SMTL ID : 6sur.3 (2 other biounits)

The Rab33B-Atg16L1 crystal structure

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 3.47 Å

Oligo State

hetero-2-2-mer

Ligands

2 x MG: MAGNESIUM ION(Non-covalent)

MG.1: 4 residues within 4Å: Chain A: T.18, T.36, D.59 Ligands: GTP.2 2 PLIP interactions: 2 interactions with chain A Metal complexes: A:T.18, A:T.36 MG.3: 4 residues within 4Å: Chain B: T.18, T.36, D.59 Ligands: GTP.4 2 PLIP interactions: 2 interactions with chain B Metal complexes: B:T.18, B:T.36

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

GTP.2: 22 residues within 4Å: Chain A: D.12, S.13, N.14, V.15, G.16, K.17, T.18, C.19, F.29, T.33, A.35, T.36, A.61, G.62, N.119, K.120, D.122, L.123, S.149, A.150, K.151 Ligands: MG.1 21 PLIP interactions: 21 interactions with chain A Hydrogen bonds: A:N.14, A:V.15, A:G.16, A:K.17, A:T.18, A:T.18, A:C.19, A:T.33, A:T.36, A:T.36, A:G.62, A:N.119, A:K.120, A:K.120, A:A.150, A:K.151 Salt bridges: A:K.17, A:K.17, A:D.122 pi-Stacking: A:F.29 pi-Cation interactions: A:K.120 GTP.4: 21 residues within 4Å: Chain B: D.12, S.13, N.14, V.15, G.16, K.17, T.18, C.19, F.29, T.33, E.34, T.36, G.62, N.119, K.120, D.122, L.123, S.149, A.150, K.151 Ligands: MG.3 19 PLIP interactions: 19 interactions with chain B Hydrogen bonds: B:N.14, B:V.15, B:G.16, B:K.17, B:T.18, B:C.19, B:E.34, B:T.36, B:G.62, B:N.119, B:K.120, B:K.120, B:S.149, B:A.150, B:K.151 Salt bridges: B:K.17, B:K.17, B:D.122 pi-Stacking: B:F.29

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Metje-Sprink, J. et al., Crystal structure of the Rab33B/Atg16L1 effector complex. Sci Rep (2020)

Release Date

2020-08-05

Peptides

Ras-related protein Rab-33B: AB
Autophagy-related protein 16-1: CD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
E

B
F

C
M

D
N

Ras-related protein Rab-33B

Autophagy-related protein 16-1

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