Ligand clusters for UniProt code P02699

Ligand clusters for P02699: Rhodopsin OS=Bos taurus GN=RHO PE=1 SV=1

		Top 6 (of 20) ligand clusters Cluster 1. 6 ligand types 19 ligands Cluster 2. 7 ligand types 25 ligands Cluster 3. 3 ligand types 8 ligands Cluster 4. 4 ligand types 11 ligands Cluster 5. 3 ligand types 9 ligands Cluster 6. 1 ligand type 1 ligand
Representative protein: 1n3mA

Structures

PDB		Schematic diagram
1n3mA
1ln6A
3dqbA
4j4qA
3capA
		more ...

Cluster 1 contains 6 ligand types

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Ligand		Description
		1. Ligand: NAG × 2 n-acetylglucosamine N-Acetyl-D-Glucosamine PDB codes: 3c9m(A), 6fuf(A).
		2. Ligand: NAG-NAG-BMA-MAN × 7 NAG=N-Acetyl-D-Glucosamine, BMA=Beta-D-Mannose, MAN=Alpha-D-Mannose. PDB codes: 3dqb(A), 3pqr(A), 3pxo(A), 4j4q(A), 4pxf(A), 5te3(A), 5wkt(A).
		3. Ligand: NAG-NAG-BMA-BMA × 6 NAG=N-Acetyl-D-Glucosamine, BMA=Beta-D-Mannose. PDB codes: 3cap(A), 4x1h(A), 6nwe(A), 6pel(A), 6pgs(A), 6ph7(A).
		4. Ligand: NAG-NAG × 2 NAG=N-Acetyl-D-Glucosamine. PDB codes: 1f88(A), 6qno(R).
		5. Ligand: NAG-NAG-BMA × 1 PDB code: 3c9l(A).
		6. Ligand: NAG-NAG-MAN × 1 NAG=N-Acetyl-D-Glucosamine, MAN=Alpha-D-Mannose. PDB code: 1f88(B).

Cluster 2 contains 7 ligand types

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Ligand		Description
		1. Ligand: 64Z × 1 geraniol Geraniol PDB code: 6pgs(A).
		2. Ligand: RET × 15 Retinal PDB codes: 1f88(A), 1jfp(A), 1ln6(A), 1n3m(A), 1ov0(A), 1ov1(A), 3c9l(A), 3c9m(A), 3pqr(A), 3pxo(A), 6fuf(A), 6oy9(R), 6oya(R), 6qno(R).
		3. Ligand: BOG × 5 B-Octylglucoside PDB codes: 4j4q(A), 4pxf(A), 5te3(A), 5wkt(A), 6nwe(A).
		4. Ligand: ACT × 1 Acetate ion PDB code: 4j4q(A).
		5. Ligand: BNG × 1 B-Nonylglucoside PDB code: 4x1h(A).
		6. Ligand: NZZ × 1 (2z)-3,7-Dimethylocta-2,6-Dien-1-Ol PDB code: 6ph7(A).
		7. Ligand: ODM × 1 (3r)-3,7-Dimethyloct-6-En-1-Ol PDB code: 6pel(A).

Cluster 3 contains 3 ligand types

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Ligand		Description
		1. Ligand: NAG × 1 n-acetylglucosamine N-Acetyl-D-Glucosamine PDB code: 3pqr(A).
		2. Ligand: NAG-NAG × 6 NAG=N-Acetyl-D-Glucosamine. PDB codes: 1f88(A), 3cap(A), 3dqb(A), 3pxo(A), 4x1h(A).
		3. Ligand: NAG-NAG-BMA × 1 PDB code: 3c9l(A).

Cluster 4 contains 4 ligand types

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Ligand		Description
		1. Ligand: SO4 × 5 Sulfate ion PDB codes: 3pqr(A), 4j4q(A), 4pxf(A), 5te3(A), 6nwe(A).
		2. Ligand: BOG × 3 B-Octylglucoside PDB codes: 3dqb(A), 3pqr(A), 4pxf(A).
		3. Ligand: BGL × 2 B-2-Octylglucoside PDB codes: 3cap(A),
		4. Ligand: C8E × 1 PDB code: 3c9l(A).

Cluster 5 contains 3 ligand types

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Ligand		Description
		1. Ligand: BOG × 7 B-Octylglucoside PDB codes: 3dqb(A), 3pxo(A), 4j4q(A), 5te3(A), 5wkt(A), 6nwe(A), 6pel(A).
		2. Ligand: BGL × 1 B-2-Octylglucoside PDB code: 3cap(A).
		3. Ligand: C8E × 1 PDB code: 3c9l(A).

Cluster 6 contains 1 ligand type

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Ligand		Description
		1. Ligand: ASP-ILE-ASP-VAL-MET-GLY-LEU × 1 PDB code: 4pxf(A).