Ligand clusters for UniProt code P0C0Y9

Ligand clusters for P0C0Y9: Reaction center protein M chain from Rhodobacter sphaeroides

		Top 6 (of 17) ligand clusters Cluster 1. 35 ligand types 1046 ligands Cluster 2. 10 ligand types 111 ligands Cluster 3. 4 ligand types 4 ligands Cluster 4. 4 ligand types 8 ligands Cluster 5. 4 ligand types 10 ligands Cluster 6. 3 ligand types 4 ligands
Representative protein: 2j8dM

Structures

PDB		Schematic diagram
2j8dM
1rg5M
1mpsM
1jgwM
1jgzM
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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 × 8 glycerin Glycerol PDB codes: 1rzh(M), 2hg9(M), 2hhk(M), 2hj6(M), 3i4d(M),
		2. Ligand: _UQ × 2 ubidecarenone Coenzyme q10, (2z,6e,10z,14e,18e,22e,26z)-Isomer PDB codes: 2rcr(M),
_Mg		3. Metal: _MG × 1 PDB code: 4in7(M).
		4. Ligand: BCL × 366 Bacteriochlorophyll a PDB codes: 1aig(M), 1aij(M), 1ds8(M), 1dv3(M), 1dv6(M), 1e14(M), 1e6d(M), 1f6n(M), 1fnp(M), 1fnq(M), 1jgw(M), 1jgx(M), 1jgy(M), 1jgz(M), 1jh0(M), 1k6l(M), 1k6n(M), 1kby(M), 1l9b(M), 1l9j(M), 1m3x(M), 1mps(M), 1ogv(M), 1pcr(M), 1pss(M), 1pst(M), 1qov(M), 1rg5(M), 1rgn(M), 1rqk(M), 1rvj(M), 1ry5(M), 1rzh(M), 1rzz(M), 1s00(M), 1umx(M), 1yf6(M), 1yst(M), 1z9j(B), 1z9k(B), 2bnp(B), 2bns(B), 2boz(M), 2gmr(M), 2gnu(M), 2hg3(M), 2hg9(M), 2hh1(M), 2hhk(M), 2hit(M), 2hj6(M), 2j8c(M), 2j8d(M), 2jiy(M), 2jj0(M), 2rcr(M), 2uws(M), 2uwt(M), 2uwu(M), 2uwv(M), 2uww(M), 2ux3(M), 2ux4(M), 2uxj(M), 2uxk(M), 2uxl(M), 2uxm(M), 3dsy(M), 3dta(M), 3dtr(M), 3dts(M), 3du2(M), 3du3(M), 3duq(M), 3i4d(M), 3v3y(M), 3v3z(M), 3zum(M), 3zuw(M), 4h99(M), 4h9l(M), 4hbh(M), 4hbj(M), 4in7(M), 4jc9(M), 4jcb(M), 4lwy(M), 4tqq(M), 5lse(M), 5v33(M), 6z02(M), 6z1j(M), 6z27(M),
		5. Ligand: LDA × 245 Lauryl dimethylamine-N-Oxide PDB codes: 1aij(M), 1ds8(M), 1dv3(M), 1dv6(M), 1e14(M), 1e6d(M), 1f6n(M), 1fnp(M), 1fnq(M), 1k6l(M), 1k6n(M), 1l9b(M), 1l9j(M), 1mps(M), 1pcr(M), 1rg5(M), 1rgn(M), 1rqk(M), 1rvj(M), 1ry5(M), 1rzh(M), 1rzz(M), 1umx(M), 1yf6(M), 2boz(M), 2gmr(M), 2gnu(M), 2hg3(M), 2hg9(M), 2hh1(M), 2hhk(M), 2hit(M), 2hj6(M), 2j8c(M), 2j8d(M), 2jiy(M), 2uws(M), 2uwt(M), 2uwu(M), 2uwv(M), 2uww(M), 2ux3(M), 2ux4(M), 2uxj(M), 2uxk(M), 2uxl(M), 2uxm(M), 3dsy(M), 3dta(M), 3dtr(M), 3dts(M), 3du2(M), 3du3(M), 3duq(M), 3i4d(M), 3v3y(M), 3v3z(M), 3zum(M), 3zuw(M), 4in7(M), 4lwy(M), 4n7k(M), 5lse(M), 6z02(M), 6z1j(M), 6z27(M),
		6. Ligand: BPH × 184 Bacteriopheophytin a PDB codes: 1aig(M), 1aij(M), 1ds8(M), 1dv3(M), 1dv6(M), 1e14(M), 1e6d(M), 1f6n(M), 1fnp(M), 1fnq(M), 1jgw(M), 1jgx(M), 1jgy(M), 1jgz(M), 1jh0(M), 1k6l(M), 1k6n(M), 1kby(M), 1l9b(M), 1l9j(M), 1m3x(M), 1mps(M), 1ogv(M), 1pcr(M), 1pss(M), 1pst(M), 1qov(M), 1rg5(M), 1rgn(M), 1rqk(M), 1rvj(M), 1ry5(M), 1rzh(M), 1rzz(M), 1s00(M), 1yf6(M), 1yst(M), 1z9j(B), 1z9k(B), 2bnp(B), 2bns(B), 2boz(M), 2gmr(M), 2gnu(M), 2hg3(M), 2hg9(M), 2hh1(M), 2hhk(M), 2hit(M), 2hj6(M), 2j8c(M), 2j8d(M), 2jiy(M), 2jj0(M), 2rcr(M), 2uws(M), 2uwt(M), 2uwu(M), 2uwv(M), 2uww(M), 2ux3(M), 2ux4(M), 2uxj(M), 2uxk(M), 2uxl(M), 2uxm(M), 3dsy(M), 3dta(M), 3dtr(M), 3dts(M), 3du2(M), 3du3(M), 3duq(M), 3i4d(M), 3v3y(M), 3v3z(M), 3zum(M), 3zuw(M), 4h99(M), 4h9l(M), 4hbh(M), 4hbj(M), 4in7(M), 4jc9(M), 4jcb(M), 4lwy(M), 4tqq(M), 5lse(M), 5v33(M), 6z02(M), 6z1j(M), 6z27(M),
		7. Ligand: U10 × 107 Ubiquinone-10 PDB codes: 1aig(M), 1aij(M), 1ds8(M), 1dv3(M), 1dv6(M), 1e14(M), 1e6d(M), 1f6n(M), 1fnp(M), 1fnq(M), 1jgw(M), 1jgx(M), 1jgy(M), 1jgz(M), 1jh0(M), 1k6l(M), 1k6n(M), 1kby(M), 1l9b(M), 1l9j(M), 1m3x(M), 1mps(M), 1ogv(M), 1pcr(M), 1pss(M), 1pst(M), 1qov(M), 1rg5(M), 1rgn(M), 1rqk(M), 1rvj(M), 1ry5(M), 1rzh(M), 1rzz(M), 1s00(M), 1umx(M), 1yf6(M), 1yst(M), 1z9j(B), 1z9k(B), 2bnp(B), 2bns(B), 2boz(M), 2gmr(M), 2gnu(M), 2hg3(M), 2hg9(M), 2hh1(M), 2hhk(M), 2hit(M), 2hj6(M), 2j8c(M), 2j8d(M), 2jiy(M), 2uws(M), 2uwt(M), 2uwu(M), 2uwv(M), 2uww(M), 2ux3(M), 2ux4(M), 2uxj(M), 2uxk(M), 2uxl(M), 2uxm(M), 3dsy(M), 3dta(M), 3dtr(M), 3dts(M), 3du2(M), 3du3(M), 3duq(M), 3i4d(M), 3v3y(M), 3v3z(M), 3zum(M), 3zuw(M), 4h99(M), 4h9l(M), 4hbh(M), 4hbj(M), 4in7(M), 4jc9(M), 4lwy(M), 4n7k(M), 4tqq(M), 5lse(M), 5v33(M), 6z02(M), 6z1j(M), 6z27(M).
		8. Ligand: SPO × 40 Spheroidene PDB codes: 1f6n(M), 1fnp(M), 1fnq(M), 1jgw(M), 1jgx(M), 1jgy(M), 1jgz(M), 1jh0(M), 1kby(M), 1m3x(M), 1pcr(M), 1rgn(M), 1rvj(M), 1ry5(M), 1rzh(M), 1rzz(M), 1s00(M), 1yf6(M), 1yst(M), 2j8c(M), 2j8d(M), 2uws(M), 2uwt(M), 2uwu(M), 2uwv(M), 2uww(M), 2ux3(M), 2ux4(M), 2uxj(M), 2uxk(M), 2uxl(M), 2uxm(M), 3i4d(M), 4h99(M), 4h9l(M), 4hbh(M), 4hbj(M), 4in7(M), 4jc9(M), 4n7k(M).
		9. Ligand: SPN × 26 Speroidenone PDB codes: 1e14(M), 1e6d(M), 1k6l(M), 1k6n(M), 1mps(M), 1qov(M), 1umx(M), 2boz(M), 2gmr(M), 2jiy(M), 2jj0(M), 3dsy(M), 3dta(M), 3dtr(M), 3dts(M), 3du2(M), 3du3(M), 3duq(M), 3v3y(M), 3v3z(M), 3zum(M), 3zuw(M), 4lwy(M), 5lse(M), 6z02(M), 6z1j(M).
		10. Ligand: 2GO × 6 [Methyl 9-Acetyl-14-Ethyl-20-Hydroxy-4,8,13,18- Tetramethyl-3-{3-Oxo-3-[(3,7,11,15- Tetramethylhexadec- 2-En-1-Yl)oxy]propyl}-3,4,20,21-Tetradehydrophorbine- 21-Carboxylatato(2-)- Kappa~4~n~23~,N~24~,N~25~, N~26~]zinc PDB codes: 4n7k(M),
		11. Ligand: PO4 × 6 Phosphate ion PDB codes: 2hhk(M), 4lwy(M), 6z02(M), 6z1j(M), 6z27(M),
		12. Ligand: UNL × 5 Unknown ligand PDB codes: 4lwy(M), 6z1j(M),
		13. Ligand: UQ2 × 5 Ubiquinone-2 PDB codes: 2uws(M), 2uwu(M), 2uwv(M), 2uxj(M), 2uxm(M).
		14. Ligand: DIO × 4 1,4-Diethylene dioxide PDB codes: 3v3y(M), 4lwy(M), 6z02(M).
		15. Ligand: EDO × 4 1,2-Ethanediol PDB codes: 4lwy(M), 6z02(M),
		16. Ligand: GGD × 4 Nonadec-10-Enoic acid 2-[3,4-Dihydroxy-6-Hydroxymethyl- 5-(3,4,5-Trihydroxy-6-Hydroxymethyl- Tetrahydro-Pyran- 2-Yloxy)-Tetrahydro-Pyran-2-Yloxy]-1-Octadec-9- Enoyloxymethyl-Ethyl ester PDB codes: 1m3x(M), 2j8c(M), 4in7(M), 4n7k(M).
		17. Ligand: PC1 × 4 1,2-Diacyl-Sn-Glycero-3-Phosphocholine PDB codes: 1m3x(M), 2j8c(M), 4in7(M), 4n7k(M).
_Cl		18. Metal: _CL × 4 PDB codes: 1qov(M), 1yf6(M), 2hg9(M), 2jj0(M).
		19. Ligand: HTO × 3 Heptane-1,2,3-Triol PDB codes: 1l9b(M), 1rzh(M), 2hg3(M).
		20. Ligand: PC9 × 3 (7r,14s)-14,15-Dibromo-4-Hydroxy-N,N,N-Trimethyl-9-Oxo- 7-[(Palmitoyloxy)methyl]-3,5,8-Trioxa-4- Phosphahexacosan-1-Aminium 4-Oxide PDB codes: 2hg3(M), 2hh1(M).
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Cluster 2 contains 10 ligand types

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Ligand		Description
		1. Ligand: GOL × 11 glycerin Glycerol PDB codes: 2j8c(M), 2j8d(M), 2uwt(M), 2uwu(M), 2uwv(M), 2uww(M), 2ux3(M), 2ux4(M), 2uxk(M), 2uxl(M), 4n7k(M).
		2. Ligand: CDL × 46 Cardiolipin PDB codes: 1e14(M), 1jgw(M), 1jgy(M), 1jgz(M), 1k6l(M), 1k6n(M), 1kby(M), 1m3x(M), 1ogv(M), 1qov(M), 1rg5(M), 1rqk(M), 1rvj(M), 1ry5(M), 1rzh(M), 1yf6(M), 2gnu(M), 2hg3(M), 2hg9(M), 2hh1(M), 2hhk(M), 2hit(M), 2hj6(M), 2j8c(M), 2j8d(M), 2jiy(M), 2jj0(M), 2uwu(M), 2uww(M), 2ux3(M), 2ux4(M), 2uxj(M), 2uxk(M), 3dsy(M), 3dta(M), 3dtr(M), 3dts(M), 3du2(M), 3du3(M), 3duq(M), 3i4d(M), 4in7(M), 4lwy(M), 4n7k(M), 5lse(M), 6z02(M).
		3. Ligand: PO4 × 23 Phosphate ion PDB codes: 1e6d(M), 1f6n(M), 1fnp(M), 1fnq(M), 1mps(M), 1pcr(M), 1rgn(M), 1umx(M), 2bnp(B), 2bns(B), 2boz(M), 3v3y(M), 3v3z(M), 3zuw(M), 4jc9(M), 4jcb(M), 6z27(M),
		4. Ligand: LDA × 19 Lauryl dimethylamine-N-Oxide PDB codes: 1aij(M), 1ds8(M), 1dv6(M), 1e6d(M), 1f6n(M), 1fnp(M), 1fnq(M), 1l9b(M), 1mps(M), 1pcr(M), 1rgn(M), 1rzz(M), 1s00(M), 3i4d(M), 3v3y(M), 3v3z(M), 3zuw(M), 6z27(M).
_Cl		5. Metal: _CL × 5 PDB codes: 1ds8(M), 1dv3(M), 1dv6(M), 2hit(M), 3i4d(M).
		6. Ligand: NKP × 2 (2r)-2-Hydroxy-3-(Phosphonooxy)propyl (9e)-Octadec-9- Enoate PDB codes: 6z1j(M),
		7. Ligand: UNL × 2 Unknown ligand PDB codes: 4lwy(M), 6z1j(M).
		8. Ligand: D12 × 1 Dodecane PDB code: 6z02(M).
		9. Ligand: EDO × 1 1,2-Ethanediol PDB code: 6z02(M).
		10. Ligand: HTO × 1 Heptane-1,2,3-Triol PDB code: 1rg5(M).

Cluster 3 contains 4 ligand types

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Ligand		Description
		1. Ligand: GOL × 1 glycerin Glycerol PDB code: 3i4d(M).
		2. Ligand: EDO × 1 1,2-Ethanediol PDB code: 6z02(M).
		3. Ligand: HEM × 1 Protoporphyrin IX containing fe PDB code: 1l9j(M).
		4. Ligand: PO4 × 1 Phosphate ion PDB code: 3i4d(M).

Cluster 4 contains 4 ligand types

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Ligand		Description
		1. Ligand: GOL × 1 glycerin Glycerol PDB code: 2hg9(M).
		2. Ligand: PO4 × 5 Phosphate ion PDB codes: 2hg3(M), 2hh1(M), 2hhk(M), 2hit(M), 2hj6(M).
		3. Ligand: HTO × 1 Heptane-1,2,3-Triol PDB code: 2hj6(M).
		4. Ligand: LDA × 1 Lauryl dimethylamine-N-Oxide PDB code: 3i4d(M).

Cluster 5 contains 4 ligand types

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Ligand		Description
		1. Ligand: GOL × 6 glycerin Glycerol PDB codes: 2hg3(M), 2hg9(M), 2hh1(M), 2hhk(M), 2hit(M), 3i4d(M).
		2. Ligand: EDO × 2 1,2-Ethanediol PDB codes: 4lwy(M), 6z02(M).
		3. Ligand: DIO × 1 1,4-Diethylene dioxide PDB code: 3v3z(M).
		4. Ligand: PO4 × 1 Phosphate ion PDB code: 3zum(M).

Cluster 6 contains 3 ligand types

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Ligand		Description
		1. Ligand: GOL × 1 glycerin Glycerol PDB code: 3i4d(M).
		2. Ligand: EDO × 2 1,2-Ethanediol PDB codes: 4lwy(M), 6z02(M).
		3. Ligand: HTO × 1 Heptane-1,2,3-Triol PDB code: 3v3z(M).