SMTL ID : 5fjz.1

Yeast delta-COP-I mu-homology domain complexed with Dsl1 WxWxV peptide

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.90 Å

Oligo State

homo-tetramer

Ligands

4 x ASP- TRP- ASN- TRP- GLU- VAL: PROTEIN TRANSPORT PROTEIN DSL1(Non-covalent)

ASP-TRP-ASN-TRP-GLU-VAL.1: 19 residues within 4Å: Chain A: K.72, T.73, H.74, P.75, N.76, L.90, K.95, A.96, P.98, S.103, L.104, G.105, V.106, L.107, R.108 Chain C: F.162, Q.164, D.185, M.188 23 PLIP interactions: 18 interactions with chain A, 5 interactions with chain C Hydrophobic interactions: A:H.74, A:N.76, A:L.90, A:K.95, A:K.95, A:L.104, A:V.106, A:R.108, C:F.162, C:F.162 Hydrogen bonds: A:H.74, A:N.76, A:G.105, C:Q.164, C:E.187 Water bridges: A:S.103, A:S.103, A:S.103, C:G.189 pi-Stacking: A:H.74, A:H.74, A:H.74 pi-Cation interactions: A:H.74 ASP-TRP-ASN-TRP-GLU-VAL.2: 20 residues within 4Å: Chain B: E.43, K.72, T.73, H.74, P.75, N.76, L.90, K.95, A.96, F.97, P.98, S.103, L.104, G.105, L.107, R.108 Chain D: F.162, Q.164, D.185, M.188 21 PLIP interactions: 19 interactions with chain B, 2 interactions with chain D Hydrophobic interactions: B:K.72, B:H.74, B:N.76, B:L.90, B:K.95, B:F.97, B:P.98, B:L.104, B:R.108, D:F.162 Hydrogen bonds: B:E.43, B:E.43, B:H.74, B:N.76, B:K.95, B:G.105, D:Q.164 pi-Stacking: B:H.74, B:H.74 pi-Cation interactions: B:H.74, B:H.74 ASP-TRP-ASN-TRP-GLU-VAL.3: 17 residues within 4Å: Chain A: F.162, Q.164, D.185, M.188 Chain C: E.43, K.72, T.73, H.74, P.75, N.76, K.95, A.96, P.98, S.103, L.104, G.105, R.108 16 PLIP interactions: 3 interactions with chain A, 13 interactions with chain C Hydrophobic interactions: A:F.162, A:Q.164, C:K.72, C:H.74, C:L.104, C:R.108 Hydrogen bonds: A:D.185, C:E.43, C:N.76, C:K.95, C:S.103, C:G.105 pi-Stacking: C:H.74, C:H.74 pi-Cation interactions: C:H.74, C:H.74 ASP-TRP-ASN-TRP-GLU-VAL.4: 19 residues within 4Å: Chain B: F.162, Q.164, D.185, M.188 Chain D: E.43, K.72, T.73, H.74, P.75, N.76, L.90, K.95, A.96, F.97, P.98, S.103, L.104, G.105, R.108 18 PLIP interactions: 16 interactions with chain D, 2 interactions with chain B Hydrophobic interactions: D:K.72, D:L.90, D:L.90, D:K.95, D:F.97, D:P.98, D:L.104, D:R.108, B:F.162 Hydrogen bonds: D:E.43, D:N.76, D:S.103, D:G.105, B:D.185 pi-Stacking: D:H.74, D:H.74 pi-Cation interactions: D:H.74, D:H.74

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Suckling, R.J. et al., Structural Basis for the Binding of Tryptophan-Based Motifs by Delta-Cop. Proc.Natl.Acad.Sci.USA (2015)

Release Date

2015-11-11

Peptides

COATOMER SUBUNIT DELTA: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

COATOMER SUBUNIT DELTA

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