SMTL ID : 1syo.1

N-terminal 3 domains of CI-MPR bound to mannose 6-phosphate

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.20 Å

Oligo State

homo-dimer

Ligands

1 x NDG- NAG- BMA: beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-alpha-D-glucopyranose

NDG-NAG-BMA.1: 3 residues within 4Å: Chain A: L.65, E.74, N.76 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:L.65 Hydrogen bonds: A:N.76 Water bridges: A:N.76

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

NAG.2: 3 residues within 4Å: Chain A: E.116, Q.364, N.365 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.365 NAG.5: 3 residues within 4Å: Chain B: T.67, N.76, Q.89 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:Q.89 Water bridges: B:T.67, B:T.67 NAG.6: 3 residues within 4Å: Chain B: R.288, Q.364, N.365 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:R.288, B:R.288, B:N.365, B:N.365

2 x M6P: 6-O-phosphono-alpha-D-mannopyranose(Non-covalent)

M6P.3: 11 residues within 4Å: Chain A: Y.324, Q.348, Q.356, K.358, C.385, S.386, R.391, E.416, C.419, Y.421 Chain B: K.350 16 PLIP interactions: 12 interactions with chain A, 4 interactions with chain B Hydrogen bonds: A:Y.324, A:Y.324, A:Q.348, A:Q.348, A:Q.356, A:S.386, A:S.386, A:R.391, A:E.416 Water bridges: A:E.384, A:S.387, B:K.350, B:K.350, B:K.350 Salt bridges: A:R.391, B:K.350 M6P.7: 11 residues within 4Å: Chain A: K.350 Chain B: Y.324, Q.348, Q.356, K.358, C.385, S.386, R.391, E.416, C.419, Y.421 17 PLIP interactions: 13 interactions with chain B, 4 interactions with chain A Hydrogen bonds: B:Y.324, B:Y.324, B:Q.348, B:Q.348, B:Q.356, B:S.386, B:S.386, B:R.391, B:E.416 Water bridges: B:K.358, B:K.358, A:K.350, A:K.350 Salt bridges: B:K.358, B:R.391, A:K.350, A:K.350

2 x GOL: GLYCEROL(Non-functional Binders)

GOL.4: 5 residues within 4Å: Chain A: L.198, R.200, F.236, K.265, C.268 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:R.200, A:R.200, A:C.268 GOL.8: 4 residues within 4Å: Chain B: R.118, T.367, F.380, M.392 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:T.367 Water bridges: B:R.369, B:R.369

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Olson, L.J. et al., The N-terminal carbohydrate recognition site of the cation-independent mannose 6-phosphate receptor. J.Biol.Chem. (2004)

Release Date

2004-06-29

Peptides

cation-independent mannose 6-phosphate receptor: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

cation-independent mannose 6-phosphate receptor

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