PDBsum entry 3ok4

Ligand/metal interactions

PDB id

3ok4


	15 instances of ligand highlighted
	A6C-A6C-A6G-A6U- A6A-A6A-A6U-A6G- A6C-A6C-PO4

Ligands

A6C-A6C-A6G-A6U-
A6A-A6A-A6U-A6G-
A6C-A6C-PO4 ×15

A6C 1(A) to PO4 11(A)

A6C 1(C) to PO4 11(C)

A6C 1(E) to PO4 11(E)

A6C 1(G) to PO4 11(G)

A6C 1(I) to PO4 11(I)

A6C 1(K) to PO4 11(K)

A6C 1(M) to PO4 11(M)

A6C 1(O) to PO4 11(O)

A6C 1(Q) to PO4 11(Q)

A6C 1(S) to PO4 11(S)

A6C 1(U) to PO4 11(U)

A6C 1(W) to PO4 11(W)

A6C 1(Y) to PO4 11(Y)

A6C 1(1) to PO4 11(1)

A6C 1(3) to PO4 11(3)

Ligand A6C-A6C-A6G-A6U-A6A-A6A-A6U-A6G-A6C-A6C-PO4

A6C - 2-(4-Amino-2-Oxopyrimidin-1(2h)-Yl)-1,5-Anhydro-2- Deoxy-6-O-Phosphono-D-Altritol [((2r,3s,4s,5r)-5-(4-Amino-2-Oxopyrimidin-1(2h)-Yl)-3,4- Dihydroxytetrahydro-2h-Pyran-2-Yl)methyl dihydrogen phosphate] Formula: C₁₀H₁₆N₃O₈P

A6G - 2-(2-Amino-6-Oxo-1,6-Dihydro-9h-Purin-9-Yl)-1,5- Anhydro-2-Deoxy-6-O-Phosphono-D-Altritol [((2r,3s,4s,5r)-5-(2-Amino-6-Oxo-1h-Purin-9(6h)-Yl)-3,4- Dihydroxytetrahydro-2h-Pyran-2-Yl)methyl dihydrogen phosphate] Formula: C₁₁H₁₆N₅O₈P

A6U - 1,5-Anhydro-2-Deoxy-2-(2,4-Dioxo-3,4-Dihydropyrimidin- 1(2h)-Yl)-6-O-Phosphono-D-Altritol [((2r,3s,4s,5r)-5-(2,4-Dioxo-3,4-Dihydropyrimidin-1(2h)- Yl)-3,4-Dihydroxytetrahydro-2h-Pyran-2-Yl)methyl dihydrogen phosphate] Formula: C₁₀H₁₅N₂O₉P

A6A - 2-(6-Amino-9h-Purin-9-Yl)-1,5-Anhydro-2-Deoxy-6-O- Phosphono-D-Altritol [((2r,3s,4s,5r)-5-(6-Amino-9h-Purin-9-Yl)-3,4- Dihydroxytetrahydro-2h-Pyran-2-Yl)methyl dihydrogen phosphate] Formula: C₁₁H₁₆N₅O₇P

PO4 - Phosphate ion Formula: O₄P₃

Validation of ligand annotation

Per Residue Validation

	Atoms				Missing		Incorrect Chiral Centres
Residue	Dic.	Struc.	Link	Subs.	Atoms	Rings	Planar	High	C	Other
A6C 1(A)	22	18	0	0	4	0	-	-	-	-
A6C 2(A)	22	22	1	0	0	0	0	0	0	0
A6G 3(A)	25	25	1	0	0	0	0	0	0	0
A6U 4(A)	22	22	1	0	0	0	0	0	0	0
A6A 5(A)	24	24	1	0	0	0	0	0	0	0
A6A 6(A)	24	24	1	0	0	0	0	0	0	0
A6U 7(A)	22	22	1	0	0	0	0	0	0	0
A6G 8(A)	25	25	1	0	0	0	0	0	0	0
A6C 9(A)	22	22	1	0	0	0	0	0	0	0
A6C 10(A)	22	22	1	0	0	0	0	0	0	0
PO4 11(A)	5	-	-	-	-	-	-	-	-	-

Additional Information

Validation carried out using MotiveValidator. Full validation report can be found in Validator^DB.

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LIGPLOT of interactions involving ligand A6C-A6C-A6G-A6U-A6A-A6A-A6U-A6G-A6C-A6C-PO4

List of
interactions

A6C 1(A) to PO4 11(A)