Table 6 Functional categories of the reactions affecting RAF size by more than 100 (“decr”)

Murein Recycling

LalaDgluMdap + h ₂o → 26dap-M + LalaDglu

Murein Recycling

LalaDglu → LalaLglu

Murein Recycling

LalaLglu + h ₂o → ala-L + glu-L

Glutamate Metabolism

atp + glu-L + nh ₄ → adp + pi + h + gln-L

Cofactor and Prosthetic Group Biosynthesis

ru5p-D → db4p + h + for

Cofactor and Prosthetic Group Biosynthesis

g3p + h + pyr → co ₂ + dxyl5p

Cofactor and Prosthetic Group Biosynthesis

5apru + h + nadph → 5aprbu + nadp

Alanine and Aspartate Metabolism

glu-L + oaa → akg + asp-L

Cofactor and Prosthetic Group Biosynthesis

25drapp + h + h ₂o → 5apru + nh ₄

Cofactor and Prosthetic Group Biosynthesis

e4p + h ₂o + nad → 4per + h + h + nadh

Cofactor and Prosthetic Group Biosynthesis

atp + fmn + h → fad + ppi

Nucleotide Salvage Pathway

atp + gmp → adp + gdp

Purine and Pyrimidine Biosynthesis

atp + gln-L + h ₂o + xmp → amp + ppi + h + h + gmp + glu-L

Cofactor and Prosthetic Group Biosynthesis

gtp + h ₂o + h ₂o + h ₂o → 25drapp + ppi + h + h + for

Cofactor and Prosthetic Group Biosynthesis

atp + nad → adp + nadp + h

Cofactor and Prosthetic Group Biosynthesis

atp + dnad + nh ₄ → amp + ppi + nad + h

Nucleotide Salvage Pathway

atp + h + nicrnt → dnad + ppi

Cofactor and Prosthetic Group Biosynthesis

h + h + prpp + quln → co ₂ + ppi + nicrnt

Cofactor and Prosthetic Group Biosynthesis

glu-L + ohpb → akg + phthr

Cofactor and Prosthetic Group Biosynthesis

dxyl5p + nad + phthr → co ₂ + pi + pdx5p + nadh + h ₂o + h ₂o + h

Cofactor and Prosthetic Group Biosynthesis

4per + nad → h + nadh + ohpb

Cofactor and Prosthetic Group Biosynthesis

5aprbu + h ₂o → 4r5au + pi

Cofactor and Prosthetic Group Biosynthesis

dhap + iasp → h ₂o + quln + pi + h ₂o

Cofactor and Prosthetic Group Biosynthesis

atp + ribflv → adp + h + fmn

Cofactor and Prosthetic Group Biosynthesis

4r5au + db4p → dmlz + pi + h ₂o + h ₂o

Cofactor and Prosthetic Group Biosynthesis

dmlz + dmlz → 4r5au + ribflv

Purine and Pyrimidine Biosynthesis

cbasp + h → dhor-S + h ₂o

Purine and Pyrimidine Biosynthesis

dhor-S + fum → orot + succ

Purine and Pyrimidine Biosynthesis

orot + prpp → orot5p + ppi

Purine and Pyrimidine Biosynthesis

h + orot5p → co ₂ + ump

Tyrosine, Tryptophan, and Phenylalanine Metabolism

2dda7p → 3dhq + pi

Cofactor and Prosthetic Group Biosynthesis

gtp + h ₂o → ahdt + h + for

Tyrosine, Tryptophan, and Phenylalanine Metabolism

3dhq → 3dhsk + h ₂o

Tyrosine, Tryptophan, and Phenylalanine Metabolism

3dhsk + h + nadph → nadp + skm

Tyrosine, Tryptophan, and Phenylalanine Metabolism

atp + skm → adp + skm5p + h

Tyrosine, Tryptophan, and Phenylalanine Metabolism

pep + skm5p → 3psme + pi

Tyrosine, Tryptophan, and Phenylalanine Metabolism

3psme → chor + pi

Nucleotide Salvage Pathway

atp + ump → adp + udp

Cofactor and Prosthetic Group Biosynthesis

ahdt + h ₂o → dhpmp + ppi + h

Cofactor and Prosthetic Group Biosynthesis

dhpmp + h ₂o → dhnpt + pi

Cofactor and Prosthetic Group Biosynthesis

dhnpt → 6hmhpt + gcald

Cofactor and Prosthetic Group Biosynthesis

chor + gln-L → 4adcho + glu-L

Cofactor and Prosthetic Group Biosynthesis

4adcho → 4abz + pyr + h

Cofactor and Prosthetic Group Biosynthesis

6hmhpt + atp → 6hmhptpp + h + amp

Cofactor and Prosthetic Group Biosynthesis

4abz + 6hmhptpp → dhpt + ppi

Cofactor and Prosthetic Group Biosynthesis

atp + dhpt + glu-L → adp + pi + h + dhf

Purine and Pyrimidine Biosynthesis

atp + gln-L + h ₂o + utp → adp + pi + h + h + glu-L + ctp

Cofactor and Prosthetic Group Biosynthesis

dhf + h + nadph → nadp + thf

Valine, Leucine, and Isoleucine Metabolism

h + pyr + pyr → alac-S + co ₂

Valine, Leucine, and Isoleucine Metabolism

alac-S + h + nadph → 23dhmb + nadp

Valine, Leucine, and Isoleucine Metabolism

23dhmb → 3mob + h ₂o

Cofactor and Prosthetic Group Biosynthesis

3mob + h ₂o + mlthf → 2dhp + thf

Cofactor and Prosthetic Group Biosynthesis

asp-L + h → ala-B + co ₂

Cofactor and Prosthetic Group Biosynthesis

2dhp + h + nadph → nadp + pant-R

Cofactor and Prosthetic Group Biosynthesis

ala-B + atp + pant-R → amp + ppi + pnto-R + h

Cofactor and Prosthetic Group Biosynthesis

atp + pnto-R → 4ppan + h + adp

Cofactor and Prosthetic Group Biosynthesis

4ppan + ctp + cys-L → 4ppcys + ppi + h + cmp

Cofactor and Prosthetic Group Biosynthesis

4ppcys + h → co ₂ + pan4p

Cofactor and Prosthetic Group Biosynthesis

atp + h + pan4p → dpcoa + ppi

Cofactor and Prosthetic Group Biosynthesis

atp + dpcoa → adp + h + coa

Threonine and Lysine Metabolism

asp-L + atp → 4pasp + adp

Threonine and Lysine Metabolism

4pasp + h + nadph → aspsa + nadp + pi

Threonine and Lysine Metabolism

aspsa + h + nadph → hom-L + nadp

Unassigned

co ₂ + h ₂o → h + hco ₃

Methionine Metabolism

hom-L + succoa → coa + suchms

Methionine Metabolism

cys-L + suchms → cyst-L + succ + h

Methionine Metabolism

cyst-L + h ₂o → hcys-L + pyr + nh ₄

Methionine Metabolism

atp + h ₂o + met-L → amet + ppi + pi

Membrane Lipid Metabolism

accoa + atp + hco ₃ → adp + pi + malcoa + h

Membrane Lipid Metabolism

ACP + malcoa → coa + malACP

Cofactor and Prosthetic Group Biosynthesis

dxyl5p + h + nadph → 2me4p + nadp

Cofactor and Prosthetic Group Biosynthesis

2me4p + ctp + h → 4c2me + ppi

Cofactor and Prosthetic Group Biosynthesis

4c2me + atp → 2p4c2me + h + adp

Cofactor and Prosthetic Group Biosynthesis

2p4c2me → 2mecdp + cmp

Cofactor and Prosthetic Group Biosynthesis

2mecdp + flxr + flxr + h → flxso + h ₂o + h2mb4p + flxso

Cofactor and Prosthetic Group Biosynthesis

dmpp + ipdp → grdp + ppi