Ligand clusters for UniProt code P08518

Ligand clusters for P08518: DNA-directed RNA polymerase II subunit RPB2 OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) OX=559292 GN=RPB2 PE=1 SV=2

		6 ligand clusters Cluster 1. 18 ligand types 47 ligands Cluster 2. 2 ligand types 3 ligands Cluster 3. 1 ligand type 1 ligand Cluster 4. 1 ligand type 1 ligand Cluster 5. 1 ligand type 10 ligands Cluster 6. 1 ligand type 124 ligands
Representative protein: 5vvrB

Structures

PDB		Schematic diagram
5vvrB
6o6cB
4by1B
4v1mB
5svaB
		more ...

Cluster 1 contains 18 ligand types

Use checkboxes to select ligands to display in RasMol, Jmol, or download as an SDF file. Selection shortcuts: select all/none invert selection.
Ligand		Description
		1. Ligand: ATP × 3 Adenosine-5'-Triphosphate PDB codes: 1r9t(B), 1twa(B), 1twh(B).
		2. Ligand: UTP × 4 Uridine 5'-Triphosphate PDB codes: 1r9s(B), 1twf(B), 2nvz(B), 2yu9(B).
		3. Ligand: GTP × 1 Guanosine-5'-Triphosphate PDB code: 1twc(B).
		4. Ligand: CTP × 1 Cytidine-5'-Triphosphate PDB code: 1twg(B).
_Mg		5. Metal: _MG × 7 PDB codes: 1r9t(B), 2e2h(B), 2nvz(B), 3s15(B), 3s1q(B), 5w51(B), 6blp(B).
_Mn		6. Metal: _MN × 5 PDB codes: 1twa(B), 1twc(B), 1twf(B), 1twg(B), 1twh(B).
		7. Ligand: PPV × 2 pyrophosphoric acid Pyrophosphate PDB codes: 6upz(B), 6uq3(B).
		8. Ligand: DUT × 1 Deoxyuridine-5'-Triphosphate PDB code: 2nvx(B).
		9. Ligand: G2P × 3 Phosphomethylphosphonic acid guanylate ester PDB codes: 1y77(B), 2e2j(B), 2nvt(B).
		10. Ligand: APC × 7 Diphosphomethylphosphonic acid adenosyl ester PDB codes: 4a3e(B), 4a3f(B), 4a3l(B), 4a3m(B), 4by1(B), 6blp(B), 6upy(B).
		11. Ligand: G2P × 2 Phosphomethylphosphonic acid guanylate ester PDB codes: 4a3j(B), 4y7n(B).
		12. Ligand: ATP × 1 Adenosine-5'-Triphosphate PDB code: 3s1q(B).
		13. Ligand: GTP × 2 Guanosine-5'-Triphosphate PDB codes: 2e2h(B), 3s1r(B).
		14. Ligand: 2KH × 2 5'-O-[(S)-Hydroxy{[(s)-Hydroxy(phosphonooxy) phosphoryl]amino}phosphoryl]uridine PDB codes: 5w51(B), 6bm4(B).
		15. Ligand: C7P × 2 Cis-Diammine(pyridine)chloroplatinum(ii) PDB codes: 3m3y(B), 3m4o(B).
		16. Ligand: DUT × 1 Deoxyuridine-5'-Triphosphate PDB code: 2nvq(B).
		17. Ligand: __C-__A × 2 PDB codes: 4a3g(B), 4a3j(B).
		18. Ligand: DGT × 1 2'-Deoxyguanosine-5'-Triphosphate PDB code: 2e2i(B).

Cluster 2 contains 2 ligand types

Selection shortcuts: select all/none invert selection.
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(B), 3cqz(B).
		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(B).

Cluster 3 contains 1 ligand type

Selection shortcuts: select all/none invert selection.
Ligand		Description
		1. Ligand: EPE × 1 4-(2-Hydroxyethyl)-1-Piperazine ethanesulfonic acid PDB code: 3po3(B).

Cluster 4 contains 1 ligand type

Selection shortcuts: select all/none invert selection.
Ligand		Description
		1. Ligand: ACT × 1 Acetate ion PDB code: 3po3(B).

Cluster 5 contains 1 ligand type

Selection shortcuts: select all/none invert selection.
Ligand		Description
_Zn		1. Metal: _ZN × 10 PDB codes: 1i3q(B), 1i50(B), 1k83(B), 1twa(B), 1twc(B), 1twf(B), 1twg(B), 1twh(B), 2nvy(B), 3cqz(B).

Cluster 6 contains 1 ligand type

Selection shortcuts: select all/none invert selection.
Ligand		Description
_Zn		1. Metal: _ZN × 124 PDB codes: 1i6h(B), 1nik(B), 1r5u(B), 1r9s(B), 1r9t(B), 1sfo(B), 1wcm(B), 1y1v(B), 1y1w(B), 1y77(B), 2b63(B), 2b8k(B), 2e2h(B), 2e2i(B), 2e2j(B), 2ja5(B), 2ja6(B), 2ja7(B), 2ja8(B), 2nvq(B), 2nvt(B), 2nvz(B), 2r7z(B), 2r92(B), 2r93(B), 2vum(B), 2yu9(B), 3fki(B), 3gtg(B), 3gtj(B), 3gtk(B), 3gtl(B), 3gtm(B), 3gto(B), 3gtp(B), 3gtq(B), 3h3v(C), 3hou(B), 3hov(B), 3how(B), 3hox(B), 3hoy(B), 3hoz(B), 3i4m(B), 3i4n(B), 3j0k(B), 3k1f(B), 3k7a(B), 3m3y(B), 3m4o(B), 3po2(B), 3po3(B), 3qt1(B), 3rzd(B), 3rzo(B), 3s14(B), 3s15(B), 3s16(B), 3s17(B), 3s1m(B), 3s1n(B), 3s1q(B), 3s1r(B), 3s2d(B), 3s2h(B), 4a3b(B), 4a3c(B), 4a3d(B), 4a3e(B), 4a3f(B), 4a3g(B), 4a3i(B), 4a3j(B), 4a3k(B), 4a3l(B), 4a3m(B), 4a93(B), 4bbr(B), 4bbs(B), 4bxx(B), 4bxz(B), 4by1(B), 4by7(B), 4v1m(B), 4v1n(B), 4v1o(B), 4x67(B), 4x6a(B), 4y52(B), 4y7n(B), 5c3e(B), 5c4a(B), 5c4j(B), 5c4x(B), 5fmf(B), 5fyw(B), 5fz5(B), 5ip7(B), 5ip9(B), 5oqj(B), 5ot2(B), 5sva(B), 5u5q(B), 5vvr(B), 5vvs(B), 5w4u(B), 5w51(B), 6blo(B), 6blp(B), 6bm2(B), 6bm4(B), 6bqf(B), 6gyk(B), 6gyl(B), 6gym(B), 6i84(B), 6o6c(B), 6upx(B), 6upy(B), 6upz(B), 6uq0(B), 6uq1(B), 6uq2(B), 6uq3(B).