SMTL ID : 2wyh.1

STRUCTURE OF THE STREPTOCOCCUS PYOGENES FAMILY GH38 ALPHA-MANNOSIDASE

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.90 Å

Oligo State

homo-dimer

Ligands

2 x ZN: ZINC ION(Non-covalent)

ZN.1: 4 residues within 4Å: Chain A: H.35, D.37, D.147, H.373 5 PLIP interactions: 4 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:H.35, A:D.37, A:D.147, A:H.373, H2O.10 ZN.9: 4 residues within 4Å: Chain B: H.35, D.37, D.147, H.373 4 PLIP interactions: 4 interactions with chain B Metal complexes: B:H.35, B:D.37, B:D.147, B:H.373

12 x GOL: GLYCEROL(Non-functional Binders)

GOL.2: 5 residues within 4Å: Chain A: Q.46, R.50 Chain B: H.400, Y.401, K.404 5 PLIP interactions: 3 interactions with chain A, 2 interactions with chain B Hydrogen bonds: A:Q.46, A:R.50, A:R.50, B:K.404 Water bridges: B:Y.401 GOL.3: 6 residues within 4Å: Chain A: R.124, L.127, I.128, L.360, R.361, W.364 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:R.124, A:L.360 Water bridges: A:E.342 GOL.4: 2 residues within 4Å: Chain A: T.223, E.224 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:E.224 Water bridges: A:T.223 GOL.5: 3 residues within 4Å: Chain A: P.501, K.502, R.503 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:R.503, A:S.504 Water bridges: A:S.504 GOL.6: 2 residues within 4Å: Chain A: R.568, R.585 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:R.568, A:R.568, A:R.585, A:R.585 GOL.7: 3 residues within 4Å: Chain A: T.708, D.709, H.710 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:T.708, A:T.708, A:D.709, A:H.710 GOL.8: 6 residues within 4Å: Chain A: A.329, R.332, M.389, F.392, E.393, Y.396 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:R.332, A:R.332 GOL.11: 3 residues within 4Å: Chain B: T.708, D.709, H.710 5 PLIP interactions: 5 interactions with chain B Hydrogen bonds: B:T.708, B:D.709, B:H.710, B:H.710 Water bridges: B:T.708 GOL.12: 5 residues within 4Å: Chain B: D.641, K.642, R.661, S.662, Q.663 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:K.642, B:Q.663, B:Q.663 GOL.13: 3 residues within 4Å: Chain B: P.501, K.502, R.503 6 PLIP interactions: 6 interactions with chain B Hydrogen bonds: B:K.502, B:R.503, B:S.504 Water bridges: B:L.500, B:K.502, B:S.504 GOL.14: 8 residues within 4Å: Chain B: R.682, N.757, Y.758, S.803, Y.804, S.805, G.824, Q.825 5 PLIP interactions: 5 interactions with chain B Hydrogen bonds: B:R.682, B:R.682, B:Y.804, B:G.824 Water bridges: B:F.685 GOL.15: 6 residues within 4Å: Chain B: R.124, L.127, I.128, L.360, R.361, W.364 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:R.124, B:L.360

1 x TRS: 2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL(Non-functional Binders)

TRS.10: 6 residues within 4Å: Chain A: H.400, Y.401, K.404 Chain B: M.42, Q.46, R.50 10 PLIP interactions: 8 interactions with chain A, 2 interactions with chain B Hydrogen bonds: A:H.400, A:H.400, A:K.404, A:K.404, A:E.405, A:E.405, B:R.50, B:R.50 Water bridges: A:Y.401, A:Y.401

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Suits, M.D.L. et al., Structure and Kinetic Investigation of Streptococcus Pyogenes Family Gh38 Alpha-Mannosidase. Plos One (2010)

Release Date

2010-02-16

Peptides

ALPHA-MANNOSIDASE: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

ALPHA-MANNOSIDASE

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