SMTL ID : 2wyi.1

Structure of the Streptococcus pyogenes family GH38 alpha-mannosidase complexed with swainsonine

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.60 Å

Oligo State

homo-dimer

Ligands

11 x PG0: 2-(2-METHOXYETHOXY)ETHANOL(Non-functional Binders)

PG0.1: 7 residues within 4Å: Chain A: Y.325, E.793, C.796, L.797, K.799, H.800 Ligands: PG0.2 No protein-ligand interaction detected (PLIP) PG0.2: 3 residues within 4Å: Chain A: E.793 Ligands: PG0.1, PG0.8 No protein-ligand interaction detected (PLIP) PG0.3: 4 residues within 4Å: Chain A: Y.758, G.824, Q.825, P.827 1 PLIP interactions: 1 interactions with chain A Water bridges: A:E.441 PG0.4: 2 residues within 4Å: Chain A: R.332, Y.396 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:R.332 PG0.7: 1 residues within 4Å: Chain B: Q.464 No protein-ligand interaction detected (PLIP) PG0.8: 6 residues within 4Å: Chain B: Y.325, E.793, C.796, L.797, K.799 Ligands: PG0.2 No protein-ligand interaction detected (PLIP) PG0.9: 6 residues within 4Å: Chain B: A.329, R.332, M.389, E.393, Y.396 Ligands: PG0.11 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:R.332, B:Y.396 Water bridges: B:Y.396 PG0.10: 4 residues within 4Å: Chain B: G.824, Q.825, P.827 Ligands: PG0.11 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:Q.825 Water bridges: B:E.441 PG0.11: 5 residues within 4Å: Chain B: R.332, Y.758, S.803 Ligands: PG0.9, PG0.10 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:S.803 PG0.12: 4 residues within 4Å: Chain A: Y.460, Q.464 Chain B: A.646, E.649 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:Q.464 PG0.13: 2 residues within 4Å: Chain B: R.171, W.213 No protein-ligand interaction detected (PLIP)

2 x ZN: ZINC ION(Non-covalent)

ZN.5: 5 residues within 4Å: Chain A: H.35, D.37, D.147, H.373 Ligands: SWA.6 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:H.35, A:D.37, A:D.147, A:H.373 ZN.14: 6 residues within 4Å: Chain B: H.35, D.37, D.147, H.373, D.374 Ligands: SWA.15 4 PLIP interactions: 4 interactions with chain B Metal complexes: B:H.35, B:D.37, B:D.147, B:H.373

2 x SWA: 1S-8AB-OCTAHYDRO-INDOLIZIDINE-1A,2A,8B-TRIOL(Non-covalent)

SWA.6: 13 residues within 4Å: Chain A: H.35, D.37, W.40, D.147, F.149, R.171, Y.214, D.254, H.373, D.374, Y.596, D.785 Ligands: ZN.5 12 PLIP interactions: 12 interactions with chain A Hydrophobic interactions: A:F.149, A:F.149, A:Y.596 Hydrogen bonds: A:D.254, A:D.374, A:D.374, A:Y.596 Salt bridges: A:D.37, A:D.147, A:D.254, A:D.374, A:D.785 SWA.15: 14 residues within 4Å: Chain B: H.35, D.37, W.40, D.147, F.149, R.171, Y.214, D.254, L.316, H.373, D.374, Y.596, D.785 Ligands: ZN.14 12 PLIP interactions: 12 interactions with chain B Hydrophobic interactions: B:F.149, B:L.316, B:Y.596 Hydrogen bonds: B:D.147, B:Y.214, B:D.254, B:D.374, B:D.374, B:Y.596 Salt bridges: B:D.147, B:D.254, B:D.785

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

Related Entries With Identical Sequence