Ligand clusters for UniProt code P04825

Ligand clusters for P04825: Aminopeptidase N OS=Escherichia coli (strain K12) OX=83333 GN=pepN PE=1 SV=2

		Top 6 (of 84) ligand clusters Cluster 1. 35 ligand types 183 ligands Cluster 2. 6 ligand types 29 ligands Cluster 3. 4 ligand types 31 ligands Cluster 4. 4 ligand types 37 ligands Cluster 5. 3 ligand types 15 ligands Cluster 6. 3 ligand types 4 ligands
Representative protein: 4xo4A

Structures

PDB		Schematic diagram
4xo4A
6g8bA
4xn5A
5yo1A
4xn2A
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Cluster 1 contains 35 ligand types (of which only 20 are listed. Click for all)

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Ligand		Description
		1. Ligand: GOL × 49 glycerin Glycerol PDB codes: 2zxg(A), 3b2p(A), 3b2x(A), 3b34(A), 3ked(A), 3qjx(A), 4q4e(A), 4xmt(A), 4xmv(A), 4xn2(A), 4xn4(A), 4xn7(A), 4xna(A), 4xnb(A), 4xnd(A), 4xo3(A), 4xo5(A), 5mfr(A), 5mfs(A), 5mft(A), 5yo1(A), 5yq1(A).
		2. Ligand: MET × 2 methionine PDB codes: 4xn4(A), 4xo4(A).
		3. Ligand: PHE × 2 phenylalanine PDB codes: 3b34(A), 4xn5(A).
		4. Ligand: ASP × 1 aspartic acid PDB code: 4xmw(A).
		5. Ligand: LYS × 1 l-lysine PDB code: 3b2x(A).
		6. Ligand: BES × 2 2-(3-Amino-2-Hydroxy-4-Phenyl-Butyrylamino)-4-Methyl- Pentanoic acid PDB codes: 2dqm(A), 2hpt(A).
		7. Ligand: SO4 × 1 Sulfate ion PDB code: 2dq6(A).
_Zn		8. Metal: _ZN × 42 PDB codes: 2dq6(A), 2dqm(A), 2hpo(A), 2hpt(A), 2zxg(A), 3b2p(A), 3b2x(A), 3b34(A), 3b37(A), 3b3b(A), 3ked(A), 3puu(A), 3qjx(A), 4q4e(A), 4q4i(A), 4xmt(A), 4xmu(A), 4xmv(A), 4xmw(A), 4xmx(A), 4xmz(A), 4xn1(A), 4xn2(A), 4xn4(A), 4xn5(A), 4xn7(A), 4xn8(A), 4xn9(A), 4xna(A), 4xnb(A), 4xnd(A), 4xo3(A), 4xo4(A), 4xo5(A), 5mfr(A), 5mfs(A), 5mft(A), 5yo1(A), 5yq1(A), 5yq2(A), 5yqb(A), 6g8b(A).
		9. Ligand: MLI × 29 Malonate ion PDB codes: 3b2x(A), 3b34(A), 3b3b(A), 4xmt(A), 4xmw(A), 4xmx(A), 4xn1(A), 4xn5(A), 4xn7(A), 4xn8(A), 4xna(A), 4xnb(A), 4xnd(A), 4xo3(A), 4xo5(A), 5mfr(A), 5mfs(A), 5mft(A), 5yq2(A).
_Na		10. Metal: _NA × 19 PDB codes: 3qjx(A), 4xmw(A), 4xmz(A), 4xn1(A), 4xn2(A), 4xn4(A), 4xn7(A), 4xn8(A), 4xnd(A), 4xo4(A), 5mfr(A).
		11. Ligand: BES × 1 2-(3-Amino-2-Hydroxy-4-Phenyl-Butyrylamino)-4-Methyl- Pentanoic acid PDB code: 4xmx(A).
		12. Ligand: 0A1 × 2 O-Methyl-L-Tyrosine PDB codes: 5yq1(A), 5yqb(A).
		13. Ligand: 7MF × 2 [(7~{s})-1-Bromanyl-6,6-Bis(oxidanyl)-4-Phenyl-5,7,8,9- Tetrahydrobenzo[7]annulen-7-Yl]azanium PDB codes: 5mft(A), 6g8b(A).
		14. Ligand: ALA × 2 PDB codes: 4xmu(A), 4xn8(A).
		15. Ligand: ARG × 2 PDB codes: 3b2p(A), 4xmv(A).
		16. Ligand: DAB × 2 2,4-Diaminobutyric acid PDB codes: 3ked(A), 4xmz(A).
		17. Ligand: DPP × 2 Diaminopropanoic acid PDB codes: 4xmt(A), 4xn7(A).
		18. Ligand: GLU × 2 PDB codes: 4xn1(A), 4xo5(A).
		19. Ligand: GMC × 2 (2r,3r,4s,5s)-4-Amino-2-[6-(Dimethylamino)-9h-Purin-9- Yl]-5-(Hydroxymethyl)tetrahydro-3-Furanol PDB codes: 5yq2(A), 5yqb(A).
		20. Ligand: LEU × 2 PDB codes: 4xn2(A), 4xo3(A).
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Cluster 2 contains 6 ligand types

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Ligand		Description
		1. Ligand: GOL × 11 glycerin Glycerol PDB codes: 4xmt(A), 4xn2(A), 4xn7(A), 4xnb(A), 4xnd(A), 5mfs(A), 5yo1(A).
		2. Ligand: MLI × 14 Malonate ion PDB codes: 3b2p(A), 3b2x(A), 3b37(A), 3qjx(A), 4xmu(A), 4xmv(A), 4xmw(A), 4xmx(A), 4xn4(A), 4xna(A), 4xnd(A), 4xo3(A), 4xo4(A), 5yq1(A).
		3. Ligand: GLU × 1 PDB code: 4xo5(A).
		4. Ligand: MLA × 1 Malonic acid PDB code: 3ked(A).
_Cl		5. Metal: _CL × 1 PDB code: 5mfs(A).
_Na		6. Metal: _NA × 1 PDB code: 4xo5(A).

Cluster 3 contains 4 ligand types

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Ligand		Description
		1. Ligand: GOL × 22 glycerin Glycerol PDB codes: 2hpo(A), 2hpt(A), 3b2p(A), 3b2x(A), 3b37(A), 3b3b(A), 3ked(A), 3puu(A), 3qjx(A), 4q4i(A), 4xmt(A), 4xmu(A), 4xmv(A), 4xn5(A), 4xn7(A), 4xna(A), 4xnb(A), 4xnd(A), 4xo5(A), 5yo1(A), 5yq1(A), 5yq2(A).
		2. Ligand: MLI × 4 Malonate ion PDB codes: 4xmx(A), 4xn9(A), 5mfs(A), 5mft(A).
_Na		3. Metal: _NA × 4 PDB codes: 4xmx(A), 4xmz(A), 4xo4(A), 4xo5(A).
		4. Ligand: MLI-GOL × 1 MLI=Malonate ion, GOL=Glycerol. PDB code: 3b34(A).

Cluster 4 contains 4 ligand types

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Ligand		Description
		1. Ligand: GOL × 5 glycerin Glycerol PDB codes: 4xmx(A), 4xn2(A), 4xn7(A), 4xna(A), 4xo5(A).
		2. Ligand: MET × 2 methionine PDB codes: 4xn4(A), 4xo4(A).
_Na		3. Metal: _NA × 26 PDB codes: 3b2p(A), 3b2x(A), 3b34(A), 3b37(A), 3b3b(A), 3ked(A), 3qjx(A), 4q4i(A), 4xmt(A), 4xmx(A), 4xn2(A), 4xn4(A), 4xn7(A), 4xn8(A), 4xo3(A), 4xo4(A), 4xo5(A), 5mfr(A), 5mfs(A), 5mft(A).
		4. Ligand: MLI × 4 Malonate ion PDB codes: 4xmx(A), 4xn4(A), 4xnd(A), 5yq1(A).

Cluster 5 contains 3 ligand types

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Ligand		Description
		1. Ligand: GOL × 7 glycerin Glycerol PDB codes: 3b2x(A), 4q4e(A), 4xmt(A), 5mfr(A), 5mfs(A), 5mft(A), 5yo1(A).
		2. Ligand: MET × 1 methionine PDB code: 4xn4(A).
		3. Ligand: MLI × 7 Malonate ion PDB codes: 4xmv(A), 4xn1(A), 4xn5(A), 4xna(A), 4xo5(A), 5yq1(A), 5yq2(A).

Cluster 6 contains 3 ligand types

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Ligand		Description
		1. Ligand: MET × 2 methionine PDB codes: 4xn4(A), 4xo4(A).
		2. Ligand: GOL × 1 glycerin Glycerol PDB code: 4xn7(A).
		3. Ligand: MLI × 1 Malonate ion PDB code: 4xn2(A).