul.ac.uk/iubmb/enzyme/reaction/misc/riboflavin2.html

/Kristian

Original comment by: axelsen

muthuvenkat commented 14 years ago

Hi Kristian,

I have curated the following riboflavin precursors, which will appear in the July release of ChEBI:

59547 2-amino-5-formylamino-6-(1-D-ribosylamino)pyrimidin-4(3H)-one 5'-phosphate 59548 2-amino-5-formylamino-6-(1-D-ribosylamino)pyrimidin-4(3H)-one 5'-phosphate(2-)

59546 2,5-diamino-6-(1-D-ribosylamino)pyrimidin-4(3H)-one 5'-phosphate 59545 2,5-diamino-6-(1-D-ribosylamino)pyrimidin-4(3H)-one 5'-phosphate(2-)

Other compounds from the Riboflavin Biosynthesis (early stages) sheet are:

15996 GTP 37565 GTP(4-)

52402 2,5-diamino-6-(1-D-ribitylamino)pyrimidin-4(3H)-one 5'-phosphate 58890 2,5-diamino-6-(1-D-ribitylamino)pyrimidin-4(3H)-one 5'-phosphate(2-)

18337 5-amino-6-(5-phospho-D-ribosylamino)uracil 58453 5-amino-6-(5-phospho-D-ribosylamino)uracil(2-)

18247 5-amino-6-(5-phospho-D-ribitylamino)uracil 58421 5-amino-6-(5-phospho-D-ribosylamino)uracil(2-)

15934 5-amino-6-(D-ribitylamino)uracil

Compounds from the Riboflavin Biosynthesis (late stages) sheet are:

17363 D-ribulose 5-phosphate 58121 D-ribulose 5-phosphate(2-)

50608 (2S)-2-hydroxy-3-oxobutyl phosphate 58830 (2S)-2-hydroxy-3-oxobutyl phosphate(2-)

17601 6,7-dimethyl-8-(1-D-ribityl)lumazine 17015 riboflavin

/Gareth

Original comment by: G-Owen

muthuvenkat commented 14 years ago

Original comment by: G-Owen