SMTL ID : 4hhv.1

Crystal structure of ceramide transfer protein pleckstrin homology domain

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.75 Å

Oligo State

homo-dimer

Ligands

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

SO4.1: 5 residues within 4Å: Chain A: K.16, T.18, R.27, Y.38, K.40 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:Y.38 Water bridges: A:K.40 Salt bridges: A:K.16, A:R.27, A:K.40 SO4.5: 5 residues within 4Å: Chain B: K.16, T.18, R.27, Y.38, R.50 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:Y.38 Salt bridges: B:K.16, B:R.27, B:R.50

3 x GOL: GLYCEROL(Non-functional Binders)

GOL.2: 5 residues within 4Å: Chain A: G.12, V.13, H.88, W.92 Chain B: T.45 4 PLIP interactions: 2 interactions with chain B, 2 interactions with chain A Hydrogen bonds: B:T.45, A:V.13, A:W.92 Water bridges: B:E.46 GOL.6: 9 residues within 4Å: Chain A: T.45, E.46, Y.47 Chain B: R.10, C.11, G.12, H.88, Q.91, W.92 4 PLIP interactions: 2 interactions with chain A, 2 interactions with chain B Hydrogen bonds: A:E.46, A:Y.47, B:R.10, B:C.11 GOL.7: 9 residues within 4Å: Chain A: T.45, E.46 Chain B: V.13, L.14, S.15, D.26, R.82, A.83, Q.84 4 PLIP interactions: 3 interactions with chain A, 1 interactions with chain B Water bridges: A:T.45, A:E.46, A:E.46 Hydrogen bonds: B:Q.84

3 x CL: CHLORIDE ION(Non-functional Binders)

CL.3: 2 residues within 4Å: Chain A: V.30 Chain B: E.9 Ligand excluded by PLIP CL.4: 1 residues within 4Å: Chain A: Q.84 Ligand excluded by PLIP CL.8: 1 residues within 4Å: Chain B: F.65 Ligand excluded by PLIP

1 x ACT: ACETATE ION(Non-functional Binders)

ACT.9: 1 residues within 4Å: Chain B: H.63 4 PLIP interactions: 4 interactions with chain B Water bridges: B:R.69, B:R.69 Salt bridges: B:H.63, B:R.69

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Prashek, J. et al., Crystal Structure of the Pleckstrin Homology Domain from the Ceramide Transfer Protein: Implications for Conformational Change upon Ligand Binding. Plos One (2013)

Release Date

2013-11-27

Peptides

Collagen type IV alpha-3-binding protein: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Collagen type IV alpha-3-binding protein