Ligand clusters for UniProt code N0DKS8

Ligand clusters for N0DKS8: Sodium pumping rhodopsin from Dokdonia eikasta

		Top 6 (of 10) ligand clusters Cluster 1. 10 ligand types 631 ligands Cluster 2. 1 ligand type 2 ligands Cluster 3. 1 ligand type 1 ligand Cluster 4. 1 ligand type 1 ligand Cluster 5. 1 ligand type 25 ligands Cluster 6. 1 ligand type 18 ligands
Representative protein: 4xtnA

Structures

PDB		Schematic diagram
4xtnA
6rf0A
4xtoA
6rf1A
6yc1A
		more ...

Cluster 1 contains 10 ligand types

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Ligand		Description
		1. Ligand: GOL × 11 glycerin Glycerol PDB codes: 4xtl(A), 6rf5(A), 6rf9(A), 6rfa(A), 6rfb(A), 6rfc(A), 6xyt(A), 6yc0(A), 6yc4(A).
		2. Ligand: LFA × 453 Eicosane PDB codes: 4xtl(A), 4xtn(A), 4xto(A), 5jrf(A), 6rew(A), 6rex(A), 6rez(A), 6rf0(A), 6rf1(A), 6rf3(A), 6rf4(A), 6rf5(A), 6rf6(A), 6rf7(A), 6rf9(A), 6rfa(A), 6rfb(A), 6rfc(A), 6tk1(A), 6tk2(A), 6tk3(A), 6tk4(A), 6tk5(A), 6tk6(A), 6tk7(A), 6xyt(A), 6yby(A), 6ybz(A), 6yc0(A), 6yc1(A), 6yc2(A), 6yc3(A), 6yc4(A), 6yt4(A),
		3. Ligand: OLC × 104 (2r)-2,3-Dihydroxypropyl (9z)-Octadec-9-Enoate PDB codes: 6rew(A), 6rex(A), 6rez(A), 6rf0(A), 6rf1(A), 6rf3(A), 6rf4(A), 6rfc(A), 6xyt(A), 6ybz(A), 6yc0(A), 6yc1(A), 6yc2(A), 6yc3(A), 6yc4(A), 6yt4(A).
		4. Ligand: RET × 29 Retinal PDB codes: 3x3b(A), 3x3c(A), 6rew(A), 6rex(A), 6rez(A), 6rf0(A), 6rf1(A), 6rf4(A), 6rf5(A), 6rf6(A), 6rf7(A), 6rf9(A), 6rfa(A), 6rfb(A), 6rfc(A), 6tk1(A), 6tk2(A), 6tk3(A), 6tk4(A), 6tk5(A), 6tk6(A), 6tk7(A), 6yby(A), 6ybz(A), 6yc0(A), 6yc1(A), 6yc3(A), 6yc4(A), 6yt4(A).
		5. Ligand: OLA × 20 Oleic acid PDB codes: 3x3b(A), 3x3c(A), 6xyt(A), 6yc0(A), 6yc2(A), 6yc4(A), 6yt4(A),
		6. Ligand: BOG × 10 B-Octylglucoside PDB codes: 6rew(A), 6rex(A), 6rf1(A), 6rf3(A), 6rf4(A), 6xyt(A), 6ybz(A), 6yc1(A), 6yc3(A), 6yt4(A).
Iod		7. Metal: IOD × 1 PDB code: 5jrf(A).
		8. Ligand: LFA-GOL × 1 LFA=Eicosane, GOL=Glycerol. PDB code: 4xtl(A).
		9. Ligand: MPG × 1 [(Z)-Octadec-9-Enyl] (2r)-2,3-Bis(oxidanyl)propanoate PDB code: 4xtn(A).
		10. Ligand: PEG × 1 Di(hydroxyethyl)ether PDB code: 3x3b(A).

Cluster 2 contains 1 ligand type

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Ligand		Description
		1. Ligand: GOL × 2 glycerin Glycerol PDB codes: 6rf9(A),

Cluster 3 contains 1 ligand type

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Ligand		Description
		1. Ligand: GOL × 1 glycerin Glycerol PDB code: 6rfc(A).

Cluster 4 contains 1 ligand type

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Ligand		Description
		1. Ligand: GOL × 1 glycerin Glycerol PDB code: 6rfc(A).

Cluster 5 contains 1 ligand type

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Ligand		Description
_Na		1. Metal: _NA × 25 PDB codes: 4xtl(A), 4xtn(A), 4xto(A), 6rew(A), 6rex(A), 6rez(A), 6rf0(A), 6rf1(A), 6rf3(A), 6rf4(A), 6rf5(A), 6rf6(A), 6rf9(A), 6rfa(A), 6rfb(A), 6rfc(A), 6xyt(A), 6yby(A), 6ybz(A), 6yc0(A), 6yc1(A), 6yc2(A), 6yc3(A), 6yc4(A), 6yt4(A).

Cluster 6 contains 1 ligand type

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Ligand		Description
_Na		1. Metal: _NA × 18 PDB codes: 4xtn(A), 4xto(A), 6rew(A), 6rex(A), 6rez(A), 6rf0(A), 6rf1(A), 6rf3(A), 6rf4(A), 6xyt(A), 6ybz(A), 6yc0(A), 6yc1(A), 6yc2(A), 6yc3(A), 6yc4(A), 6yt4(A).