- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 2.40 Å
- Oligo State
- monomer
- Ligands
- 1 x U- U- U- U- U- U- U- U- U: 5- R(*UP*UP*UP*UP*UP*UP*UP*UP*U) -3(Non-covalent)
- 3 x ZN: ZINC ION(Non-covalent)
ZN.2: 4 residues within 4Å:- Chain A: C.14, C.17, C.36, H.46
4 PLIP interactions:4 interactions with chain A- Metal complexes: A:C.14, A:C.17, A:C.36, A:H.46
ZN.3: 5 residues within 4Å:- Chain A: C.28, C.31, H.50, S.54, H.56
4 PLIP interactions:4 interactions with chain A- Metal complexes: A:C.28, A:C.31, A:H.50, A:H.56
ZN.4: 4 residues within 4Å:- Chain A: C.74, C.77, C.100, C.104
4 PLIP interactions:4 interactions with chain A- Metal complexes: A:C.74, A:C.77, A:C.100, A:C.104
- 1 x ADP: ADENOSINE-5'-DIPHOSPHATE(Non-covalent)
ADP.5: 15 residues within 4Å:- Chain A: Q.360, L.361, N.362, Q.365, G.385, T.386, G.387, K.388, T.389, V.390, Y.590, R.591, E.721
- Ligands: ALF.6, MG.7
19 PLIP interactions:19 interactions with chain A- Hydrogen bonds: A:N.362, A:Q.365, A:Q.365, A:G.385, A:T.386, A:G.387, A:K.388, A:T.389, A:V.390, A:E.721
- Water bridges: A:T.389, A:D.524, A:R.591, A:R.591, A:R.591
- Salt bridges: A:K.388, A:R.591, A:R.591
- pi-Stacking: A:Y.590
- 1 x ALF: TETRAFLUOROALUMINATE ION(Non-covalent)
- 1 x MG: MAGNESIUM ION(Non-covalent)
- 12 x 1PE: PENTAETHYLENE GLYCOL(Non-functional Binders)
1PE.8: 2 residues within 4Å:- Chain A: R.630, G.631
No protein-ligand interaction detected (PLIP)1PE.9: 7 residues within 4Å:- Chain A: V.620, G.672, V.673, K.674, Q.677, D.723, Y.756
1 PLIP interactions:1 interactions with chain A- Hydrogen bonds: A:Q.677
1PE.10: 8 residues within 4Å:- Chain A: S.623, K.624, F.625, W.627, P.628, I.629, R.630
- Ligands: 1PE.14
3 PLIP interactions:3 interactions with chain A- Hydrogen bonds: A:S.623, A:F.625, A:P.628
1PE.11: 5 residues within 4Å:- Chain A: F.599, N.602, M.603, H.775, H.779
4 PLIP interactions:4 interactions with chain A- Hydrogen bonds: A:E.598, A:N.602, A:H.775, A:H.779
1PE.12: 1 residues within 4Å:- Chain A: Q.314
1 PLIP interactions:1 interactions with chain A- Hydrogen bonds: A:Q.314
1PE.13: 6 residues within 4Å:- Chain A: R.781, L.786, L.796, C.797, V.799, L.801
3 PLIP interactions:3 interactions with chain A- Hydrogen bonds: A:R.781, A:L.786, A:L.801
1PE.14: 10 residues within 4Å:- Chain A: N.593, I.615, T.619, W.627, I.629, R.630, G.631, I.632, P.633
- Ligands: 1PE.10
4 PLIP interactions:4 interactions with chain A- Hydrogen bonds: A:N.593, A:I.629, A:G.631, A:I.632
1PE.15: 10 residues within 4Å:- Chain A: H.371, R.375, L.377, S.378, L.379, H.581, V.582, P.583, I.584
- Ligands: 1PE.17
4 PLIP interactions:4 interactions with chain A- Hydrogen bonds: A:H.371, A:L.379, A:L.379, A:I.584
1PE.16: 6 residues within 4Å:- Chain A: F.345, H.403, D.405, R.519, K.543, Q.544
1 PLIP interactions:1 interactions with chain A- Hydrogen bonds: A:D.405
1PE.17: 6 residues within 4Å:- Chain A: S.364, N.367, A.368, I.584, R.585
- Ligands: 1PE.15
2 PLIP interactions:2 interactions with chain A- Hydrogen bonds: A:R.585, A:R.585
1PE.18: 9 residues within 4Å:- Chain A: K.319, D.323, K.325, S.326, L.514, D.515, T.516, K.540, G.541
4 PLIP interactions:4 interactions with chain A- Hydrogen bonds: A:K.319, A:D.323, A:L.514, A:K.540
1PE.19: 0 residues within 4Å:- (No contacts)
No protein-ligand interaction detected (PLIP)- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Chakrabarti, S. et al., Molecular Mechanisms for the RNA-Dependent ATPase Activity of Upf1 and its Regulation by Upf2. Mol.Cell (2011)
- Release Date
- 2011-03-30
- Peptides
- ATP-DEPENDENT HELICASE NAM7: A
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
A
- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 2.40 Å
- Oligo State
- monomer
- Ligands
- 1 x U- U- U- U- U- U- U- U- U: 5- R(*UP*UP*UP*UP*UP*UP*UP*UP*U) -3(Non-covalent)
- 3 x ZN: ZINC ION(Non-covalent)
- 1 x ADP: ADENOSINE-5'-DIPHOSPHATE(Non-covalent)
- 1 x ALF: TETRAFLUOROALUMINATE ION(Non-covalent)
- 1 x MG: MAGNESIUM ION(Non-covalent)
- 12 x 1PE: PENTAETHYLENE GLYCOL(Non-functional Binders)
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Chakrabarti, S. et al., Molecular Mechanisms for the RNA-Dependent ATPase Activity of Upf1 and its Regulation by Upf2. Mol.Cell (2011)
- Release Date
- 2011-03-30
- Peptides
- ATP-DEPENDENT HELICASE NAM7: A
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
A