SMTL ID : 4y5x.1 (1 other biounit)

Diabody 305 complex with EpoR

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 3.15 Å

Oligo State

hetero-2-2-2-mer

Ligands

12 x PEG: DI(HYDROXYETHYL)ETHER(Non-functional Binders)

PEG.1: 4 residues within 4Å: Chain A: G.33, F.34, T.35, N.84 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:G.33, A:N.84 PEG.2: 3 residues within 4Å: Chain B: Q.38, F.63, D.83 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:Q.38 PEG.3: 5 residues within 4Å: Chain A: K.113 Chain B: W.92, D.94, N.97 Chain F: N.183 3 PLIP interactions: 2 interactions with chain B, 1 interactions with chain A Hydrogen bonds: B:D.94, B:D.94, A:K.113 PEG.4: 6 residues within 4Å: Chain B: S.27, N.31, D.94, S.95 Chain F: S.182, N.183 2 PLIP interactions: 1 interactions with chain B, 1 interactions with chain F Hydrogen bonds: B:N.31, F:S.182 PEG.5: 3 residues within 4Å: Chain C: D.157, A.193, W.210 No protein-ligand interaction detected (PLIP) PEG.6: 3 residues within 4Å: Chain C: R.195 Chain F: R.169, R.195 2 PLIP interactions: 2 interactions with chain C Hydrogen bonds: C:R.195, C:R.195 PEG.7: 2 residues within 4Å: Chain C: W.62, R.97 1 PLIP interactions: 1 interactions with chain C Hydrogen bonds: C:R.97 PEG.8: 4 residues within 4Å: Chain D: G.15, G.16, L.25, R.26 3 PLIP interactions: 3 interactions with chain D Hydrogen bonds: D:G.16, D:R.26, D:R.26 PEG.9: 4 residues within 4Å: Chain E: W.92, D.94, N.97 Chain F: F.91 1 PLIP interactions: 1 interactions with chain E Hydrogen bonds: E:D.94 PEG.11: 3 residues within 4Å: Chain F: D.157, R.169, W.210 2 PLIP interactions: 2 interactions with chain F Hydrogen bonds: F:D.157, F:R.169 PEG.12: 1 residues within 4Å: Chain F: H.68 No protein-ligand interaction detected (PLIP) PEG.13: 2 residues within 4Å: Chain F: Q.56, W.62 2 PLIP interactions: 2 interactions with chain F Hydrogen bonds: F:W.62, F:W.62

1 x FLC: CITRATE ANION(Non-covalent)

FLC.10: 9 residues within 4Å: Chain E: Q.38, L.48, G.58, V.59, S.60, R.62, F.63, E.82, D.83 2 PLIP interactions: 2 interactions with chain E Hydrogen bonds: E:S.60, E:R.62

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

2015-03-18

Peptides

diabody 310 VL domain: AD
diabody 310 VH domain: BE
Erythropoietin receptor: CF

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

D
J

B
B

E
K

C
C

F
L

diabody 310 VL domain

diabody 310 VH domain

Erythropoietin receptor

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