SMTL ID : 8rch.1

CryoEM structure of mTORC1 with a paediatric kidney cancer-associated 1455-EWED-1458 duplication in mTOR, overall refinement

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

hetero-2-2-2-2-mer

Ligands

2 x ANP: PHOSPHOAMINOPHOSPHONIC ACID-ADENYLATE ESTER

ANP.1: 16 residues within 4Å: Chain A: I.2163, Q.2167, P.2169, L.2185, K.2187, E.2190, I.2237, G.2238, W.2239, V.2240, C.2243, M.2345, I.2356, D.2357 Ligands: MG.2, MG.3 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:V.2240, A:D.2357 ANP.4: 12 residues within 4Å: Chain E: P.2169, L.2185, K.2187, Y.2225, I.2237, G.2238, W.2239, V.2240, C.2243, M.2345, I.2356 Ligands: MG.5 2 PLIP interactions: 2 interactions with chain E Hydrogen bonds: E:G.2238, E:V.2240

4 x MG: MAGNESIUM ION

MG.2: 3 residues within 4Å: Chain A: H.2189, E.2190 Ligands: ANP.1 1 PLIP interactions: 1 interactions with chain A Metal complexes: A:H.2189 MG.3: 4 residues within 4Å: Chain A: K.2187, E.2190, I.2237 Ligands: ANP.1 2 PLIP interactions: 2 interactions with chain A Metal complexes: A:E.2190, A:E.2190 MG.5: 1 residues within 4Å: Ligands: ANP.4 No protein-ligand interaction detected (PLIP) MG.6: 6 residues within 4Å: Chain E: L.2185, L.2186, K.2187, G.2188, E.2190, G.2235 3 PLIP interactions: 3 interactions with chain E Metal complexes: E:K.2187, E:E.2190, E:G.2235

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Anandapadamanaban, M. et al., cryoEM structure of mTORC1 with the cancer-associated 1455-EWED-1458 duplication variant, overall refinement. To Be Published

Release Date

2024-09-11

Peptides

Serine/threonine-protein kinase mTOR: AE
Target of rapamycin complex subunit LST8: BF
Regulatory-associated protein of mTOR: CG
Eukaryotic translation initiation factor 4E-binding protein 1: DH

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

E
B

B
D

F
E

C
W

G
Y

D
Z

H
X

Serine/threonine-protein kinase mTOR

Target of rapamycin complex subunit LST8

Regulatory-associated protein of mTOR

Eukaryotic translation initiation factor 4E-binding protein 1

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