Metabolism of proteins

Agassandian M, Mallampalli RK. Surfactant phospholipid metabolism. Biochimica et Biophysica Acta (BBA) - Molecular and Cell Biology of Lipids. 2013 Mar;1831(3):612–25. doi: 10.1016/j.bbalip.2012.09.010.; Knorre DG, Kudryashova NV, Godovikova TS. Chemical and Functional Aspects of Posttranslational Modification of Proteins. Acta Naturae. 2009 Dec 15;1(3):29–51. doi: 10.32607/20758251-2009-1-3-29-51.; Kutik S, Guiard B, Meyer HE, Wiedemann N, Pfanner N. Cooperation of translocase complexes in mitochondrial protein import. J Cell Biol. 2007 Nov 19;179(4):585–91. PMID: 17998403; PMCID: PMC2080918.; Chertow BS. The role of lysosomes and proteases in hormone secretion and degradation. Endocr Rev. 1981;2(2):137–73. doi: 10.1210/edrv-2-2-137. PMID: 6117463.

Metabolites

1,3-Diaminopropane

Formula: C3H10N2 (74.084394)

CAS ID: 109-76-2

5'-Methylthioadenosine

Formula: C11H15N5O3S (297.089556)

CAS ID: 2457-80-9

Acetate

Formula: C2H4O2 (60.0211284)

CAS ID: 64-19-7

Adenosine

Formula: C10H13N5O4 (267.09674980000005)

CAS ID: 58-61-7

Ammonia

Formula: NH3 (17.0265478)

CAS ID: 7664-41-7

beta-L-Fucopyranose

Formula: C6H12O5 (164.06847019999998)

CAS ID: 13224-93-6

CO2

Formula: CO2 (43.98983)

CAS ID: 124-38-9

D-Mannose

Formula: C6H12O6 (180.0633852)

CAS ID: 3458-28-4

Fe2+

Formula: Fe (55.934939)

CAS ID: 15438-31-0

Geranylgeranyl diphosphate

Formula: C20H36O7P2 (450.1936166)

CAS ID: 6699-20-3

H+

Formula: H (1.0078246)

CAS ID: 12408-02-5

H2O

Formula: H2O (18.0105642)

CAS ID: 7732-18-5

Hydrogen peroxide

Formula: H2O2 (34.0054792)

CAS ID: 7722-84-1

Magnesium cation

Formula: Mg (23.98505)

CAS ID: 22537-22-0

N-Methyl-D-aspartic acid

Formula: C5H9NO4 (147.0531554)

CAS ID: 6384-92-5

Oxygen

Formula: O2 (31.98983)

CAS ID: 7782-44-7

Zinc cation

Formula: Zn (63.929145)

CAS ID: 23713-49-7

Beta-1,4-D-Mannosylchitobiosyldiphosphodolichol

Formula: C47H82N2O22P2 (1088.4834212)

CAS ID:

2-oxoglutarate(2-)

Formula: C5H4O5 (144.00587339999998)

CAS ID: 64-15-3

succinate(2-)

Formula: C4H4O4 (116.01095839999999)

CAS ID: 56-14-4

adenosine 5'-monophosphate(2-)

Formula: C10H12N5O7P (345.0474332)

CAS ID:

NADPH(4-)

Formula: C21H26N7O17P3 (741.0598016)

CAS ID: 53-57-6

ATP(4-)

Formula: C10H12N5O13P3 (502.9644492)

CAS ID:

GTP(4-)

Formula: C10H12N5O14P3 (518.9593642)

CAS ID: 86527-72-2

UDP-alpha-D-glucose(2-)

Formula: C15H22N2O17P2 (564.0393702)

CAS ID:

UDP-N-acetyl-D-galactosamine(2-)

Formula: C17H25N3O17P2 (605.0659180000001)

CAS ID:

NADH(2-)

Formula: C21H27N7O14P2 (663.1091182000001)

CAS ID:

NAD(1-)

Formula: C21H26N7O14P2 (662.1012936000001)

CAS ID: 53-84-9

isopentenyl diphosphate(3-)

Formula: C5H9O7P2 (242.9823524)

CAS ID:

UDP(3-)

Formula: C9H11N2O12P2 (400.9787246)

CAS ID: 86527-70-0

ADP(3-)

Formula: C10H12N5O10P2 (424.0059412)

CAS ID:

NADP(3-)

Formula: C21H25N7O17P3 (740.051977)

CAS ID: 53-59-8

L-lysinium(1+)

Formula: C6H15N2O2 (147.113347)

CAS ID: 56-87-1



Enzyme

EC Number name full name note
1.14.11.-
1.1.1.271 GDP-L-fucose synthase GDP-beta-L-fucose:NADP+ 4-oxidoreductase (3,5-epimerizing)
1.14.11.27 [histone H3]-dimethyl-L-lysine36 demethylase [histone H3]-N6,N6-dimethyl-L-lysine36,2-oxoglutarate:oxygen oxidoreductase
1.14.99.29 deoxyhypusine monooxygenase deoxyhypusine,hydrogen-donor:oxygen oxidoreductase (2-hydroxylating)
2.1.1.100 protein-S-isoprenylcysteine O-methyltransferase S-adenosyl-L-methionine:protein-C-terminal-S-farnesyl-L-cysteine O-methyltransferase
2.1.1.314 diphthine methyl ester synthase S-adenosyl-L-methionine:2-[(3S)-3-carboxy-3-aminopropyl]-L-histidine-[translation elongation factor 2] methyltransferase (diphthine methyl ester-[translation elongation factor 2]-forming)
2.1.1.319 type I protein arginine methyltransferase S-adenosyl-L-methionine:[protein]-L-arginine N-methyltransferase ([protein]-Nomega,Nomega-dimethyl-L-arginine-forming)
2.1.1.77 protein-L-isoaspartate(D-aspartate) O-methyltransferase S-adenosyl-L-methionine:protein-L-isoaspartate O-methyltransferase
2.3.1.12 dihydrolipoyllysine-residue acetyltransferase acetyl-CoA:enzyme N6-(dihydrolipoyl)lysine S-acetyltransferase
2.3.1.4 glucosamine-phosphate N-acetyltransferase acetyl-CoA:D-glucosamine-6-phosphate N-acetyltransferase
2.3.2.23 E2 ubiquitin-conjugating enzyme S-ubiquitinyl-[E1 ubiquitin-activating enzyme]-L-cysteine:[E2 ubiquitin-conjugating enzyme] ubiquitinyl transferase
2.3.2.27 RING-type E3 ubiquitin transferase [E2 ubiquitin-conjugating enzyme]-S-ubiquitinyl-L-cysteine:[acceptor protein] ubiquitin transferase (isopeptide bond-forming; RING-type)
2.3.2.34 E2 NEDD8-conjugating enzyme [E1 NEDD8-activating enzyme]-S-[NEDD8 protein]-yl-L-cysteine:[E2 NEDD8-conjugating enzyme] [NEDD8-protein]-yl transferase
2.4.1.117 dolichyl-phosphate beta-glucosyltransferase UDP-glucose:dolichyl-phosphate beta-D-glucosyltransferase
2.4.1.132 GDP-Man:Man1GlcNAc2-PP-dolichol alpha-1,3-mannosyltransferase GDP-D-mannose:D-Man-beta-(1->4)-D-GlcNAc-beta-(1->4)-D-GlcNAc-diphosphodolichol 3-alpha-mannosyltransferase
2.4.1.142 chitobiosyldiphosphodolichol beta-mannosyltransferase GDP-mannose:chitobiosyldiphosphodolichol beta-D-mannosyltransferase
2.4.1.198 phosphatidylinositol N-acetylglucosaminyltransferase UDP-N-acetyl-D-glucosamine:1-phosphatidyl-1D-myo-inositol 6-(N-acetyl-alpha-D-glucosaminyl)transferase
2.4.1.257 GDP-Man:Man2GlcNAc2-PP-dolichol alpha-1,6-mannosyltransferase GDP-D-mannose:D-Man-alpha-(1->3)-D-Man-beta-(1-4)-D-GlcNAc-beta-(1->4)-D-GlcNAc-diphosphodolichol alpha-6-mannosyltransferase
2.4.1.258 dolichyl-P-Man:Man5GlcNAc2-PP-dolichol alpha-1,3-mannosyltransferase dolichyl beta-D-mannosyl phosphate:D-Man-alpha-(1->2)-D-Man-alpha-(1->2)-D-Man-alpha-(1->3)-[D-Man-alpha-(1->6)]-D-Man-beta-(1->4)-D-GlcNAc-beta-(1->4)-D-GlcNAc-diphosphodolichol alpha-1,3-mannosyltransferase
2.4.1.265 dolichyl-P-Glc:Glc1Man9GlcNAc2-PP-dolichol alpha-1,3-glucosyltransferase dolichyl beta-D-glucosyl phosphate: D-Glc-alpha-(1->3)-D-Man-alpha-(1->2)-D-Man-alpha-(1->2)-D-Man-alpha-(1->3)-[D-Man-alpha-(1->2)-D-Man-alpha-(1->3)-[D-Man-alpha-(1->2)-D-Man-alpha-(1->6)]-D-Man-alpha-(1->6)]-D-Man-beta-(1->4)-D-GlcNAc-beta-(1->4)-D-GlcNAc-diphosphodolichol alpha-1,3-mannosyltransferase
2.4.1.267 dolichyl-P-Glc:Man9GlcNAc2-PP-dolichol alpha-1,3-glucosyltransferase dolichyl beta-D-glucosyl phosphate: D-Man-alpha-(1->2)-D-Man-alpha-(1->2)-D-Man-alpha-(1->3)-[D-Man-alpha-(1->2)-D-Man-alpha-(1->3)-[D-Man-alpha-(1->2)-D-Man-alpha-(1->6)]-D-Man-alpha-(1->6)]-D-Man-beta-(1->4)-D-GlcNAc-beta-(1->4)-D-GlcNAc-diphosphodolichol alpha-1,3-mannosyltransferase
2.4.1.83 dolichyl-phosphate beta-D-mannosyltransferase GDP-mannose:dolichyl-phosphate beta-D-mannosyltransferase
2.5.1.108 2-(3-amino-3-carboxypropyl)histidine synthase S-adenosyl-L-methionine:L-histidine-[translation elongation factor 2] 2-[(3S)-3-amino-3-carboxypropyl]transferase
2.5.1.46 deoxyhypusine synthase [eIF5A-precursor]-lysine:spermidine 4-aminobutyltransferase (propane-1,3-diamine-forming)
2.5.1.60 protein geranylgeranyltransferase type II geranylgeranyl-diphosphate:protein-cysteine geranyltransferase
2.7.12.1 dual-specificity kinase ATP:protein phosphotransferase (Ser/Thr- and Tyr-phosphorylating)
2.7.7.13 mannose-1-phosphate guanylyltransferase GTP:alpha-D-mannose-1-phosphate guanylyltransferase
2.7.7.23 UDP-N-acetylglucosamine diphosphorylase UTP:N-acetyl-alpha-D-glucosamine-1-phosphate uridylyltransferase
2.7.8.15 UDP-N-acetylglucosamine-dolichyl-phosphate N-acetylglucosaminephosphotransferase UDP-N-acetyl-D-glucosamine:dolichyl-phosphate N-acetyl-D-glucosaminephosphotransferase
3.1.3.16 protein-serine/threonine phosphatase protein-serine/threonine-phosphate phosphohydrolase
3.1.3.48 protein-tyrosine-phosphatase protein-tyrosine-phosphate phosphohydrolase
3.1.3.67 phosphatidylinositol-3,4,5-trisphosphate 3-phosphatase 1-phosphatidyl-1D-myo-inositol-3,4,5-trisphosphate 3-phosphohydrolase
3.1.4.50 glycosylphosphatidylinositol phospholipase D glycoprotein-phosphatidylinositol phosphatidohydrolase
3.4.19.12 ubiquitinyl hydrolase 1
3.4.21.53 Endopeptidase La
3.4.25.1 proteasome endopeptidase complex
3.5.1.89 N-acetylglucosaminylphosphatidylinositol deacetylase 6-(N-acetyl-alpha-D-glucosaminyl)-1-phosphatidyl-1D-myo-inositol acetylhydrolase
3.5.1.98 histone deacetylase histone amidohydrolase
3.5.4.4 adenosine deaminase adenosine aminohydrolase
3.6.1.1 inorganic diphosphatase diphosphate phosphohydrolase
3.6.1.43 dolichyldiphosphatase dolichyl-diphosphate phosphohydrolase
3.6.4.13 RNA helicase
3.6.4.6 vesicle-fusing ATPase ATP phosphohydrolase (vesicle-fusing)
3.6.5.2 small monomeric GTPase GTP phosphohydrolase (cell-regulating)
3.6.5.3 protein-synthesizing GTPase GTP phosphohydrolase (mRNA-translation-assisting)
3.6.5.4 signal-recognition-particle GTPase GTP phosphohydrolase (protein-synthesis-assisting)
4.1.1.33 diphosphomevalonate decarboxylase ATP:(R)-5-diphosphomevalonate carboxy-lyase (adding ATP; isopentenyl-diphosphate-forming)
4.2.1.47 GDP-mannose 4,6-dehydratase GDP-mannose 4,6-hydro-lyase (GDP-4-dehydro-6-deoxy-D-mannose-forming)
5.3.1.8 mannose-6-phosphate isomerase D-mannose-6-phosphate aldose-ketose-isomerase
5.3.4.1 protein disulfide-isomerase Protein disulfide-isomerase
5.6.2.1 DNA topoisomerase DNA topoisomerase
5.6.2.2 DNA topoisomerase (ATP-hydrolysing) DNA topoisomerase (ATP-hydrolysing)
5.6.2.4 DNA 3'-5' helicase DNA 3'-5' helicase (ATP-hydrolysing)
6.2.1.45 E1 ubiquitin-activating enzyme ubiquitin:[E1 ubiquitin-activating enzyme] ligase (AMP-forming)


Proteins

Protein ID name full name