SMTL ID : 6s6d.2 (1 other biounit)

Crystal structure of RagA-Q66L-GTP/RagC-S75N-GDP GTPase heterodimer complex

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.50 Å

Oligo State

hetero-1-1-mer

Ligands

1 x GTP: GUANOSINE-5'-TRIPHOSPHATE(Non-covalent)

GTP.1: 22 residues within 4Å: Chain A: K.15, S.16, G.17, S.18, G.19, K.20, T.21, S.22, T.36, R.37, L.39, A.41, T.42, G.64, G.65, H.127, K.128, D.130, L.131, S.163, I.164 Ligands: MG.2 21 PLIP interactions: 21 interactions with chain A Hydrogen bonds: A:G.17, A:S.18, A:G.19, A:K.20, A:T.21, A:S.22, A:T.36, A:T.36, A:T.42, A:C.63, A:G.65, A:K.128, A:K.128, A:I.164 Water bridges: A:K.20, A:K.20, A:T.21, A:L.66 Salt bridges: A:K.20, A:K.20, A:D.130

1 x MG: MAGNESIUM ION(Non-covalent)

MG.2: 3 residues within 4Å: Chain A: T.21, T.42 Ligands: GTP.1 4 PLIP interactions: 2 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:T.21, A:T.42, H2O.1, H2O.1

2 x 9JE: pentane-1,5-diol(Non-covalent)

9JE.3: 6 residues within 4Å: Chain A: Q.107, L.110, L.151, S.152, R.153, P.154 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:Q.107, A:L.110 Hydrogen bonds: A:Q.107, A:L.151, A:R.153 9JE.4: 8 residues within 4Å: Chain A: S.174, S.175, Y.178, E.188, V.213, S.215, H.216, F.228 6 PLIP interactions: 6 interactions with chain A Hydrophobic interactions: A:Y.178, A:F.228 Hydrogen bonds: A:S.174, A:Y.178, A:E.188, A:H.216

1 x GDP: GUANOSINE-5'-DIPHOSPHATE(Non-covalent)

GDP.5: 14 residues within 4Å: Chain B: L.69, R.70, R.71, S.72, G.73, K.74, N.75, S.76, H.178, K.179, D.181, S.219, I.220, Y.221 12 PLIP interactions: 12 interactions with chain B Hydrogen bonds: B:R.71, B:S.72, B:G.73, B:K.74, B:N.75, B:S.76, B:K.179, B:K.179, B:I.220, B:Y.221 Salt bridges: B:K.74, B:D.181

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Anandapadamanaban, M. et al., Architecture of human Rag GTPase heterodimers and their complex with mTORC1. Science (2019)

Release Date

2019-10-16

Peptides

Ras-related GTP-binding protein A: A
Ras-related GTP-binding protein C: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

B
D

Ras-related GTP-binding protein A

Ras-related GTP-binding protein C

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