SMTL ID : 1n52.1

Cap Binding Complex

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.11 Å

Oligo State

hetero-oligomer

Ligands

1 x MG: MAGNESIUM ION(Non-covalent)

MG.1: 5 residues within 4Å: Chain A: K.707, Q.760, Y.761, V.763, T.764 1 PLIP interactions: 1 interactions with chain A Metal complexes: A:T.764

1 x GTG: 7-METHYL-GUANOSINE-5'-TRIPHOSPHATE-5'-GUANOSINE(Non-covalent)

GTG.2: 20 residues within 4Å: Chain B: Y.20, D.22, Y.43, F.83, F.85, R.112, D.114, W.115, D.116, R.123, Y.125, G.126, R.127, G.128, Q.133, V.134, R.135, Y.138 Ligands: GOL.15, GOL.19 23 PLIP interactions: 23 interactions with chain B Hydrogen bonds: B:Y.20, B:D.22, B:R.112, B:R.112, B:W.115, B:R.123, B:R.123, B:R.127, B:G.128, B:Q.133, B:V.134 Water bridges: B:A.117, B:R.127, B:R.135, B:R.135 Salt bridges: B:D.114, B:D.116, B:R.127 pi-Stacking: B:Y.20, B:Y.20, B:Y.43, B:Y.43, B:Y.138

1 x PG4: TETRAETHYLENE GLYCOL(Non-functional Binders)

PG4.3: 9 residues within 4Å: Chain A: P.388, L.391, T.395, F.417, H.420, L.421, F.424, R.427, W.428 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:R.427

16 x GOL: GLYCEROL(Non-functional Binders)

GOL.4: 10 residues within 4Å: Chain A: R.458, Q.599, A.602, V.603, E.639 Chain B: Y.57, E.58, S.61 Ligands: GOL.5, GOL.7 Ligand excluded by PLIP GOL.5: 5 residues within 4Å: Chain A: E.639, S.643, R.646 Ligands: GOL.4, GOL.7 Ligand excluded by PLIP GOL.6: 2 residues within 4Å: Chain A: K.647, H.651 Ligand excluded by PLIP GOL.7: 7 residues within 4Å: Chain A: D.606, S.643 Chain B: S.61, D.65, I.66 Ligands: GOL.4, GOL.5 Ligand excluded by PLIP GOL.8: 2 residues within 4Å: Chain A: E.226, H.307 Ligand excluded by PLIP GOL.9: 4 residues within 4Å: Chain A: Y.126, E.316, H.319, C.320 Ligand excluded by PLIP GOL.10: 3 residues within 4Å: Chain A: F.508, L.551, L.554 Ligand excluded by PLIP GOL.11: 5 residues within 4Å: Chain A: I.720, E.723, H.724, R.727, W.739 Ligand excluded by PLIP GOL.12: 6 residues within 4Å: Chain A: I.623, F.624, S.625, S.629, F.632, W.739 Ligand excluded by PLIP GOL.13: 5 residues within 4Å: Chain A: Y.461 Chain B: S.48, Y.50, Q.55, D.107 Ligand excluded by PLIP GOL.14: 6 residues within 4Å: Chain A: Q.759, M.762, F.785, C.786, L.788, Q.789 Ligand excluded by PLIP GOL.15: 9 residues within 4Å: Chain B: Y.43, G.45, N.46, G.82, R.112, Q.133, R.135, R.146 Ligands: GTG.2 Ligand excluded by PLIP GOL.16: 5 residues within 4Å: Chain B: F.49, Y.50, L.73, T.79, A.80 Ligand excluded by PLIP GOL.17: 7 residues within 4Å: Chain A: R.450, E.454, L.476, C.477, P.478, A.479, R.634 Ligand excluded by PLIP GOL.18: 4 residues within 4Å: Chain A: L.79, K.82, H.325, Q.335 Ligand excluded by PLIP GOL.19: 3 residues within 4Å: Chain B: R.129, Y.138 Ligands: GTG.2 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Calero, G. et al., Structural basis of m7GpppG binding to the nuclear cap-binding protein complex. Nat.Struct.Biol. (2002)

Release Date

2003-02-18

Peptides

80 kDa nuclear cap binding protein: A
20 kDa nuclear cap binding protein: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

80 kDa nuclear cap binding protein

20 kDa nuclear cap binding protein

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