SMTL ID : 6q2n.1

Cryo-EM structure of RET/GFRa1/GDNF extracellular complex

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

hetero-2-2-2-mer

Ligands

8 x CA: CALCIUM ION(Non-covalent)

CA.1: 5 residues within 4Å: Chain C: D.238, S.240, D.272, D.274, D.350 5 PLIP interactions: 5 interactions with chain C Metal complexes: C:D.238, C:S.240, C:D.272, C:D.274, C:D.350 CA.2: 7 residues within 4Å: Chain C: E.150, E.204, D.236, E.237, D.238, D.239 Ligands: CA.3 5 PLIP interactions: 5 interactions with chain C Metal complexes: C:E.150, C:D.236, C:E.237, C:D.239, C:D.239 CA.3: 7 residues within 4Å: Chain C: E.150, N.151, D.202, E.204, D.236, D.239 Ligands: CA.2 5 PLIP interactions: 5 interactions with chain C Metal complexes: C:E.150, C:E.150, C:E.204, C:E.204, C:D.239 CA.4: 7 residues within 4Å: Chain C: T.536, C.537, D.539, H.541, E.546, C.553, D.556 5 PLIP interactions: 5 interactions with chain C Metal complexes: C:T.536, C:D.539, C:H.541, C:E.546, C:D.556 CA.5: 5 residues within 4Å: Chain F: D.238, S.240, D.272, D.274, D.350 5 PLIP interactions: 5 interactions with chain F Metal complexes: F:D.238, F:S.240, F:D.272, F:D.274, F:D.350 CA.6: 7 residues within 4Å: Chain F: E.150, E.204, D.236, E.237, D.238, D.239 Ligands: CA.7 5 PLIP interactions: 5 interactions with chain F Metal complexes: F:E.150, F:D.236, F:E.237, F:D.239, F:D.239 CA.7: 7 residues within 4Å: Chain F: E.150, N.151, D.202, E.204, D.236, D.239 Ligands: CA.6 5 PLIP interactions: 5 interactions with chain F Metal complexes: F:E.150, F:E.150, F:E.204, F:E.204, F:D.239 CA.8: 7 residues within 4Å: Chain F: T.536, C.537, D.539, H.541, E.546, C.553, D.556 5 PLIP interactions: 5 interactions with chain F Metal complexes: F:T.536, F:D.539, F:H.541, F:E.546, F:D.556

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Li, J. et al., Cryo-EM analyses reveal the common mechanism and diversification in the activation of RET by different ligands. Elife (2019)

Release Date

2019-10-02

Peptides

Glial cell line-derived neurotrophic factor: AD
GDNF family receptor alpha-1: BE
Proto-oncogene tyrosine-protein kinase receptor Ret: CF

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

D
B

B
C

E
D

C
E

F
F

Glial cell line-derived neurotrophic factor

GDNF family receptor alpha-1

Proto-oncogene tyrosine-protein kinase receptor Ret

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