SMTL ID : 5dif.1

Crystal Structure of CPEB4 NES Peptide in complex with CRM1-Ran-RanBP1

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.09 Å

Oligo State

hetero-1-1-1-1-mer

Ligands

1 x GNP: PHOSPHOAMINOPHOSPHONIC ACID-GUANYLATE ESTER(Non-covalent)

GNP.1: 26 residues within 4Å: Chain A: D.39, G.40, G.41, T.42, G.43, K.44, T.45, T.46, F.56, E.57, K.58, K.59, Y.60, A.62, T.63, A.88, G.89, Q.90, N.143, K.144, D.146, I.147, S.171, A.172, K.173 Ligands: MG.2 27 PLIP interactions: 27 interactions with chain A Hydrogen bonds: A:G.41, A:T.42, A:T.42, A:G.43, A:K.44, A:K.44, A:K.44, A:T.45, A:T.46, A:T.46, A:E.57, A:Y.60, A:T.63, A:T.63, A:G.89, A:Q.90, A:N.143, A:K.144, A:K.144, A:A.172, A:K.173 Water bridges: A:V.61, A:Q.90, A:Q.90 Salt bridges: A:D.146 pi-Stacking: A:F.56, A:F.56

1 x MG: MAGNESIUM ION(Non-covalent)

MG.2: 3 residues within 4Å: Chain A: T.45, T.63 Ligands: GNP.1 4 PLIP interactions: 2 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:T.45, A:T.63, H2O.2, H2O.2

7 x GOL: GLYCEROL(Non-functional Binders)

GOL.3: 4 residues within 4Å: Chain A: N.121, N.124, W.125, D.128 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:N.121, A:N.124, A:N.124 GOL.5: 4 residues within 4Å: Chain C: L.808, N.812, D.853, W.857 2 PLIP interactions: 2 interactions with chain C Hydrogen bonds: C:N.812, C:N.812 GOL.6: 1 residues within 4Å: Chain C: Q.636 1 PLIP interactions: 1 interactions with chain C Hydrogen bonds: C:Q.636 GOL.7: 5 residues within 4Å: Chain C: E.175, K.915, F.918, R.999, L.1002 3 PLIP interactions: 3 interactions with chain C Hydrogen bonds: C:R.999 Water bridges: C:E.175, C:L.1002 GOL.8: 7 residues within 4Å: Chain C: W.51, Q.52, A.54, D.55, G.92, I.93, F.96 3 PLIP interactions: 3 interactions with chain C Hydrogen bonds: C:W.51, C:D.55, C:D.55 GOL.9: 6 residues within 4Å: Chain C: S.208, S.210, F.245, S.248, D.250, T.251 4 PLIP interactions: 4 interactions with chain C Hydrogen bonds: C:S.208, C:S.248, C:D.250, C:D.250 GOL.10: 6 residues within 4Å: Chain C: I.356, E.357, E.358, R.359, F.362, N.400 6 PLIP interactions: 6 interactions with chain C Hydrogen bonds: C:E.358, C:R.359, C:N.400 Water bridges: C:S.354, C:I.356, C:R.359

1 x CL: CHLORIDE ION(Non-functional Binders)

CL.4: 2 residues within 4Å: Chain C: E.194, R.230 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Fung, H.Y. et al., Structural determinants of nuclear export signal orientation in binding to exportin CRM1. Elife (2015)

Release Date

2015-09-16

Peptides

GTP-binding nuclear protein Ran: A
Ran-specific GTPase-activating protein 1: B
Exportin-1: C
Cytoplasmic polyadenylation element-binding protein 4: D

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

GTP-binding nuclear protein Ran

Ran-specific GTPase-activating protein 1

Exportin-1

Cytoplasmic polyadenylation element-binding protein 4

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