SMTL ID : 3qmk.1

Crystal structure of the E2 domain of APLP1 in complex with heparin hexasaccharide

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.21 Å

Oligo State

homo-dimer

Ligands

1 x SGN- IDS- SGN- IDS: 2-O-sulfo-alpha-L-idopyranuronic acid-(1-4)-2-deoxy-6-O-sulfo-2-(sulfoamino)-alpha-D-glucopyranose-(1-4)-2-O-sulfo-alpha-L-idopyranuronic acid-(1-4)-2-deoxy-6-O-sulfo-2-(sulfoamino)-alpha-D-glucopyranose

SGN-IDS-SGN-IDS.1: 15 residues within 4Å: Chain A: H.27, F.30, K.34, R.89, V.93, H.96, V.100, K.142, H.146, R.149, H.150, H.153 Chain B: K.34, R.89, H.153 11 PLIP interactions: 6 interactions with chain A, 5 interactions with chain B Hydrogen bonds: A:R.89 Water bridges: A:K.34, A:K.34, A:H.153, B:K.34, B:R.89, B:R.89, A:R.149, A:Q.152 Salt bridges: A:K.34, A:R.89, A:H.153, B:H.153, B:K.34, B:R.89, A:H.146, A:H.150, A:H.153, A:H.153

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

SO4.2: 3 residues within 4Å: Chain B: K.142, R.145, R.149 5 PLIP interactions: 5 interactions with chain B Water bridges: B:R.149, B:R.149 Salt bridges: B:K.142, B:R.145, B:R.149 SO4.3: 3 residues within 4Å: Chain B: H.27, H.96, V.100 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:H.27 Salt bridges: B:H.27, B:H.96 SO4.4: 3 residues within 4Å: Chain B: R.149, H.150, H.153 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:R.149, B:H.150 Water bridges: B:H.146

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Xue, Y. et al., Crystal structure of amyloid precursor-like protein 1 and heparin complex suggests a dual role of heparin in E2 dimerization. Proc.Natl.Acad.Sci.USA (2011)

Release Date

2011-10-12

Peptides

Amyloid-like protein 1: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Amyloid-like protein 1

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