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EBI Databases Structure Databases PDBsum

Ligand clusters for UniProt code P00163

Ligand clusters for P00163: Cytochrome b from Saccharomyces cerevisiae (strain ATCC 204508 / S288c)

6 ligand clusters
Cluster 1.
17 ligand types
69 ligands
 Cluster 2.
9 ligand types
21 ligands
 Cluster 3.
4 ligand types
8 ligands
 Cluster 4.
1 ligand type
2 ligands
 Cluster 5.
1 ligand type
3 ligands
 Cluster 6.
1 ligand type
13 ligands
Representative protein: 1ezvC  
JSmol
 

Structures

PDB   Schematic diagram
1ezvC    
3cx5C    
3cxhC    
1p84C    
4pd4C    
 more ...

 

 Cluster 1 contains 17 ligand types

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Ligand Description


 
1. Ligand: PCF × 1
colfosceril palmitate
1,2-Diacyl-Sn-Glycero-3-Phoshocholine
PDB code: 1kb9(C).


 
2. Ligand: UQ6 × 4
5-(3,7,11,15,19,23-Hexamethyl-Tetracosa-2,6,10,14,18, 22-Hexaenyl)-2,3-Dimethoxy-6-Methyl-Benzene-
1,4-Diol
PDB codes: 1ezv(C), 1kb9(C), 1p84(C), 2ibz(C).


 
3. Ligand: HEM × 5
Protoporphyrin IX containing fe
PDB codes: 1ezv(C), 1kb9(C), 1kyo(C), 1p84(C), 2ibz(C).


 
4. Ligand: PIE × 1
1,2-Diacyl-Sn-Glycero-3-Phosphoinositol
PDB code: 1kb9(C).


 
5. Ligand: PEF × 1
Di-Palmitoyl-3-Sn-Phosphatidylethanolamine
PDB code: 1kb9(C).


 
6. Ligand: 3PH × 2
1,2-Diacyl-Glycerol-3-Sn-Phosphate
PDB codes: 1p84(C),


 
7. Ligand: 3PE × 1
1,2-Diacyl-Sn-Glycero-3-Phosphoethanolamine
PDB code: 1p84(C).


 
8. Ligand: PEF × 17
Di-Palmitoyl-3-Sn-Phosphatidylethanolamine
PDB codes: 6hu9(C), 6t0b(C), 6t15(C),


 
9. Ligand: HEM × 8
Protoporphyrin IX containing fe
PDB codes: 3cx5(C), 3cxh(C), 4pd4(C), 6giq(C), 6hu9(C), 6t0b(C), 6t15(C), 6ymx(C).


 
10. Ligand: 9PE × 8
(1r)-2-{[(S)-(2-Aminoethoxy)(hydroxy)phosphoryl]oxy}-1- [(Heptanoyloxy)methyl]ethyl octadecanoate
PDB codes: 3cx5(C), 3cxh(C), 6giq(C), 6ymx(C),


 
11. Ligand: UQ6 × 4
5-(3,7,11,15,19,23-Hexamethyl-Tetracosa-2,6,10,14,18, 22-Hexaenyl)-2,3-Dimethoxy-6-Methyl-Benzene-
1,4-Diol
PDB codes: 4pd4(C), 6giq(C), 6hu9(C), 6ymx(C).


 
12. Ligand: 3PH × 2
1,2-Diacyl-Glycerol-3-Sn-Phosphate
PDB codes: 4pd4(C),


 
13. Ligand: 6PH × 4
(1r)-2-(Phosphonooxy)-1-[(Tridecanoyloxy)methyl]ethyl pentadecanoate
PDB codes: 3cx5(C), 3cxh(C), 6giq(C), 6ymx(C).


 
14. Ligand: 7PH × 4
(1r)-2-(Dodecanoyloxy)-1-[(Phosphonooxy)methyl]ethyl tetradecanoate
PDB codes: 3cx5(C), 3cxh(C), 6giq(C), 6ymx(C).


 
15. Ligand: CDL × 3
Cardiolipin
PDB codes: 6hu9(C), 6t0b(C), 6t15(C).


 
16. Ligand: CN5 × 3
(5s,11r)-5,8,11-Trihydroxy-5,11-Dioxido-17-Oxo-4,6,10, 12,16-Pentaoxa-5,11-Diphosphaoctadec-1-
Yl pentadecanoate
PDB codes: 3cx5(C), 6giq(C), 6ymx(C).


 
17. Ligand: 3PE × 1
1,2-Diacyl-Sn-Glycero-3-Phosphoethanolamine
PDB code: 4pd4(C).

 

 Cluster 2 contains 9 ligand types

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Ligand Description


 
1. Ligand: PCF × 3
colfosceril palmitate
1,2-Diacyl-Sn-Glycero-3-Phoshocholine
PDB codes: 6hu9(C), 6t0b(C), 6t15(C).


 
2. Ligand: PEF × 1
Di-Palmitoyl-3-Sn-Phosphatidylethanolamine
PDB code: 1kb9(C).


 
3. Ligand: 3PE × 1
1,2-Diacyl-Sn-Glycero-3-Phosphoethanolamine
PDB code: 1p84(C).


 
4. Ligand: PC1 × 1
1,2-Diacyl-Sn-Glycero-3-Phosphocholine
PDB code: 1p84(C).


 
5. Ligand: CDL × 8
Cardiolipin
PDB codes: 1kb9(C), 1p84(C), 6hu9(C), 6t0b(C), 6t15(C),


 
6. Ligand: 8PE × 4
(2r)-3-{[(S)-(2-Aminoethoxy)(hydroxy)phosphoryl]oxy}-2- (Tetradecanoyloxy)propyl octadecanoate
PDB codes: 3cx5(C), 3cxh(C), 6giq(C), 6ymx(C).


 
7. Ligand: 3PH × 1
1,2-Diacyl-Glycerol-3-Sn-Phosphate
PDB code: 4pd4(C).


 
8. Ligand: CN3 × 1
(2r,5s,11r,14r)-5,8,11-Trihydroxy-2-(Nonanoyloxy)-5,11- Dioxido-16-Oxo-14-[(Propanoyloxy)methyl]-
4,6,10,12,15- Pentaoxa-5,11-Diphosphanonadec-1-Yl undecanoate
PDB code: 3cx5(C).


 
9. Ligand: CN6 × 1
(2r,5r,11s,14r)-2-(Butanoyloxy)-5,8,11-Trihydroxy-5,11- Dioxido-16-Oxo-14-[(Propanoyloxy)methyl]-
4,6,10,12,15- Pentaoxa-5,11-Diphosphanonadec-1-Yl undecanoate
PDB code: 3cxh(C).

 

 Cluster 3 contains 4 ligand types

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Ligand Description


 
1. Ligand: AOQ × 1
atovaquone
2-[Trans-4-(4-Chlorophenyl)cyclohexyl]-3- Hydroxynaphthalene-1,4-Dione
PDB code: 4pd4(C).


 
2. Ligand: SMA × 4
Stigmatellin a
PDB codes: 1ezv(C), 1kb9(C), 1kyo(C), 2ibz(C).


 
3. Ligand: DBT × 1
5-Heptyl-6-Hydroxy-1,3-Benzothiazole-4,7-Dione
PDB code: 1p84(C).


 
4. Ligand: SMA × 2
Stigmatellin a
PDB codes: 3cx5(C), 3cxh(C).

 

 Cluster 4 contains 1 ligand type

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Ligand Description


 
1. Ligand: PEF × 2
Di-Palmitoyl-3-Sn-Phosphatidylethanolamine
PDB codes: 6hu9(C), 6t15(C).

 

 Cluster 5 contains 1 ligand type

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Ligand Description


 
1. Ligand: PEF × 3
Di-Palmitoyl-3-Sn-Phosphatidylethanolamine
PDB codes: 6hu9(C), 6t0b(C), 6t15(C).

 

 Cluster 6 contains 1 ligand type

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Ligand Description


 
1. Ligand: HEM × 13
Protoporphyrin IX containing fe
PDB codes: 1ezv(C), 1kb9(C), 1kyo(C), 1p84(C), 2ibz(C), 3cx5(C), 3cxh(C), 4pd4(C), 6giq(C), 6hu9(C), 6t0b(C), 6t15(C), 6ymx(C).

 

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