SMTL ID : 7kdv.1

Murine core lysosomal multienzyme complex (LMC) composed of acid beta-galactosidase (GLB1) and protective protein cathepsin A (PPCA, CTSA)

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

hetero-6-6-mer

Ligands

12 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: 4 residues within 4Å: Chain A: Y.386, P.420, S.482, N.483 No protein-ligand interaction detected (PLIP) NAG-NAG.2: 3 residues within 4Å: Chain A: N.569, P.598, N.600 No protein-ligand interaction detected (PLIP) NAG-NAG.4: 4 residues within 4Å: Chain C: Y.386, P.420, S.482, N.483 No protein-ligand interaction detected (PLIP) NAG-NAG.5: 3 residues within 4Å: Chain C: N.569, P.598, N.600 No protein-ligand interaction detected (PLIP) NAG-NAG.7: 4 residues within 4Å: Chain E: Y.386, P.420, S.482, N.483 No protein-ligand interaction detected (PLIP) NAG-NAG.8: 3 residues within 4Å: Chain E: N.569, P.598, N.600 No protein-ligand interaction detected (PLIP) NAG-NAG.10: 4 residues within 4Å: Chain G: Y.386, P.420, S.482, N.483 No protein-ligand interaction detected (PLIP) NAG-NAG.11: 3 residues within 4Å: Chain G: N.569, P.598, N.600 No protein-ligand interaction detected (PLIP) NAG-NAG.13: 4 residues within 4Å: Chain I: Y.386, P.420, S.482, N.483 No protein-ligand interaction detected (PLIP) NAG-NAG.14: 3 residues within 4Å: Chain I: N.569, P.598, N.600 No protein-ligand interaction detected (PLIP) NAG-NAG.16: 4 residues within 4Å: Chain K: Y.386, P.420, S.482, N.483 No protein-ligand interaction detected (PLIP) NAG-NAG.17: 3 residues within 4Å: Chain K: N.569, P.598, N.600 No protein-ligand interaction detected (PLIP)

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

NAG-NAG-BMA.3: 4 residues within 4Å: Chain B: P.87, G.265, N.314, T.316 No protein-ligand interaction detected (PLIP) NAG-NAG-BMA.6: 4 residues within 4Å: Chain D: P.87, G.265, N.314, T.316 No protein-ligand interaction detected (PLIP) NAG-NAG-BMA.9: 4 residues within 4Å: Chain F: P.87, G.265, N.314, T.316 No protein-ligand interaction detected (PLIP) NAG-NAG-BMA.12: 4 residues within 4Å: Chain H: P.87, G.265, N.314, T.316 No protein-ligand interaction detected (PLIP) NAG-NAG-BMA.15: 4 residues within 4Å: Chain J: P.87, G.265, N.314, T.316 No protein-ligand interaction detected (PLIP) NAG-NAG-BMA.18: 4 residues within 4Å: Chain L: P.87, G.265, N.314, T.316 No protein-ligand interaction detected (PLIP)

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

NAG.19: 2 residues within 4Å: Chain A: N.231, Q.234 Ligand excluded by PLIP NAG.20: 4 residues within 4Å: Chain A: P.413, K.414, P.415, N.487 Ligand excluded by PLIP NAG.21: 1 residues within 4Å: Chain A: N.493 Ligand excluded by PLIP NAG.22: 2 residues within 4Å: Chain A: N.540, S.542 Ligand excluded by PLIP NAG.23: 5 residues within 4Å: Chain B: N.127, T.129, E.130, R.352, L.354 Ligand excluded by PLIP NAG.24: 2 residues within 4Å: Chain C: N.231, Q.234 Ligand excluded by PLIP NAG.25: 4 residues within 4Å: Chain C: P.413, K.414, P.415, N.487 Ligand excluded by PLIP NAG.26: 1 residues within 4Å: Chain C: N.493 Ligand excluded by PLIP NAG.27: 2 residues within 4Å: Chain C: N.540, S.542 Ligand excluded by PLIP NAG.28: 5 residues within 4Å: Chain D: N.127, T.129, E.130, R.352, L.354 Ligand excluded by PLIP NAG.29: 2 residues within 4Å: Chain E: N.231, Q.234 Ligand excluded by PLIP NAG.30: 4 residues within 4Å: Chain E: P.413, K.414, P.415, N.487 Ligand excluded by PLIP NAG.31: 1 residues within 4Å: Chain E: N.493 Ligand excluded by PLIP NAG.32: 2 residues within 4Å: Chain E: N.540, S.542 Ligand excluded by PLIP NAG.33: 5 residues within 4Å: Chain F: N.127, T.129, E.130, R.352, L.354 Ligand excluded by PLIP NAG.34: 2 residues within 4Å: Chain G: N.231, Q.234 Ligand excluded by PLIP NAG.35: 4 residues within 4Å: Chain G: P.413, K.414, P.415, N.487 Ligand excluded by PLIP NAG.36: 1 residues within 4Å: Chain G: N.493 Ligand excluded by PLIP NAG.37: 2 residues within 4Å: Chain G: N.540, S.542 Ligand excluded by PLIP NAG.38: 5 residues within 4Å: Chain H: N.127, T.129, E.130, R.352, L.354 Ligand excluded by PLIP NAG.39: 2 residues within 4Å: Chain I: N.231, Q.234 Ligand excluded by PLIP NAG.40: 4 residues within 4Å: Chain I: P.413, K.414, P.415, N.487 Ligand excluded by PLIP NAG.41: 1 residues within 4Å: Chain I: N.493 Ligand excluded by PLIP NAG.42: 2 residues within 4Å: Chain I: N.540, S.542 Ligand excluded by PLIP NAG.43: 5 residues within 4Å: Chain J: N.127, T.129, E.130, R.352, L.354 Ligand excluded by PLIP NAG.44: 2 residues within 4Å: Chain K: N.231, Q.234 Ligand excluded by PLIP NAG.45: 4 residues within 4Å: Chain K: P.413, K.414, P.415, N.487 Ligand excluded by PLIP NAG.46: 1 residues within 4Å: Chain K: N.493 Ligand excluded by PLIP NAG.47: 2 residues within 4Å: Chain K: N.540, S.542 Ligand excluded by PLIP NAG.48: 5 residues within 4Å: Chain L: N.127, T.129, E.130, R.352, L.354 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Gorelik, A. et al., Structure of the murine lysosomal multienzyme complex core. Sci Adv (2021)

Release Date

2021-03-17

Peptides

Beta-galactosidase: ACEGIK
Lysosomal protective protein: BDFHJL

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

C
C

E
E

G
G

I
I

K
K

B
B

D
D

F
F

H
H

J
J

L
L

Beta-galactosidase

Lysosomal protective protein