SMTL ID : 2wjy.1

Crystal structure of the complex between human nonsense mediated decay factors UPF1 and UPF2 Orthorhombic form

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.50 Å

Oligo State

monomer

Ligands

3 x ZN: ZINC ION(Non-covalent)

ZN.1: 4 residues within 4Å: Chain A: C.9, C.12, C.31, H.41 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:C.9, A:C.12, A:C.31, A:H.41 ZN.2: 4 residues within 4Å: Chain A: C.23, S.26, H.45, C.51 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:C.23, A:S.26, A:H.45, A:C.51 ZN.3: 4 residues within 4Å: Chain A: C.69, C.72, C.95, C.99 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:C.69, A:C.72, A:C.95, A:C.99

8 x SO4: SULFATE ION(Non-functional Binders)

SO4.4: 6 residues within 4Å: Chain A: P.380, G.381, R.589, G.717, R.718, R.751 11 PLIP interactions: 11 interactions with chain A Hydrogen bonds: A:G.381 Water bridges: A:G.383, A:G.383, A:K.384, A:Q.551, A:Q.551, A:R.589, A:G.717, A:R.751 Salt bridges: A:R.589, A:R.751 SO4.5: 5 residues within 4Å: Chain A: Y.650, R.729, H.733, Q.734, G.735 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:Y.650, A:Q.734, A:G.735 Water bridges: A:R.729, A:R.729 Salt bridges: A:R.729 SO4.6: 1 residues within 4Å: Chain A: S.645 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:S.645 SO4.7: 1 residues within 4Å: Chain A: R.718 3 PLIP interactions: 3 interactions with chain A Water bridges: A:R.718, A:E.719 Salt bridges: A:R.718 SO4.8: 4 residues within 4Å: Chain A: N.358, H.359, V.586, Y.588 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:H.359 SO4.9: 4 residues within 4Å: Chain A: R.348, F.349, T.350, V.362 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:F.349, A:T.350, A:T.350 Water bridges: A:L.357 Salt bridges: A:R.348 SO4.10: 9 residues within 4Å: Chain A: I.679, T.680, P.681, S.711, V.712, I.736, G.737, F.738, R.744 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:V.712, A:F.738, A:R.744 Water bridges: A:D.713 SO4.11: 4 residues within 4Å: Chain A: Y.202, K.205, L.206, S.209 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:S.209

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Clerici, M. et al., Unusual Bipartite Mode of Interaction between the Nonsense-Mediated Decay Factors, Upf1 and Upf2. Embo J. (2009)

Release Date

2009-07-07

Peptides

REGULATOR OF NONSENSE TRANSCRIPTS 1: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

REGULATOR OF NONSENSE TRANSCRIPTS 1

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