SMTL ID : 1r47.1

Structure of human alpha-galactosidase

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 3.45 Å

Oligo State

homo-dimer

Ligands

1 x NAG- NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)

NAG-NAG.1: 5 residues within 4Å: Chain A: N.108, F.118, C.143, D.144, N.148 No protein-ligand interaction detected (PLIP)

2 x NAG- NAG- MAN- MAN- MAN: alpha-D-mannopyranose-(1-3)-[alpha-D-mannopyranose-(1-6)]alpha-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose

NAG-NAG-MAN-MAN-MAN.2: 4 residues within 4Å: Chain A: D.2, R.7, N.161, G.164 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:D.2, A:R.7 NAG-NAG-MAN-MAN-MAN.5: 4 residues within 4Å: Chain B: D.2, G.4, N.161, G.164 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:D.2

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

NAG-NAG-MAN.3: 3 residues within 4Å: Chain A: N.184, E.187, Q.190 No protein-ligand interaction detected (PLIP) NAG-NAG-MAN.6: 3 residues within 4Å: Chain B: N.184, E.187, Q.190 No protein-ligand interaction detected (PLIP)

1 x NAG- NAG- MAN- MAN- MAN- FUC: alpha-D-mannopyranose-(1-3)-[alpha-D-mannopyranose-(1-6)]alpha-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-[alpha-L-fucopyranose-(1-6)]2-acetamido-2-deoxy-beta-D-glucopyranose

NAG-NAG-MAN-MAN-MAN-FUC.4: 5 residues within 4Å: Chain B: N.108, F.118, C.143, D.144, N.148 No protein-ligand interaction detected (PLIP)

2 x GAL: beta-D-galactopyranose(Non-covalent)

GAL.7: 11 residues within 4Å: Chain A: W.16, D.61, D.62, Y.103, C.111, A.112, K.137, D.139, E.172, R.196, D.200 10 PLIP interactions: 10 interactions with chain A Hydrogen bonds: A:D.62, A:D.62, A:Y.103, A:K.137, A:K.137, A:E.172, A:R.196, A:R.196, A:D.200, A:D.200 GAL.9: 10 residues within 4Å: Chain B: W.16, D.61, D.62, Y.103, C.111, K.137, D.139, E.172, R.196, D.200 10 PLIP interactions: 10 interactions with chain B Hydrogen bonds: B:D.62, B:Y.103, B:K.137, B:K.137, B:D.139, B:E.172, B:R.196, B:R.196, B:D.200, B:D.200

2 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)

EDO.8: 2 residues within 4Å: Chain A: K.362, G.364 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:K.362 EDO.10: 2 residues within 4Å: Chain B: R.270, H.271 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:H.271

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Garman, S.C. et al., The molecular defect leading to Fabry disease: structure of human alpha-galactosidase. J.Mol.Biol. (2004)

Release Date

2004-03-16

Peptides

Alpha-galactosidase A: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Alpha-galactosidase A

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