SMTL ID : 1up6.2 (1 other biounit)

Structure of the 6-phospho-beta glucosidase from Thermotoga maritima at 2.55 Angstrom resolution in the tetragonal form with manganese, NAD+ and glucose-6-phosphate

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.55 Å

Oligo State

homo-tetramer

Ligands

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

SO4.1: 5 residues within 4Å: Chain A: E.249, P.390, G.392, D.394 Chain B: E.249 2 PLIP interactions: 1 interactions with chain B, 1 interactions with chain A Water bridges: B:E.249 Hydrogen bonds: A:G.392 SO4.4: 5 residues within 4Å: Chain C: E.249, P.390, G.392, D.394 Chain D: E.249 2 PLIP interactions: 1 interactions with chain C, 1 interactions with chain D Hydrogen bonds: C:E.249, D:E.249

1 x NAD: NICOTINAMIDE-ADENINE-DINUCLEOTIDE(Non-covalent)

NAD.2: 25 residues within 4Å: Chain C: G.8, G.10, S.11, Y.13, Y.36, D.37, I.38, D.39, K.42, Q.79, F.80, R.81, G.84, L.85, E.104, I.120, Y.124, F.139, T.140, N.141, L.162, C.163, N.164, E.270 Ligands: MN.3 17 PLIP interactions: 17 interactions with chain C Hydrophobic interactions: C:Y.13 Hydrogen bonds: C:G.10, C:I.38, C:F.80, C:R.81, C:L.85, C:E.104, C:Y.124, C:F.139, C:N.141, C:N.141, C:N.164, C:N.164, C:E.270 Salt bridges: C:K.42, C:R.81, C:R.81

1 x MN: MANGANESE (II) ION(Non-covalent)

MN.3: 4 residues within 4Å: Chain C: C.163, N.164, H.193 Ligands: NAD.2 2 PLIP interactions: 2 interactions with chain C Metal complexes: C:C.163, C:H.193

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Yip, V.L. et al., An Unusual Mechanism of Glycoside Hydrolysis Involving Redox and Elimination Steps by a Family 4 Beta-Glycosidase from Thermotoga Maritima. J.Am.Chem.Soc. (2004)

Release Date

2004-08-02

Peptides

6-PHOSPHO-BETA-GLUCOSIDASE: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
E

B
F

C
G

D
H

6-PHOSPHO-BETA-GLUCOSIDASE

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