SMTL ID : 4rzc.3 (3 other biounits)

Fv M6P-1 in complex with mannose-6-phosphate

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.72 Å

Oligo State

hetero-1-1-mer

Ligands

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

M6P.1: 11 residues within 4Å: Chain A: W.32, Y.33, T.34, D.100, G.101, I.102, N.103, G.104 Chain B: R.32, R.98, Y.99 11 PLIP interactions: 8 interactions with chain A, 3 interactions with chain B Hydrogen bonds: A:W.32, A:W.32, A:T.34, A:T.34, A:D.100, A:G.101, A:N.103, A:G.104 Water bridges: B:R.32 Salt bridges: B:R.32, B:R.98

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

SO4.2: 2 residues within 4Å: Chain B: Q.42, R.43 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:Q.42, B:R.43 Salt bridges: B:R.43 SO4.3: 1 residues within 4Å: Chain B: R.98 1 PLIP interactions: 1 interactions with chain B Salt bridges: B:R.98

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Blackler, R.J. et al., Single-chain antibody-fragment M6P-1 possesses a mannose 6-phosphate monosaccharide-specific binding pocket that distinguishes N-glycan phosphorylation in a branch-specific manner. Glycobiology (2016)

Release Date

2015-11-04

Peptides

Fv M6P-1 light chain: A
Fv M6P-1 heavy chain: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
C

B
D

Fv M6P-1 light chain

Fv M6P-1 heavy chain

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