SMTL ID : 3k42.2 (1 other biounit)

Crystal structure of sCD-MPR mutant E19Q/K137M pH 7.0

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.30 Å

Oligo State

homo-dimer

Ligands

2 x NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose(Non-covalent)(Post Translational Modification)

NAG.1: 3 residues within 4Å: Chain A: R.79, N.81, E.82 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:N.81, A:E.82 Water bridges: A:R.79, A:R.79 NAG.7: 3 residues within 4Å: Chain B: R.79, N.81, E.82 5 PLIP interactions: 5 interactions with chain B Hydrophobic interactions: B:E.82 Hydrogen bonds: B:N.81, B:E.82, B:E.82 Water bridges: B:R.79

2 x 1GP: SN-GLYCEROL-1-PHOSPHATE(Non-covalent)

1GP.2: 8 residues within 4Å: Chain A: S.33, F.34, E.35, A.125, D.126, N.127, F.128 Ligands: SO4.4 7 PLIP interactions: 7 interactions with chain A Hydrogen bonds: A:S.33, A:E.35, A:A.125, A:D.126, A:F.128 Water bridges: A:E.35, A:A.125 1GP.8: 7 residues within 4Å: Chain B: K.32, S.33, F.34, E.35, A.125, N.127, F.128 7 PLIP interactions: 7 interactions with chain B Hydrogen bonds: B:K.32, B:S.33, B:E.35, B:A.125, B:D.126, B:N.127, B:F.128

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

SO4.3: 5 residues within 4Å: Chain A: Y.102, D.103, N.104, H.105, R.111 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:D.103, A:D.103, A:N.104 Salt bridges: A:H.105, A:R.111 SO4.4: 4 residues within 4Å: Chain A: Q.31, K.32, S.33 Ligands: 1GP.2 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:S.33 SO4.5: 4 residues within 4Å: Chain A: K.32, L.124 Chain B: R.25, S.154 8 PLIP interactions: 4 interactions with chain B, 4 interactions with chain A Water bridges: B:R.25, B:R.25, B:S.154, A:A.125, A:A.125 Salt bridges: B:R.25, A:K.32 Hydrogen bonds: A:L.124 SO4.6: 3 residues within 4Å: Chain A: E.35, S.36, T.37 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:T.37, A:T.37 Water bridges: A:E.35, A:E.35, A:S.36 SO4.9: 5 residues within 4Å: Chain B: Y.102, D.103, N.104, H.105, R.111 7 PLIP interactions: 7 interactions with chain B Hydrogen bonds: B:D.103, B:D.103, B:N.104, B:N.104 Water bridges: B:R.111 Salt bridges: B:H.105, B:R.111 SO4.10: 5 residues within 4Å: Chain A: R.25, C.153, S.154 Chain B: T.123, L.124 8 PLIP interactions: 4 interactions with chain B, 4 interactions with chain A Hydrogen bonds: B:L.124 Water bridges: B:T.123, B:A.125, B:A.125, A:R.25, A:R.25, A:R.25 Salt bridges: A:R.25 SO4.11: 2 residues within 4Å: Chain B: S.36, T.37 6 PLIP interactions: 6 interactions with chain B Hydrogen bonds: B:T.37 Water bridges: B:E.35, B:E.35, B:E.35, B:S.36, B:T.37 SO4.12: 4 residues within 4Å: Chain B: H.58, S.59, S.60, R.79 5 PLIP interactions: 5 interactions with chain B Hydrogen bonds: B:H.58, B:S.60 Water bridges: B:R.79, B:R.79 Salt bridges: B:R.79

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Olson, L.J. et al., Intermonomer interactions are essential for lysosomal enzyme binding by the cation-dependent mannose 6-phosphate receptor. Biochemistry (2010)

Release Date

2009-11-24

Peptides

Cation-dependent mannose-6-phosphate receptor: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Cation-dependent mannose-6-phosphate receptor

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