SMTL ID : 4y5v.2 (1 other biounit)

Diabody 305 complex with EpoR

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.60 Å

Oligo State

hetero-oligomer

Ligands

10 x GOL: GLYCEROL(Non-functional Binders)

GOL.1: 5 residues within 4Å: Chain A: Y.67, K.72, G.73, F.75, T.76 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:G.73, A:F.75, A:T.76 GOL.2: 3 residues within 4Å: Chain A: S.63, E.64, K.65 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:K.65 GOL.3: 6 residues within 4Å: Chain A: Q.46, G.49, Y.102 Chain B: Q.41, G.44, K.45 8 PLIP interactions: 5 interactions with chain B, 3 interactions with chain A Hydrogen bonds: B:G.44, B:K.45, B:K.45, A:Q.46, A:G.49 Water bridges: B:Q.41, B:Y.90, A:Y.102 GOL.4: 7 residues within 4Å: Chain A: G.49, K.50 Chain B: D.88, Y.90, G.104, G.105, T.106 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:G.49 GOL.5: 4 residues within 4Å: Chain A: W.115 Chain B: A.46, P.47, K.48 4 PLIP interactions: 2 interactions with chain A, 2 interactions with chain B Hydrogen bonds: A:W.115, A:W.115, B:A.46, B:P.47 GOL.6: 5 residues within 4Å: Chain D: Y.67, K.72, G.73, F.75, T.76 3 PLIP interactions: 3 interactions with chain D Hydrogen bonds: D:G.73, D:F.75, D:T.76 GOL.7: 3 residues within 4Å: Chain D: S.63, E.64, K.65 1 PLIP interactions: 1 interactions with chain D Hydrogen bonds: D:K.65 GOL.8: 6 residues within 4Å: Chain D: Q.46, G.49, Y.102 Chain E: Q.41, G.44, K.45 7 PLIP interactions: 4 interactions with chain E, 3 interactions with chain D Hydrogen bonds: E:G.44, E:K.45, E:K.45, D:Q.46, D:G.49, D:Y.102 Water bridges: E:Q.41 GOL.9: 7 residues within 4Å: Chain D: G.49, K.50 Chain E: D.88, Y.90, G.104, G.105, T.106 1 PLIP interactions: 1 interactions with chain D Hydrogen bonds: D:G.49 GOL.10: 4 residues within 4Å: Chain D: W.115 Chain E: A.46, P.47, K.48 4 PLIP interactions: 2 interactions with chain E, 2 interactions with chain D Hydrogen bonds: E:A.46, E:P.47, D:W.115, D:W.115

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Moraga, I. et al., Tuning Cytokine Receptor Signaling by Re-orienting Dimer Geometry with Surrogate Ligands. Cell (2015)

Release Date

2015-04-29

Peptides

diabody 305 VH domain: AD
Diabody 305 VL domain: BE
Erythropoietin receptor: CF

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
G

D
G

B
H

E
H

C
I

F
I

diabody 305 VH domain

Diabody 305 VL domain

Erythropoietin receptor

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