Ligand clusters for UniProt code L0DSL2

Ligand clusters for L0DSL2: Cytochrome c-552 from Thioalkalivibrio nitratireducens (strain DSM 14787 / UNIQEM 213 / ALEN2)

		Top 6 (of 26) ligand clusters Cluster 1. 13 ligand types 271 ligands Cluster 2. 5 ligand types 24 ligands Cluster 3. 3 ligand types 12 ligands Cluster 4. 2 ligand types 10 ligands Cluster 5. 1 ligand type 1 ligand Cluster 6. 1 ligand type 1 ligand
Representative protein: 3gm6A

Structures

PDB		Schematic diagram
3gm6A
3uu9A
3owmA
3rkhA
3sceA
		more ...

Cluster 1 contains 13 ligand types

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Ligand		Description
		1. Ligand: GOL × 5 glycerin Glycerol PDB codes: 3s7w(A), 4l38(A), 4l3x(A), 4l3y(A), 4l3z(A).
		2. Ligand: HEC × 216 Heme c PDB codes: 2ot4(A), 2zo5(A), 3d1i(A), 3f29(A), 3fo3(A), 3gm6(A), 3lg1(A), 3lgq(A), 3mmo(A), 3owm(A), 3rkh(A), 3s7w(A), 3sce(A), 3uu9(A), 4l38(A), 4l3x(A), 4l3y(A), 4l3z(A), 4q0t(A), 4q17(A), 4q1o(A), 4q4u(A), 4q5b(A), 4q5c(A),
_Ca		3. Metal: _CA × 14 PDB codes: 2zo5(A), 3d1i(A), 3f29(A), 3fo3(A), 3lg1(A), 3mmo(A), 3owm(A), 3s7w(A), 3sce(A), 3uu9(A), 4l38(A), 4l3x(A), 4l3y(A), 4l3z(A).
		4. Ligand: SO3 × 11 Sulfite ion PDB codes: 3f29(A), 3fo3(A), 3lg1(A), 3lgq(A), 4q4u(A), 4q5b(A), 4q5c(A),
		5. Ligand: PG4 × 10 Tetraethylene glycol PDB codes: 2zo5(A), 3d1i(A), 3f29(A), 3fo3(A), 3lg1(A), 3mmo(A), 3owm(A), 3sce(A),
		6. Ligand: ACT × 6 Acetate ion PDB codes: 4q4u(A), 4q5b(A), 4q5c(A),
		7. Ligand: PG6 × 2 1-(2-Methoxy-Ethoxy)-2-{2-[2-(2-Methoxy-Ethoxy]- Ethoxy}-Ethane PDB codes: 3mmo(A), 3owm(A).
		8. Ligand: PO4 × 2 Phosphate ion PDB codes: 3gm6(A), 3sce(A).
		9. Ligand: MPD × 1 (4s)-2-Methyl-2,4-Pentanediol PDB code: 3gm6(A).
		10. Ligand: MRD × 1 (4r)-2-Methylpentane-2,4-Diol PDB code: 2ot4(A).
		11. Ligand: PG6-PG4 × 1 PG6=1-(2-Methoxy-Ethoxy)-2-{2-[2-(2-Methoxy-Ethoxy]- Ethoxy}-Ethane, PG4=Tetraethylene glycol. PDB code: 3lg1(A).
		12. Ligand: SO4 × 1 Sulfate ion PDB code: 3fo3(A).
_Na		13. Metal: _NA × 1 PDB code: 3lg1(A).

Cluster 2 contains 5 ligand types

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Ligand		Description
		1. Ligand: GOL × 1 glycerin Glycerol PDB code: 3s7w(A).
		2. Ligand: MPD × 13 (4s)-2-Methyl-2,4-Pentanediol PDB codes: 2ot4(A), 3gm6(A), 3lgq(A), 4l38(A), 4l3x(A), 4l3y(A), 4l3z(A), 4q0t(A), 4q17(A), 4q1o(A), 4q4u(A), 4q5b(A), 4q5c(A).
		3. Ligand: PG4 × 7 Tetraethylene glycol PDB codes: 2zo5(A), 3d1i(A), 3f29(A), 3fo3(A), 3mmo(A), 3owm(A), 3uu9(A).
		4. Ligand: PG6 × 2 1-(2-Methoxy-Ethoxy)-2-{2-[2-(2-Methoxy-Ethoxy]- Ethoxy}-Ethane PDB codes: 3lg1(A), 3sce(A).
		5. Ligand: MRD × 1 (4r)-2-Methylpentane-2,4-Diol PDB code: 3rkh(A).

Cluster 3 contains 3 ligand types

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Ligand		Description
		1. Ligand: PG6 × 8 1-(2-Methoxy-Ethoxy)-2-{2-[2-(2-Methoxy-Ethoxy]- Ethoxy}-Ethane PDB codes: 3fo3(A), 3lg1(A), 3mmo(A), 3owm(A),
		2. Ligand: MRD × 2 (4r)-2-Methylpentane-2,4-Diol PDB codes: 2ot4(A),
		3. Ligand: PG4 × 2 Tetraethylene glycol PDB codes: 2zo5(A),

Cluster 4 contains 2 ligand types

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Ligand		Description
		1. Ligand: PG6 × 7 1-(2-Methoxy-Ethoxy)-2-{2-[2-(2-Methoxy-Ethoxy]- Ethoxy}-Ethane PDB codes: 2zo5(A), 3d1i(A), 3f29(A), 3fo3(A), 3lg1(A), 3owm(A), 3sce(A).
		2. Ligand: PG4 × 3 Tetraethylene glycol PDB codes: 3mmo(A), 3uu9(A),

Cluster 5 contains 1 ligand type

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Ligand		Description
		1. Ligand: PG6 × 1 1-(2-Methoxy-Ethoxy)-2-{2-[2-(2-Methoxy-Ethoxy]- Ethoxy}-Ethane PDB code: 3fo3(A).

Cluster 6 contains 1 ligand type

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Ligand		Description
		1. Ligand: PG6 × 1 1-(2-Methoxy-Ethoxy)-2-{2-[2-(2-Methoxy-Ethoxy]- Ethoxy}-Ethane PDB code: 3fo3(A).