Ligand clusters for UniProt code P04050

Ligand clusters for P04050: DNA-directed RNA polymerase II subunit RPB1 OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) OX=559292 GN=RPO21 PE=1 SV=2

		Top 6 (of 12) ligand clusters Cluster 1. 19 ligand types 172 ligands Cluster 2. 2 ligand types 3 ligands Cluster 3. 1 ligand type 2 ligands Cluster 4. 1 ligand type 2 ligands Cluster 5. 1 ligand type 1 ligand Cluster 6. 1 ligand type 1 ligand
Representative protein: 5vvsA

Structures

PDB		Schematic diagram
5vvsA
3s15A
1i6hA
3s16A
1nikA
		more ...

Cluster 1 contains 19 ligand types

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Ligand		Description
		1. Ligand: ATP × 3 Adenosine-5'-Triphosphate PDB codes: 1r9t(A), 1twa(A), 1twh(A).
		2. Ligand: UTP × 4 Uridine 5'-Triphosphate PDB codes: 1r9s(A), 1twf(A), 2nvz(A), 2yu9(A).
		3. Ligand: GTP × 1 Guanosine-5'-Triphosphate PDB code: 1twc(A).
		4. Ligand: CTP × 1 Cytidine-5'-Triphosphate PDB code: 1twg(A).
_Mg		5. Metal: _MG × 122 PDB codes: 1i3q(A), 1i6h(A), 1r5u(A), 1r9s(A), 1r9t(A), 1sfo(A), 1wcm(A), 1y1w(A), 1y77(A), 2b63(A), 2e2h(A), 2e2i(A), 2e2j(A), 2ja5(A), 2ja6(A), 2ja7(A), 2ja8(A), 2nvq(A), 2nvt(A), 2nvx(A), 2nvz(A), 2r7z(A), 2r92(A), 2r93(A), 2vum(A), 2yu9(A), 3fki(A), 3gtg(A), 3gtj(A), 3gtl(A), 3gtm(A), 3gto(A), 3gtp(A), 3h3v(B), 3hov(A), 3how(A), 3hox(A), 3hoy(A), 3hoz(A), 3i4m(A), 3i4n(A), 3m3y(A), 3m4o(A), 3po2(A), 3po3(A), 3qt1(A), 3rzd(A), 3s14(A), 3s15(A), 3s16(A), 3s17(A), 3s1m(A), 3s1n(A), 3s1q(A), 3s1r(A), 3s2d(A), 3s2h(A), 4a3b(A), 4a3c(A), 4a3d(A), 4a3e(A), 4a3f(A), 4a3g(A), 4a3i(A), 4a3j(A), 4a3k(A), 4a3l(A), 4a3m(A), 4a93(A), 4bbr(A), 4bbs(A), 4bxx(A), 4by1(A), 4by7(A), 4v1m(A), 4v1n(A), 4v1o(A), 4y52(A), 4y7n(A), 5c3e(A), 5c4a(A), 5fmf(A), 5fyw(A), 5fz5(A), 5ip7(A), 5ip9(A), 5oqj(A), 5ot2(A), 5sva(A), 5u5q(A), 5vvs(A), 5w4u(A), 5w51(A), 6blo(A), 6blp(A), 6bm2(A), 6bm4(A), 6bqf(A), 6gyk(A), 6gyl(A), 6gym(A), 6i84(A), 6o6c(A), 6upx(A), 6upy(A), 6upz(A), 6uq0(A), 6uq1(A), 6uq2(A), 6uq3(A).
_Mn		6. Metal: _MN × 14 PDB codes: 1i50(A), 1k83(A), 1twa(A), 1twc(A), 1twf(A), 1twg(A), 1twh(A), 2nvy(A),
		7. Ligand: PPV × 2 pyrophosphoric acid Pyrophosphate PDB codes: 6upz(A), 6uq3(A).
		8. Ligand: DUT × 1 Deoxyuridine-5'-Triphosphate PDB code: 2nvx(A).
		9. Ligand: G2P × 3 Phosphomethylphosphonic acid guanylate ester PDB codes: 1y77(A), 2e2j(A), 2nvt(A).
		10. Ligand: APC × 7 Diphosphomethylphosphonic acid adenosyl ester PDB codes: 4a3e(A), 4a3f(A), 4a3l(A), 4a3m(A), 4by1(A), 6blp(A), 6upy(A).
		11. Ligand: G2P × 2 Phosphomethylphosphonic acid guanylate ester PDB codes: 4a3j(A), 4y7n(A).
		12. Ligand: ATP × 1 Adenosine-5'-Triphosphate PDB code: 3s1q(A).
		13. Ligand: GTP × 2 Guanosine-5'-Triphosphate PDB codes: 2e2h(A), 3s1r(A).
		14. Ligand: 2KH × 2 5'-O-[(S)-Hydroxy{[(s)-Hydroxy(phosphonooxy) phosphoryl]amino}phosphoryl]uridine PDB codes: 5w51(A), 6bm4(A).
		15. Ligand: C7P × 2 Cis-Diammine(pyridine)chloroplatinum(ii) PDB codes: 3m3y(A), 3m4o(A).
		16. Ligand: DUT × 1 Deoxyuridine-5'-Triphosphate PDB code: 2nvq(A).
		17. Ligand: __C-__A × 2 PDB codes: 4a3g(A), 4a3j(A).
		18. Ligand: AHW × 1 2-Ethyl-7-Methoxy-Naphthalene PDB code: 5ot2(A).
		19. Ligand: DGT × 1 2'-Deoxyguanosine-5'-Triphosphate PDB code: 2e2i(A).

Cluster 2 contains 2 ligand types

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Ligand		Description
		1. Ligand: ILX-TRX-GLY-ILE-GLY-CSX-ASN-HYP × 2 ILX=4,5-Dihydroxyisoleucine, TRX=6-Hydroxytryptophan, CSX=S-Oxy cysteine, HYP=4-Hydroxyproline. PDB codes: 1k83(A), 3cqz(A).
		2. Ligand: ASN-HYP-ILX-TRX-GLY-ILE-GLY-CSX × 1 HYP=4-Hydroxyproline, ILX=4,5-Dihydroxyisoleucine, TRX=6-Hydroxytryptophan, CSX=S-Oxy cysteine. PDB code: 2vum(A).

Cluster 3 contains 1 ligand type

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Ligand		Description
		1. Ligand: EPE × 2 4-(2-Hydroxyethyl)-1-Piperazine ethanesulfonic acid PDB codes: 3po3(A), 4by7(A).

Cluster 4 contains 1 ligand type

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Ligand		Description
		1. Ligand: ACT × 2 Acetate ion PDB codes: 3po2(A), 3po3(A).

Cluster 5 contains 1 ligand type

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Ligand		Description
		1. Ligand: ACT × 1 Acetate ion PDB code: 3po3(A).

Cluster 6 contains 1 ligand type

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Ligand		Description
_Zn		1. Metal: _ZN × 1 PDB code: 1i3q(A).