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EBI Databases Structure Databases PDBsum

Ligand clusters for UniProt code Q04609

Ligand clusters for Q04609: Glutamate carboxypeptidase 2 from Homo sapiens

Top 6 (of 28) ligand clusters
Cluster 1.
78 ligand types
246 ligands
 Cluster 2.
7 ligand types
81 ligands
 Cluster 3.
4 ligand types
81 ligands
 Cluster 4.
4 ligand types
79 ligands
 Cluster 5.
4 ligand types
80 ligands
 Cluster 6.
4 ligand types
79 ligands
Representative protein: 3sjgA  
JSmol
 

Structures

PDB   Schematic diagram
3sjgA    
6h7yA    
6hkzA    
6hkjA    
2pvwA    
 more ...

 

 Cluster 1 contains 78 ligand types (of which only 20 are listed. Click for all)

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Ligand Description

_Zn
 
1. Metal: _ZN × 160
PDB codes: 1z8l(A), 2c6c(A), 2c6g(A), 2c6p(A), 2cij(A), 2jbj(A), 2jbk(A), 2oot(A), 2or4(A), 2pvv(A), 2pvw(A), 2xef(A), 2xeg(A), 2xei(A), 2xej(A), 3bhx(A), 3bi0(A), 3bi1(A), 3bxm(A), 3d7d(A), 3d7f(A), 3d7g(A), 3d7h(A), 3iww(A), 3rbu(A), 3sje(A), 3sjf(A), 3sjg(A), 3sjx(A), 4jyw(A), 4jz0(A), 4lqg(A), 4mcp(A), 4mcq(A), 4mcr(A), 4mcs(A), 4ngm(A), 4ngn(A), 4ngp(A), 4ngq(A), 4ngr(A), 4ngs(A), 4ngt(A), 4oc0(A), 4oc1(A), 4oc2(A), 4oc3(A), 4oc4(A), 4oc5(A), 4ome(A), 4p44(A), 4p45(A), 4p4b(A), 4p4d(A), 4p4e(A), 4p4f(A), 4p4i(A), 4p4j(A), 4w9y(A), 4x3r(A), 5d29(A), 5ely(A), 5f09(A), 5o5r(A), 5o5t(A), 5o5u(A), 5of0(A), 6ety(A), 6ez9(A), 6f5l(A), 6fe5(A), 6h7y(A), 6h7z(A), 6hkj(A), 6hkz(A), 6rbc(A), 6rti(A), 6s1x(A), 6sgp(A), 6skh(A),


 
2. Ligand: ASP × 1
aspartic acid
PDB code: 4mcs(A).


 
3. Ligand: MET × 1
methionine
PDB code: 2cij(A).


 
4. Ligand: TRS × 1
tromethamine
2-Amino-2-Hydroxymethyl-Propane-1,3-Diol
PDB code: 6h7z(A).


 
5. Ligand: G88 × 4
(2s)-2-(Phosphonomethyl)pentanedioic acid
PDB codes: 2jbj(A), 2pvw(A), 3rbu(A), 6rti(A).


 
6. Ligand: ACT × 2
Acetate ion
PDB codes: 5d29(A), 5ely(A).


 
7. Ligand: EDO × 2
1,2-Ethanediol
PDB codes: 6h7z(A), 6skh(A).


 
8. Ligand: GLU × 2
PDB codes: 2c6g(A), 4mcs(A).


 
9. Ligand: QUS × 2
(S)-2-Amino-3-(3,5-Dioxo-[1,2,4]oxadiazolidin-2-Yl)- Propionic acid
PDB codes: 2jbk(A), 2or4(A).


 
10. Ligand: SDR × 2
(2s)-2-[(N-Acetyl-L-Alpha-Aspartyl)amino]nonanoic acid
PDB codes: 3sje(A), 3sjg(A).


 
11. Ligand: TAM × 2
Tris(hydroxyethyl)aminomethane
PDB codes: 6h7y(A), 6hkj(A).


 
12. Ligand: 24I × 1
(2s)-2-{[Hydroxy(4-Iodobenzyl) phosphoryl]methyl}pentanedioic acid
PDB code: 2c6c(A).


 
13. Ligand: 28Z × 1
N-(4-{[(2-Amino-4-Oxo-3,4-Dihydropteridin-6-Yl) methyl]amino}benzoyl)-L-Gamma-Glutamyl-L-
Glutamic acid
PDB code: 4mcp(A).


 
14. Ligand: 29C × 1
N-(4-{[(2-Amino-4-Oxo-3,4-Dihydropteridin-6-Yl) methyl]amino}benzoyl)-L-Gamma-Glutamyl-L-Gamma-
Glutamyl-L-Glutamic acid
PDB code: 4mcq(A).


 
15. Ligand: 29D × 1
N-(4-{[(2-Amino-4-Oxo-3,4-Dihydropteridin-6-Yl) methyl]amino}benzoyl)-L-Gamma-Glutamyl-L-Gamma-
Glutamyl-L-Gamma-Glutamyl-L-Glutamic acid
PDB code: 4mcr(A).


 
16. Ligand: 2F7 × 1
N-(4-Fluorobenzoyl)-L-Alloisoleucyl-O-[(S)-{[(1s)-1,3- Dicarboxypropyl]amino}(hydroxy)phosphoryl]-
L-Serine
PDB code: 4p44(A).


 
17. Ligand: 2F9 × 1
N-(4-Fluorobenzoyl)-L-Valyl-O-[(S)-{[(1s)-1,3- Dicarboxypropyl]amino}(hydroxy)phosphoryl]-L-Serine
PDB code: 4p45(A).


 
18. Ligand: 2G2 × 1
L-Gamma-Glutamyl-O-[(S)-{[(1s)-1,3- Dicarboxypropyl]amino}(hydroxy)phosphoryl]-L-Serine
PDB code: 4p4b(A).


 
19. Ligand: 2G4 × 1
N-[(S)-Hydroxy(4-Phenylbutoxy)phosphoryl]-L-Glutamic acid
PDB code: 4p4e(A).


 
20. Ligand: 2G5 × 1
N-[(S)-[(2s)-2-(Benzoylamino)-2- Carboxyethoxy](hydroxy)phosphoryl]-L-Glutamic acid
PDB code: 4p4i(A).

 + more. Press for full list
 

 

 Cluster 2 contains 7 ligand types

Selection shortcuts: select all/none invert selection.
Ligand Description


 
1. Ligand: NAG × 1
n-acetylglucosamine
2-Acetamido-2-Deoxy-Beta-D-Glucopyranose
PDB code: 1z8l(A).


 
2. Ligand: NAG-NAG-BMA-MAN × 55
NAG=2-Acetamido-2-Deoxy-Beta-D-Glucopyranose, BMA=Beta-D-Mannopyranose, MAN=Alpha-D-Mannopyranose.
PDB codes: 2c6g(A), 2cij(A), 2jbj(A), 2jbk(A), 2oot(A), 2or4(A), 2pvw(A), 2xef(A), 2xeg(A), 2xei(A), 2xej(A), 3bhx(A), 3bi0(A), 3bi1(A), 3bxm(A), 3d7d(A), 3d7f(A), 3d7g(A), 3d7h(A), 3iww(A), 3rbu(A), 3sje(A), 3sjf(A), 3sjg(A), 3sjx(A), 4jz0(A), 4mcp(A), 4mcq(A), 4mcr(A), 4mcs(A), 4ngn(A), 4ngr(A), 4ngs(A), 4oc0(A), 4oc1(A), 4oc2(A), 4oc3(A), 4oc4(A), 4oc5(A), 4ome(A), 4p44(A), 4p45(A), 4p4b(A), 4p4d(A), 4p4e(A), 4p4f(A), 4p4i(A), 4p4j(A), 4w9y(A), 4x3r(A), 5ely(A), 5f09(A), 6hkj(A), 6hkz(A), 6rbc(A).


 
3. Ligand: NAG-NAG-BMA-MAN-MAN × 18
NAG=2-Acetamido-2-Deoxy-Beta-D-Glucopyranose, BMA=Beta-D-Mannopyranose, MAN=Alpha-D-Mannopyranose.
PDB codes: 4jyw(A), 4lqg(A), 4ngm(A), 4ngp(A), 4ngq(A), 5o5r(A), 5o5t(A), 5o5u(A), 5of0(A), 6ety(A), 6ez9(A), 6f5l(A), 6fe5(A), 6h7y(A), 6h7z(A), 6s1x(A), 6sgp(A), 6skh(A).


 
4. Ligand: NAG-NAG-BMA × 3
NAG=2-Acetamido-2-Deoxy-Beta-D-Glucopyranose, BMA=Beta-D-Mannopyranose.
PDB codes: 2c6p(A), 4ngt(A), 6rti(A).


 
5. Ligand: NAG-NAG-MAN-MAN × 2
NAG=2-Acetamido-2-Deoxy-Beta-D-Glucopyranose, MAN=Alpha-D-Mannopyranose.
PDB codes: 2c6c(A), 2pvv(A).


 
6. Ligand: EDO × 1
1,2-Ethanediol
PDB code: 6h7z(A).


 
7. Ligand: NAG-NAG-BMA-BMA × 1
NAG=2-Acetamido-2-Deoxy-Beta-D-Glucopyranose, BMA=Beta-D-Mannopyranose.
PDB code: 5d29(A).

 

 Cluster 3 contains 4 ligand types

Selection shortcuts: select all/none invert selection.
Ligand Description


 
1. Ligand: NAG-NAG × 47
NAG=2-Acetamido-2-Deoxy-Beta-D-Glucopyranose.
PDB codes: 1z8l(A), 2c6c(A), 2c6g(A), 2c6p(A), 2cij(A), 2jbj(A), 2jbk(A), 2oot(A), 2or4(A), 2pvv(A), 2pvw(A), 2xef(A), 2xeg(A), 2xei(A), 2xej(A), 3bhx(A), 3bi0(A), 3bi1(A), 3bxm(A), 3iww(A), 3sje(A), 3sjf(A), 3sjg(A), 3sjx(A), 4jz0(A), 4mcp(A), 4mcq(A), 4mcr(A), 4mcs(A), 4ngm(A), 4ngq(A), 4ngr(A), 4ngs(A), 4ngt(A), 4oc0(A), 4oc1(A), 4oc4(A), 4oc5(A), 4p44(A), 4p4i(A), 4p4j(A), 4w9y(A), 5d29(A), 5ely(A), 6hkj(A), 6hkz(A), 6rbc(A).


 
2. Ligand: NAG-NAG-BMA × 27
NAG=2-Acetamido-2-Deoxy-Beta-D-Glucopyranose, BMA=Beta-D-Mannopyranose.
PDB codes: 3d7d(A), 3d7f(A), 3d7g(A), 3d7h(A), 3rbu(A), 4jyw(A), 4lqg(A), 4ngn(A), 4ngp(A), 4oc2(A), 4oc3(A), 4ome(A), 4p45(A), 4p4b(A), 4p4d(A), 4p4e(A), 4p4f(A), 4x3r(A), 5f09(A), 5o5r(A), 5o5t(A), 5o5u(A), 6ety(A), 6ez9(A), 6f5l(A), 6h7z(A), 6s1x(A).


 
3. Ligand: NAG-NAG-BMA-MAN × 6
NAG=2-Acetamido-2-Deoxy-Beta-D-Glucopyranose, BMA=Beta-D-Mannopyranose, MAN=Alpha-D-Mannopyranose.
PDB codes: 5of0(A), 6fe5(A), 6h7y(A), 6rti(A), 6sgp(A), 6skh(A).


 
4. Ligand: EDO × 1
1,2-Ethanediol
PDB code: 6h7z(A).

 

 Cluster 4 contains 4 ligand types

Selection shortcuts: select all/none invert selection.
Ligand Description


 
1. Ligand: NAG × 12
n-acetylglucosamine
2-Acetamido-2-Deoxy-Beta-D-Glucopyranose
PDB codes: 1z8l(A), 2c6c(A), 2c6g(A), 2c6p(A), 2oot(A), 3bi1(A), 4ngt(A), 5d29(A), 5o5t(A), 6hkj(A), 6hkz(A), 6rbc(A).


 
2. Ligand: NAG-NAG × 58
NAG=2-Acetamido-2-Deoxy-Beta-D-Glucopyranose.
PDB codes: 2cij(A), 2jbj(A), 2jbk(A), 2or4(A), 2pvv(A), 2pvw(A), 2xef(A), 2xeg(A), 2xei(A), 2xej(A), 3bhx(A), 3bi0(A), 3bxm(A), 3d7d(A), 3d7f(A), 3d7g(A), 3d7h(A), 3iww(A), 3rbu(A), 3sje(A), 3sjf(A), 3sjg(A), 4jz0(A), 4mcp(A), 4mcq(A), 4mcr(A), 4mcs(A), 4ngm(A), 4ngn(A), 4ngp(A), 4ngq(A), 4ngr(A), 4ngs(A), 4oc0(A), 4oc1(A), 4oc4(A), 4oc5(A), 4ome(A), 4p44(A), 4p4b(A), 4p4d(A), 4p4f(A), 4p4i(A), 4p4j(A), 4w9y(A), 4x3r(A), 5ely(A), 5f09(A), 5of0(A), 6ety(A), 6ez9(A), 6f5l(A), 6fe5(A), 6h7y(A), 6h7z(A), 6s1x(A), 6sgp(A), 6skh(A).


 
3. Ligand: NAG-NAG-FUC × 7
NAG=2-Acetamido-2-Deoxy-Beta-D-Glucopyranose, FUC=Alpha-L-Fucopyranose.
PDB codes: 4jyw(A), 4lqg(A), 4oc2(A), 4oc3(A), 4p45(A), 4p4e(A), 5o5r(A).


 
4. Ligand: NAG-NAG-BMA × 2
NAG=2-Acetamido-2-Deoxy-Beta-D-Glucopyranose, BMA=Beta-D-Mannopyranose.
PDB codes: 5o5u(A), 6rti(A).

 

 Cluster 5 contains 4 ligand types

Selection shortcuts: select all/none invert selection.
Ligand Description


 
1. Ligand: NAG × 1
n-acetylglucosamine
2-Acetamido-2-Deoxy-Beta-D-Glucopyranose
PDB code: 4ngt(A).


 
2. Ligand: NAG-NAG × 75
NAG=2-Acetamido-2-Deoxy-Beta-D-Glucopyranose.
PDB codes: 2c6c(A), 2c6g(A), 2c6p(A), 2cij(A), 2jbj(A), 2jbk(A), 2oot(A), 2or4(A), 2pvv(A), 2pvw(A), 2xef(A), 2xeg(A), 2xei(A), 2xej(A), 3bhx(A), 3bi0(A), 3bi1(A), 3bxm(A), 3d7d(A), 3d7f(A), 3d7g(A), 3d7h(A), 3iww(A), 3rbu(A), 3sje(A), 3sjf(A), 3sjg(A), 3sjx(A), 4jyw(A), 4jz0(A), 4lqg(A), 4mcp(A), 4mcq(A), 4mcr(A), 4mcs(A), 4ngm(A), 4ngn(A), 4ngp(A), 4ngq(A), 4ngr(A), 4ngs(A), 4oc0(A), 4oc1(A), 4oc2(A), 4oc3(A), 4oc4(A), 4oc5(A), 4ome(A), 4p44(A), 4p45(A), 4p4b(A), 4p4d(A), 4p4e(A), 4p4f(A), 4p4i(A), 4p4j(A), 4w9y(A), 4x3r(A), 5d29(A), 5ely(A), 5f09(A), 5o5r(A), 5o5t(A), 5of0(A), 6ety(A), 6ez9(A), 6f5l(A), 6fe5(A), 6h7y(A), 6h7z(A), 6hkj(A), 6hkz(A), 6rbc(A), 6s1x(A), 6sgp(A).


 
3. Ligand: NAG-NAG-BMA × 3
NAG=2-Acetamido-2-Deoxy-Beta-D-Glucopyranose, BMA=Beta-D-Mannopyranose.
PDB codes: 5o5u(A), 6rti(A), 6skh(A).


 
4. Ligand: NAG-NDG × 1
NAG=2-Acetamido-2-Deoxy-Beta-D-Glucopyranose, NDG=2-Acetamido-2-Deoxy-Alpha-D-Glucopyranose.
PDB code: 1z8l(A).

 

 Cluster 6 contains 4 ligand types

Selection shortcuts: select all/none invert selection.
Ligand Description


 
1. Ligand: NAG × 61
n-acetylglucosamine
2-Acetamido-2-Deoxy-Beta-D-Glucopyranose
PDB codes: 2c6c(A), 2c6g(A), 2cij(A), 2jbj(A), 2jbk(A), 2oot(A), 2or4(A), 2pvv(A), 2pvw(A), 2xef(A), 2xeg(A), 2xei(A), 2xej(A), 3bhx(A), 3bi0(A), 3bi1(A), 3bxm(A), 3d7d(A), 3d7f(A), 3d7g(A), 3d7h(A), 3iww(A), 3rbu(A), 3sje(A), 3sjf(A), 3sjg(A), 3sjx(A), 4jz0(A), 4mcp(A), 4mcq(A), 4mcr(A), 4mcs(A), 4ngn(A), 4ngp(A), 4ngr(A), 4ngs(A), 4ngt(A), 4oc0(A), 4oc1(A), 4oc3(A), 4oc4(A), 4oc5(A), 4ome(A), 4p44(A), 4p4i(A), 4p4j(A), 4w9y(A), 5d29(A), 5ely(A), 5f09(A), 5o5r(A), 5o5t(A), 6ety(A), 6ez9(A), 6f5l(A), 6fe5(A), 6h7y(A), 6hkj(A), 6hkz(A), 6rbc(A), 6s1x(A).


 
2. Ligand: NAG-NAG × 14
NAG=2-Acetamido-2-Deoxy-Beta-D-Glucopyranose.
PDB codes: 1z8l(A), 4jyw(A), 4ngm(A), 4ngq(A), 4p4b(A), 4p4d(A), 4p4f(A), 4x3r(A), 5o5u(A), 5of0(A), 6h7z(A), 6rti(A), 6sgp(A), 6skh(A).


 
3. Ligand: NAG-NAG-FUC × 3
NAG=2-Acetamido-2-Deoxy-Beta-D-Glucopyranose, FUC=Alpha-L-Fucopyranose.
PDB codes: 4lqg(A), 4p45(A), 4p4e(A).


 
4. Ligand: NAG-FUC × 1
NAG=2-Acetamido-2-Deoxy-Beta-D-Glucopyranose, FUC=Alpha-L-Fucopyranose.
PDB code: 4oc2(A).

 

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