SMTL ID : 1re0.1

Structure of ARF1-GDP bound to Sec7 domain complexed with Brefeldin A

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.40 Å

Oligo State

hetero-1-1-mer

Ligands

1 x MG: MAGNESIUM ION(Non-covalent)

MG.1: 3 residues within 4Å: Chain A: T.14, E.37 Ligands: GDP.2 5 PLIP interactions: 1 interactions with chain A, 4 Ligand-Water interactions Metal complexes: A:T.14, H2O.1, H2O.1, H2O.2, H2O.2

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

GDP.2: 16 residues within 4Å: Chain A: L.8, D.9, A.10, A.11, G.12, K.13, T.14, T.15, N.109, K.110, D.112, L.113, C.142, A.143, T.144 Ligands: MG.1 19 PLIP interactions: 19 interactions with chain A Hydrogen bonds: A:D.9, A:A.10, A:A.11, A:G.12, A:K.13, A:T.14, A:T.15, A:T.15, A:N.109, A:K.110, A:K.110, A:A.143, A:T.144 Water bridges: A:T.14, A:T.14, A:T.14, A:E.37 Salt bridges: A:K.13, A:D.112

1 x AFB: 1,6,7,8,9,11A,12,13,14,14A-DECAHYDRO-1,13-DIHYDROXY-6-METHYL-4H-CYCLOPENT[F]OXACYCLOTRIDECIN-4-ONE(Non-covalent)

AFB.3: 14 residues within 4Å: Chain A: F.34, N.35, V.36, T.47, V.48, W.49, D.50, I.57, W.61, Y.64 Chain B: S.104, Y.162, M.166, T.169 12 PLIP interactions: 8 interactions with chain A, 4 interactions with chain B Hydrophobic interactions: A:F.34, A:F.34, A:W.49, A:W.49, B:Y.162, B:T.169 Hydrogen bonds: A:D.50, A:D.50, A:W.61, B:Y.162 Water bridges: A:E.37, B:S.104

1 x CIT: CITRIC ACID(Non-functional Binders)

CIT.4: 6 residues within 4Å: Chain A: L.94, S.130, L.131, R.132, H.133, R.134 7 PLIP interactions: 7 interactions with chain A Hydrogen bonds: A:S.130, A:R.132, A:H.133, A:H.133 Salt bridges: A:R.132, A:H.133, A:R.134

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Mossessova, E. et al., Crystal structure of ARF1*Sec7 complexed with Brefeldin A and its implications for the guanine nucleotide exchange mechanism. Mol.Cell (2003)

Release Date

2003-12-16

Peptides

ADP-ribosylation factor 1: A
ARF guanine-nucleotide exchange factor 1: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

ADP-ribosylation factor 1

ARF guanine-nucleotide exchange factor 1

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