SMTL ID : 2gk1.4 (5 other biounits)

X-ray crystal structure of NGT-bound HexA

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 3.25 Å

Oligo State

hetero-2-2-2-2-2-mer

Ligands

4 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.1: 3 residues within 4Å: Chain B: N.27, E.42, F.76 No protein-ligand interaction detected (PLIP) NAG-NAG-BMA.2: 6 residues within 4Å: Chain A: T.10, S.11, D.12, R.14 Chain B: W.59, N.69 No protein-ligand interaction detected (PLIP) NAG-NAG-BMA.3: 6 residues within 4Å: Chain C: P.5, M.16, T.17, P.18, L.20 Chain D: N.69 No protein-ligand interaction detected (PLIP) NAG-NAG-BMA.5: 5 residues within 4Å: Chain F: S.11, D.12, R.14 Chain G: W.59, N.69 No protein-ligand interaction detected (PLIP)

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

NAG-NAG.4: 4 residues within 4Å: Chain G: V.25, N.27, E.42, F.76 No protein-ligand interaction detected (PLIP) NAG-NAG.6: 5 residues within 4Å: Chain H: M.16, T.17, P.18, L.20 Chain I: N.69 No protein-ligand interaction detected (PLIP)

4 x NGT: 3AR,5R,6S,7R,7AR-5-HYDROXYMETHYL-2-METHYL-5,6,7,7A-TETRAHYDRO-3AH-PYRANO[3,2-D]THIAZOLE-6,7-DIOL(Non-covalent)

NGT.7: 12 residues within 4Å: Chain B: R.90, D.119, H.174, D.234, E.235, W.285, W.304, Y.333, N.335, W.372, E.374 Chain E: Y.141 10 PLIP interactions: 9 interactions with chain B, 1 interactions with chain E Hydrophobic interactions: B:D.234, B:W.285, B:W.372 Hydrogen bonds: B:R.90, B:R.90, B:R.90, B:D.234, B:D.234, B:N.335, E:Y.141 NGT.8: 11 residues within 4Å: Chain B: Y.339 Chain D: R.90, H.173 Chain E: D.39, E.40, W.90, W.109, Y.135, D.137, W.174, E.176 7 PLIP interactions: 2 interactions with chain D, 4 interactions with chain E, 1 interactions with chain B Hydrogen bonds: D:R.90, D:R.90, E:D.39, B:Y.339 Hydrophobic interactions: E:W.90, E:W.109, E:W.174 NGT.9: 10 residues within 4Å: Chain G: R.90, H.174, D.234, E.235, W.304, Y.333, N.335, W.372, E.374 Chain J: Y.141 10 PLIP interactions: 8 interactions with chain G, 2 interactions with chain J Hydrophobic interactions: G:W.304, G:Y.333, G:W.372 Hydrogen bonds: G:R.90, G:R.90, G:D.234, G:E.235, G:N.335, J:Y.141, J:Y.141 NGT.10: 10 residues within 4Å: Chain I: R.90, H.173 Chain J: D.39, E.40, W.90, W.109, Y.135, D.137, W.174, E.176 7 PLIP interactions: 5 interactions with chain J, 2 interactions with chain I Hydrophobic interactions: J:W.90, J:W.109, J:W.174 Hydrogen bonds: J:D.39, J:D.137, I:R.90, I:R.90

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Lemieux, M.J. et al., Crystallographic Structure of Human beta-Hexosaminidase A: Interpretation of Tay-Sachs Mutations and Loss of G(M2) Ganglioside Hydrolysis. J.Mol.Biol. (2006)

Release Date

2006-05-30

Peptides

Beta-hexosaminidase subunit alpha: AF
Beta-hexosaminidase subunit alpha: BG
Beta-hexosaminidase subunit beta: CH
Beta-hexosaminidase subunit beta chain B: DI
Beta-hexosaminidase subunit beta chain A: EJ

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

F
C

B
I

G
J

C
B

H
D

D
M

I
O

E
N

J
P

Beta-hexosaminidase subunit alpha

Beta-hexosaminidase subunit alpha

Beta-hexosaminidase subunit beta

Beta-hexosaminidase subunit beta chain B

Beta-hexosaminidase subunit beta chain A

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