SMTL ID : 4ido.1

human atlastin-1 1-446, C-his6, GDPAlF4-

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.09 Å

Oligo State

homo-dimer

Ligands

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

GDP.1: 18 residues within 4Å: Chain A: R.77, K.78, G.79, K.80, S.81, F.82, W.112, R.113, G.114, R.217, D.218, H.271, P.272, V.276, F.282, F.293 Ligands: ALF.2, MG.3 22 PLIP interactions: 21 interactions with chain A, 1 interactions with chain B Hydrogen bonds: A:R.77, A:K.78, A:G.79, A:K.80, A:S.81, A:F.82, A:R.113, A:R.113, A:R.217, A:H.271 Water bridges: A:R.77, A:S.81, A:G.114, A:T.120, A:V.276, B:Q.180 Salt bridges: A:R.77, A:R.77, A:K.80, A:D.218 pi-Stacking: A:F.82 pi-Cation interactions: A:H.271 GDP.4: 18 residues within 4Å: Chain B: R.77, K.78, G.79, K.80, S.81, F.82, W.112, R.113, G.114, R.217, D.218, H.271, P.272, V.276, F.282, F.293 Ligands: ALF.5, MG.6 23 PLIP interactions: 21 interactions with chain B, 2 interactions with chain A Hydrogen bonds: B:R.77, B:K.78, B:G.79, B:K.80, B:S.81, B:F.82, B:R.113, B:R.113, B:R.217, B:H.271 Water bridges: B:G.114, B:T.120, B:T.120, B:D.218, B:P.270, A:Q.180, A:S.220 Salt bridges: B:R.77, B:R.77, B:K.80, B:D.218 pi-Stacking: B:F.82 pi-Cation interactions: B:H.271

2 x ALF: TETRAFLUOROALUMINATE ION(Non-covalent)

ALF.2: 10 residues within 4Å: Chain A: F.76, R.77, K.80, R.118, E.119, T.120, T.147, G.149 Ligands: GDP.1, MG.3 No protein-ligand interaction detected (PLIP) ALF.5: 10 residues within 4Å: Chain B: F.76, R.77, K.80, R.118, E.119, T.120, T.147, G.149 Ligands: GDP.4, MG.6 No protein-ligand interaction detected (PLIP)

2 x MG: MAGNESIUM ION(Non-covalent)

MG.3: 5 residues within 4Å: Chain A: S.81, T.120, D.146 Ligands: GDP.1, ALF.2 4 PLIP interactions: 2 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:S.81, A:T.120, H2O.1, H2O.13 MG.6: 5 residues within 4Å: Chain B: S.81, T.120, D.146 Ligands: GDP.4, ALF.5 4 PLIP interactions: 2 interactions with chain B, 2 Ligand-Water interactions Metal complexes: B:S.81, B:T.120, H2O.13, H2O.26

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Byrnes, L.J. et al., Structural basis for conformational switching and GTP loading of the large G protein atlastin. Embo J. (2013)

Release Date

2013-01-09

Peptides

Atlastin-1: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Atlastin-1

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