SMTL ID : 6moi.1

Dimeric DARPin C_angle_R5 complex with EpoR

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.07 Å

Oligo State

hetero-2-2-mer

Ligands

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

SO4.1: 4 residues within 4Å: Chain A: G.187, H.188, K.189, R.190 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:K.189, A:R.190 SO4.12: 3 residues within 4Å: Chain B: R.169, R.195 Ligands: MG.17 2 PLIP interactions: 2 interactions with chain B Salt bridges: B:R.169, B:R.195 SO4.18: 4 residues within 4Å: Chain C: G.187, H.188, K.189, R.190 2 PLIP interactions: 2 interactions with chain C Hydrogen bonds: C:K.189, C:R.190 SO4.29: 3 residues within 4Å: Chain D: R.169, R.195 Ligands: MG.34 2 PLIP interactions: 2 interactions with chain D Salt bridges: D:R.169, D:R.195

20 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)

EDO.2: 8 residues within 4Å: Chain A: V.70, N.71, T.79, P.80, L.81, A.101, D.102, A.105 Ligand excluded by PLIP EDO.3: 8 residues within 4Å: Chain A: V.136, N.137, T.145, P.146, L.147, A.167, D.168, A.171 Ligand excluded by PLIP EDO.4: 4 residues within 4Å: Chain A: Y.106, D.107, L.108, A.141 Ligand excluded by PLIP EDO.5: 4 residues within 4Å: Chain A: G.121, H.122, A.123, E.124 Ligand excluded by PLIP EDO.6: 4 residues within 4Å: Chain A: N.203, T.211, F.213, D.214 Ligand excluded by PLIP EDO.7: 7 residues within 4Å: Chain A: K.17, R.20, D.41, L.50 Chain B: Q.56, W.62, E.95 Ligand excluded by PLIP EDO.13: 4 residues within 4Å: Chain B: L.24, C.26, R.109, I.111 Ligand excluded by PLIP EDO.14: 7 residues within 4Å: Chain B: T.28, E.29, R.30, L.31, E.32, D.33, V.35 Ligand excluded by PLIP EDO.15: 13 residues within 4Å: Chain B: Q.168, V.170, V.180, L.181, S.182, N.183 Chain D: Q.168, V.170, V.180, L.181, S.182, N.183 Ligands: EDO.32 Ligand excluded by PLIP EDO.16: 4 residues within 4Å: Chain B: G.124, R.139, W.140, L.141 Ligand excluded by PLIP EDO.19: 8 residues within 4Å: Chain C: V.70, N.71, T.79, P.80, L.81, A.101, D.102, A.105 Ligand excluded by PLIP EDO.20: 8 residues within 4Å: Chain C: V.136, N.137, T.145, P.146, L.147, A.167, D.168, A.171 Ligand excluded by PLIP EDO.21: 4 residues within 4Å: Chain C: Y.106, D.107, L.108, A.141 Ligand excluded by PLIP EDO.22: 4 residues within 4Å: Chain C: G.121, H.122, A.123, E.124 Ligand excluded by PLIP EDO.23: 4 residues within 4Å: Chain C: N.203, T.211, F.213, D.214 Ligand excluded by PLIP EDO.24: 7 residues within 4Å: Chain C: K.17, R.20, D.41, L.50 Chain D: Q.56, W.62, E.95 Ligand excluded by PLIP EDO.30: 4 residues within 4Å: Chain D: L.24, C.26, R.109, I.111 Ligand excluded by PLIP EDO.31: 7 residues within 4Å: Chain D: T.28, E.29, R.30, L.31, E.32, D.33, V.35 Ligand excluded by PLIP EDO.32: 13 residues within 4Å: Chain B: Q.168, V.170, V.180, L.181, S.182, N.183 Chain D: Q.168, V.170, V.180, L.181, S.182, N.183 Ligands: EDO.15 Ligand excluded by PLIP EDO.33: 4 residues within 4Å: Chain D: G.124, R.139, W.140, L.141 Ligand excluded by PLIP

4 x MG: MAGNESIUM ION(Non-covalent)

MG.8: 1 residues within 4Å: Chain A: T.40 No protein-ligand interaction detected (PLIP) MG.17: 2 residues within 4Å: Chain B: R.195 Ligands: SO4.12 No protein-ligand interaction detected (PLIP) MG.25: 1 residues within 4Å: Chain C: T.40 No protein-ligand interaction detected (PLIP) MG.34: 2 residues within 4Å: Chain D: R.195 Ligands: SO4.29 No protein-ligand interaction detected (PLIP)

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

PEG.9: 5 residues within 4Å: Chain A: I.42, W.43, I.75 Chain B: W.62, L.64 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:I.42 PEG.26: 5 residues within 4Å: Chain C: I.42, W.43, I.75 Chain D: W.62, L.64 1 PLIP interactions: 1 interactions with chain C Hydrogen bonds: C:I.42

2 x PGE: TRIETHYLENE GLYCOL(Non-functional Binders)

PGE.10: 3 residues within 4Å: Chain A: D.36, V.37, N.38 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:N.38, A:N.66 PGE.27: 3 residues within 4Å: Chain C: D.36, V.37, N.38 2 PLIP interactions: 2 interactions with chain C Hydrogen bonds: C:N.38, C:N.66

2 x PG4: TETRAETHYLENE GLYCOL(Non-functional Binders)

PG4.11: 5 residues within 4Å: Chain A: D.102, N.104, A.105, Y.106, G.133 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:N.104, A:Y.106 PG4.28: 5 residues within 4Å: Chain C: D.102, N.104, A.105, Y.106, G.133 2 PLIP interactions: 2 interactions with chain C Hydrogen bonds: C:N.104, C:Y.106

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Mohan, K. et al., Topological control of cytokine receptor signaling induces differential effects in hematopoiesis. Science (2019)

Release Date

2019-06-05

Peptides

Dimeric DARPing CCR5 (C_angle_R5): AC
Erythropoietin receptor: BD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

C
A

B
B

D
B

Dimeric DARPing CCR5 (C_angle_R5)

Erythropoietin receptor

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