SMTL ID : 1f6b.1

CRYSTAL STRUCTURE OF SAR1-GDP COMPLEX

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.70 Å

Oligo State

homo-dimer

Ligands

2 x MG: MAGNESIUM ION(Non-covalent)

MG.1: 3 residues within 4Å: Chain A: D.34, D.75 Ligands: GDP.5 5 PLIP interactions: 2 interactions with chain A, 3 Ligand-Water interactions Metal complexes: A:D.34, A:D.75, H2O.1, H2O.1, H2O.4 MG.6: 2 residues within 4Å: Chain B: T.39 Ligands: GDP.9 5 PLIP interactions: 1 interactions with chain B, 4 Ligand-Water interactions Metal complexes: B:T.39, H2O.6, H2O.6, H2O.6, H2O.6

5 x SO4: SULFATE ION(Non-functional Binders)

SO4.2: 7 residues within 4Å: Chain A: F.18, Q.184, G.185, Y.186, G.187, E.188, R.191 7 PLIP interactions: 7 interactions with chain A Hydrogen bonds: A:G.185, A:G.185, A:G.187, A:E.188 Water bridges: A:Y.186, A:Y.186 Salt bridges: A:R.191 SO4.3: 2 residues within 4Å: Chain A: H.105, R.146 2 PLIP interactions: 2 interactions with chain A Salt bridges: A:H.105, A:R.146 SO4.4: 4 residues within 4Å: Chain A: R.148, T.157, G.159, E.174 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:T.157, A:T.157, A:G.159 Water bridges: A:K.160 Salt bridges: A:R.148 SO4.7: 7 residues within 4Å: Chain B: F.18, Q.184, G.185, Y.186, G.187, E.188, R.191 7 PLIP interactions: 7 interactions with chain B Hydrogen bonds: B:G.185, B:G.187, B:E.188 Water bridges: B:Y.186, B:Y.186, B:E.188 Salt bridges: B:R.191 SO4.8: 2 residues within 4Å: Chain B: H.105, R.146 2 PLIP interactions: 2 interactions with chain B Salt bridges: B:H.105, B:R.146

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

GDP.5: 18 residues within 4Å: Chain A: L.33, D.34, N.35, A.36, G.37, K.38, T.39, T.40, H.58, D.75, N.134, K.135, D.137, R.138, S.179, V.180, L.181 Ligands: MG.1 19 PLIP interactions: 19 interactions with chain A Hydrogen bonds: A:N.35, A:A.36, A:G.37, A:K.38, A:T.39, A:T.39, A:T.40, A:T.40, A:N.134, A:K.135, A:R.138, A:V.180, A:L.181 Water bridges: A:T.40, A:K.135, A:K.135 Salt bridges: A:K.38, A:H.58, A:D.137 GDP.9: 17 residues within 4Å: Chain B: L.33, D.34, N.35, A.36, G.37, K.38, T.39, T.40, D.75, N.134, K.135, D.137, R.138, S.179, V.180, L.181 Ligands: MG.6 21 PLIP interactions: 21 interactions with chain B Hydrogen bonds: B:L.33, B:N.35, B:A.36, B:G.37, B:K.38, B:T.39, B:T.40, B:T.40, B:T.40, B:D.75, B:N.134, B:K.135, B:V.180, B:L.181 Water bridges: B:N.35, B:T.39, B:H.58, B:K.135, B:K.135 Salt bridges: B:K.38, B:D.137

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Huang, M. et al., Crystal structure of Sar1-GDP at 1.7 A resolution and the role of the NH2 terminus in ER export. J.Cell Biol. (2001)

Release Date

2002-01-09

Peptides

SAR1: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

SAR1