Metabolic Modeling Tutorial
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Metabolic Modeling Tutorial
discounted EARLY registration ends Dec 31, 2014
Metabolic Modeling Tutorial
discounted EARLY registration ends Dec 31, 2014
Metabolic Modeling Tutorial
discounted EARLY registration ends Dec 31, 2014
Metabolic Modeling Tutorial
discounted EARLY registration ends Dec 31, 2014
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MetaCyc Gene-Ontology-Terms Class: GO:0000166 - nucleotide binding

Definition: Interacting selectively and non-covalently with a nucleotide, any compound consisting of a nucleoside that is esterified with (ortho)phosphate or an oligophosphate at any hydroxyl group on the ribose or deoxyribose.

Parent Classes:
GO:0036094 - small molecule binding ,
GO:1901265 - nucleoside phosphate binding

Child Classes:
GO:0008327 - methyl-CpG binding (1) ,
GO:0017076 - purine nucleotide binding (358) ,
GO:0030551 - cyclic nucleotide binding (2) ,
GO:0032553 - ribonucleotide binding (376) ,
GO:0050660 - flavin adenine dinucleotide binding (58) ,
GO:0050661 - NADP binding (26) ,
GO:0051287 - NAD binding (46)

Term Members:
PII (glnB) ,
ThiS protein ,
GlnK ,
primosome factor N' (priA) ,
predicted carbon-phosphorous lyase subunit (phnK) ,
putative protein secretion protein for export (gspE) ,
MalT transcriptional activator ,
DNA polymerase III, τ subunit (dnaX) ,
serine/threonine kinase HipA ,
ATP synthase F1 complex - beta subunit (atpD) ,
RhlB ,
mannose-1-phosphate guanylyltransferase (cpsB) ,
2-dehydro-3-deoxygalactonate kinase (dgoK) ,
LysC ,
D-gluconate kinase, thermosensitive (idnK) ,
GntK ,
phosphoribosyl-AMP cyclohydrolase / phosphoribosyl-ATP pyrophosphatase (hisI) ,
HisG ,
carbamoyl phosphate synthetase, α chain (carA) ,
carbamoyl phosphate synthetase, β chain ,
UMP kinase (pyrH) ,
PyrG ,
selenide, water dikinase (selD) ,
anhydro-N-acetylmuramic acid kinase (anmK) ,
UDP-N-acetylmuramate:L-alanyl-γ-D-glutamyl-meso-diaminoheptanedioate-D-alanine ligase [multifunctional] (mpl) ,
fructoselysine 6-kinase (frlD) ,
ribose-phosphate diphosphokinase (prs) ,
ribose 1,5-bisphosphokinase (phnN) ,
nicotinate-mononucleotide adenylyltransferase (nadD) ,
NadE ,
NadR DNA-binding transcriptional repressor and NMN adenylyltransferase ,
glucokinase (glk) ,
L-rhamnulose kinase (rhaB) ,
tetraacyldisaccharide 4'-kinase (lpxK) ,
D-arabinose 5-phosphate isomerase (gutQ) ,
bifunctional biotin-[acetyl-CoA-carboxylase] ligase and transcriptional repressor (birA) ,
AccC ,
acetyl-CoA carboxyltransferase, α subunit (accA) ,
acetyl-CoA carboxyltransferase, β subunit (accD) ,
lipopolysaccharide core heptose (I) kinase (waaP) ,
lipopolysaccharide core heptose (II) kinase (waaY) ,
glycerate kinase II (glxK) ,
PhnL subunit of methylphosphonate degradation complex ,
L-ribulokinase monomer (araB) ,
dihydroxyacetone kinase subunit L (dhaL) ,
dihydroxyacetone kinase subunit M (dhaM) ,
2-keto-3-deoxygluconokinase (kdgK) ,
Upp ,
uridine kinase / cytidine kinase (udk) ,
dTMP kinase (tmk) ,
cytidylate kinase (cmk) ,
MenE ,
thymidine kinase / deoxyuridine kinase (tdk) ,
ThiD ,
pantetheine-phosphate adenylyltransferase monomer (coaD) ,
dephospho-CoA kinase (coaE) ,
molybdopterin synthase small subunit (moaD) ,
MogA ,
molybdopterin-synthase adenylyltransferase (moeB) ,
molybdenum cofactor guanylyltransferase (mobA) ,
methionine adenosyltransferase (metK) ,
molybdenum cofactor cytidylyltransferase (mocA) ,
triphosphoribosyl-dephospho-CoA synthase (citG) ,
AsnA ,
AsnB ,
GlnA ,
GDP pyrophosphokinase / GTP pyrophosphokinase (relA) ,
D-allose kinase (alsK) ,
FadD ,
short chain acyl-CoA synthetase (fadK) ,
GlgC ,
ribokinase (rbsK) ,
1-phosphofructokinase monomer (fruK) ,
glycerate kinase I (garK) ,
L-xylulose kinase (lyxK) ,
L-fuculokinase (fucK) ,
NAD kinase monomer (nadK) ,
pyridine nucleotide transhydrogenase, α subunit (pntA) ,
glutamyl-tRNA synthetase (gltX) ,
acetylglutamate kinase monomer (argB) ,
ThrA ,
MetL ,
GlpK ,
GTP cyclohydrolase I monomer (folE) ,
7-cyano-7-deazaguanine synthase (queC) ,
propionate kinase (tdcD) ,
N-acetylmannosamine kinase (nanK) ,
propionyl-CoA synthetase (prpE) ,
hypoxanthine-guanine phosphoribosyltransferase (hpt) ,
Gsk ,
PurC ,
N5-carboxyaminoimidazole ribonucleotide synthetase monomer (purK) ,
GuaB ,
PurA ,
adenylate kinase (adk) ,
thiamin monophosphate kinase (thiL) ,
ThiS adenylyltransferase (thiF) ,
succinyl-CoA synthetase, β subunit ,
succinyl-CoA synthetase, α subunit (sucD) ,
sulfate adenylyltransferase, CysN subunit ,
sulfate adenylyltransferase, CysD subunit ,
CysC ,
PdxK ,
pyridoxal kinase 2 (pdxY) ,
acetate kinase (ackA) ,
acetyl-CoA synthetase (AMP-forming) (acs) ,
hydroxyethylthiazole kinase (thiM) ,
phosphoribosylamine-glycine ligase (purD) ,
phosphoribosylformylglycinamide synthetase (purL) ,
PurM ,
phosphoribosylglycinamide formyltransferase 2 (purT) ,
arginyl-tRNA synthetase (argS) ,
cysteinyl-tRNA synthetase (cysS) ,
glutaminyl-tRNA synthetase (glnS) ,
isoleucyl-tRNA synthetase (ileS) ,
leucyl-tRNA synthetase (leuS) ,
valyl-tRNA synthetase (valS) ,
alanyl-tRNA synthetase (alaS) ,
asparaginyl-tRNA synthetase (asnS) ,
aspartyl-tRNA synthetase (aspS) ,
tyrosyl-tRNA synthetase (tyrS) ,
tryptophanyl-tRNA synthetase (trpS) ,
threonyl-tRNA synthetase (thrS) ,
seryl-tRNA synthetase (serS) ,
prolyl-tRNA synthetase (proS) ,
phenylalanyl-tRNA synthetase β-chain (pheT) ,
phenylalanyl-tRNA synthetase α-chain (pheS) ,
methionyl-tRNA synthetase (metG) ,
lysyl tRNA synthetase (LysRSs), constitutive (lysS) ,
histidyl-tRNA synthetase (hisS) ,
glycyl-tRNA synthetase, α subunit (glyQ) ,
glycyl-tRNA synthetase, β subunit (glyS) ,
D-alanyl-D-alanine-adding enzyme (murF) ,
UDP-N-acetylmuramate-alanine ligase (murC) ,
UDP-N-acetylmuramoyl-L-alanine:D-glutamate ligase (murD) ,
UDP-N-acetylmuramoylalanyl-D-glutamate 2,6-diaminopimelate ligase (murE) ,
D-alanine-D-alanine ligase A (ddlA) ,
D-alanine-D-alanine ligase B (ddlB) ,
glutamate-putrescine ligase (puuA) ,
pyruvate kinase II monomer (pykA) ,
pyruvate kinase I monomer (pykF) ,
phosphoglycerate kinase (pgk) ,
6-phosphofructokinase-2 monomer (pfkB) ,
phosphoenolpyruvate synthetase (ppsA) ,
fructose-1,6-bisphosphatase monomer (fbp) ,
shikimate kinase II (aroL) ,
shikimate dehydrogenase (aroE) ,
dethiobiotin synthetase monomer (bioD) ,
6-hydroxymethyl-7,8-dihydropterin pyrophosphokinase (folK) ,
5-formyltetrahydrofolate cyclo-ligase (fau) ,
bifunctional folylpolyglutamate synthetase / dihydrofolate synthetase (folC) ,
pantothenate synthetase monomer (panC) ,
pantothenate kinase monomer (coaA) ,
IspE ,
phosphoenolpyruvate carboxykinase (ATP) (pck) ,
6-phosphofructokinase-1 monomer (pfkA) ,
fused heptose 7-phosphate kinase/heptose 1-phosphate adenyltransferase (rfaE) ,
γ-glutamate-cysteine ligase (gshA) ,
glutathione synthetase monomer (gshB) ,
galactokinase (galK) ,
TdcB ,
bifunctional riboflavin kinase / FMN adenylyltransferase (ribF) ,
GTP cyclohydrolase II (ribA) ,
rep ,
ATP-dependent DNA helicase (recQ) ,
RNase D (rnd) ,
tRNAIle-lysidine synthetase (tilS) ,
tRNA-specific 2-thiouridylase (mnmA) ,
host restriction; endonuclease R (hsdR) ,
ClpX ,
ClpA ,
glutamyl-Q tRNAAsp synthetase (gluQ) ,
regulatory ATPase (ravA) ,
guanylate kinase (gmk) ,
UDP-sugar hydrolase / 5'-ribonucleotidase / 5'-deoxyribonucleotidase (ushA) ,
pyrimidine nucleotidase (yjjG) ,
tRNA threonylcarbamoyladenosine dehydratase (tcdA) ,
MutS ,
MutL ,
manno(fructo)kinase (mak) ,
GMP synthetase (guaA) ,
nucleoside triphosphate pyrophosphohydrolase (mazG) ,
ATP-dependent RNA helicase, specific for 23S rRNA (dbpA) ,
purine nucleoside phosphoramidase monomer (hinT) ,
DNA polymerase II (polB) ,
DNA gyrase, subunit B (gyrB) ,
DNA gyrase, subunit A ,
NAD(P)H:quinone oxidoreductase (wrbA) ,
GTPase, involved in modification of U34 in tRNA (mnmE) ,
cAMP phosphodiesterase (cpdA) ,
Lon ,
ribosomal protein S6 modification protein (rimK) ,
MrcB subunit of 5-methylcytosine restriction system (mcrB) ,
ATP-dependent zinc metalloprotease FtsH ,
ThiI ,
tRNA C32 thiolase (ttcA) ,
tRNAMet cytidine acetyltransferase (tmcA) ,
ProB ,
ssDNA and dsDNA binding, ATP binding (recF) ,
branch migration of Holliday structures; repair (ruvA) ,
branch migration of Holliday structures; repair helicase (ruvB) ,
tRNA(i6A37) synthase (miaA) ,
RNase III (rnc) ,
dCMP phosphohydrolase (yfbR) ,
adenylate cyclase (cyaA) ,
chaperone for [Fe-S] cluster biosynthesis (hscA) ,
broad specificity 5'(3')-nucleotidase and polyphosphatase (umpG) ,
N-acetyl-D-glucosamine kinase (nagK) ,
fused tRNA nucleotidyltransferase / 2',3'-cyclic phosphodiesterase / 2' nucleotidase and phosphatase (cca) ,
DnaB ,
lysyl-tRNA synthetase (lysU) ,
Gss ,
RNA 3'-terminal phosphate cyclase (rtcA) ,
DgkA ,
thiamin kinase (thiK) ,
xylulokinase (xylB) ,
2-acylglycerophosphoethanolamine acyltransferase / acyl-ACP synthetase (aas) ,
ThrB ,
ribonucleoside-triphosphate reductase (nrdD) ,
RecB ,
RecC ,
RecD ,
lipoyl-protein ligase A (lplA) ,
AceK ,
ribonucleoside diphosphate reductase 1, α subunit (nrdA) ,
NrdE ,
deoxyribodipyrimidine photolyase (photoreactivation) (phr) ,
excision nuclease subunit A (uvrA) ,
DNA repair; excision nuclease subunit B (uvrB) ,
autophosphorylating protein tyrosine kinase (etk) ,
protein-tyrosine kinase (wzc) ,
lipid kinase (yegS) ,
Ppk ,
poly(A) polymerase I (pcnB) ,
ITPase/XTPase (yjjX) ,
GTPase that interacts with methylmalonyl-CoA mutase (argK) ,
ribosome small subunit-dependent GTPase A (rsgA) ,
GTPase associated with the 50S subunit of the ribosome (hflX) ,
50S ribosomal subunit stability factor (der) ,
selenocysteyl-tRNA-specific translation elongation factor (selB) ,
accessory protein for nickel incorporation into hydrogenase isoenzymes (hypB) ,
P-loop guanosine triphosphatase (yjiA) ,
YdiB ,
EntE ,
apo-serine activating enzyme (entF) ,
c-di-GMP phosphodiesterase (yhjH) ,
cyclic di-GMP phosphodiesterase (yfgF) ,
glutamine synthetase adenylyltransferase / glutamine synthetase deadenylase (glnE) ,
diguanylate cyclase (yeaP) ,
diguanylate cyclase (dosC) ,
diguanylate cyclase (ycdT) ,
diguanylate cyclase (dgcZ) ,
diguanylate cyclase (ydaM) ,
2'3' cyclic nucleotide phosphodiesterase/3' nucleotidase (cpdB) ,
RdgB ,
NAD(P)HX epimerase / NAD(P)HX dehydratase (yjeF) ,
Ndk ,
EF-P-lysine lysyltransferase (epmA) ,
Fe2+ transporter FeoB ,
LptB ,
glutamine ABC transporter - ATP binding subunit (glnQ) ,
murein tripeptide ABC transporter / peptide ABC transporter - putative ATP binding subunit (oppF) ,
murein tripeptide ABC transporter / peptide ABC transporter - putative ATP binding subunit (oppD) ,
molybdate ABC transporter - ATP binding subunit (modC) ,
L-arginine ABC transporter - ATP binding subunit (artP) ,
K+ transporting ATPase - KdpC subunit ,
K+ transporting ATPase - ATP binding subunit (kdpB) ,
K+ transporting ATPase - K+ channel forming subunit (kdpA) ,
aliphatic sulfonate ABC transporter - ATP binding subunit (ssuB) ,
phosphonate ABC transporter - ATP binding subunit (phnC) ,
glycine betaine / proline ABC transporter - ATP binding subunit (proV) ,
zinc, cadmium and lead efflux system (zntA) ,
protoheme IX ABC transporter - ATP binding subunit (ccmA) ,
glycerol-3-phosphate ABC transporter - ATP binding subunit (ugpC) ,
nickel ABC transporter - ATP binding subunit (nikE) ,
nickel ABC transporter - ATP binding subunit (nikD) ,
galactofuranose / galactopyranose ABC transporter - putative ATP binding subunit (ytfR) ,
putrescine ABC transporter - ATP binding subunit (potG) ,
taurine ABC transporter - ATP binding subunit (tauB) ,
ribose ABC transporter - putative ATP binding subunit (rbsA) ,
dipeptide ABC transporter - putative ABC binding subunit (dppF) ,
dipeptide ABC transporter - putative ATP binding subunit (dppD) ,
galactose ABC transporter - ATP binding subunit (mglA) ,
ATP-binding lipopolysaccharide transport protein (msbA) ,
glutamate / aspartate ABC transporter - ATP binding subunit (gltL) ,
xylose ABC transporter - ATP binding subunit (xylG) ,
Cu+ efflux ATPase (copA) ,
branched chain amino acid transporter - ATP binding subunit (livG) ,
branched chain amino acid ABC transporter - ATP binding subunit (livF) ,
glutathione ABC transporter - ATP binding subunit (gsiA) ,
AI-2 ABC transporter - ATP binding subunit (lsrA) ,
arabinose ABC transporter - ATP binding subunit (araG) ,
D-allose ABC transporter - ATP binding subunit (alsA) ,
sulfate / thiosulfate ABC transporter - ATP binding subunit (cysA) ,
putrescine / spermidine ABC transporter - ATP binding subunit (potA) ,
Zn2+ ABC transporter - ATP binding subunit (znuC) ,
glutathione / L-cysteine efflux transporter - CydC subunit ,
glutathione / L-cysteine efflux transporter - CydD subunit ,
maltose ABC transporter - ATP binding subunit (malK) ,
phosphate ABC transporter - ATP binding subunit (pstB) ,
L-methionine / D-methionine ABC transporter - ATP binding subunit (metN) ,
KefC ,
vitamin B12 ABC transporter - ATP binding subunit (btuD) ,
ferric dicitrate ABC transporter - ATP binding subunit (fecE) ,
ferric enterobactin ABC transporter - ATP binding subunit (fepC) ,
iron (III) hydroxamate ABC transporter - ATP binding subunit (fhuC) ,
chaperone protein DnaK ,
50S ribosomal subunit protein L23 (rplW) ,
bifunctional coenzyme A synthase (COASY) ,
ATP synthase F1 complex - alpha subunit (atpA) ,
5-dehydro-2-deoxy-D-gluconate kinase (iolC) ,
CTP synthetase (pyrG) ,
deoxyadenosine/deoxycytidine kinase monomer (dck) ,
cancer-related nucleoside-triphosphatase (NTPCR) ,
lipoate-protein ligase (lplJ) ,
4-amino-2-methyl-5-phosphomethylpyrimidine kinase (thiD) ,
thiamine monophosphate kinase (thiL) ,
ThiI ,
ThiS sulfur carrier protein ,
[sulfur-carrier protein ThiS] adenylyltransferase (thiF) ,
thiamin pyrophosphokinase (thiN) ,
hydroxyethylthiazole kinase monomer (thiM) ,
retinol dehydrogenase 3 (DHRS3) ,
GTP cyclohydrolase I (folEA) ,
7-cyano-7-deazaguanine synthase (queC)

Unification Links: GO:0000166


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Please cite the following article in publications resulting from the use of MetaCyc: Caspi et al, Nucleic Acids Research 42:D459-D471 2014
Page generated by SRI International Pathway Tools version 18.5 on Wed Nov 26, 2014, biocyc13.