SMTL ID : 3p2c.1

Crystal structure of an exo-alpha-1,6-mannosidase (bacova_03347) from bacteroides ovatus at 1.60 a resolution

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.60 Å

Oligo State

homo-dimer

Ligands

13 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)

EDO.1: 3 residues within 4Å: Chain A: R.220, H.378, I.379 No protein-ligand interaction detected (PLIP) EDO.2: 4 residues within 4Å: Chain A: F.366, Y.381, D.382 Chain B: P.233 5 PLIP interactions: 2 interactions with chain A, 3 interactions with chain B Hydrogen bonds: A:D.382 Water bridges: A:K.425, B:V.234, B:V.234, B:V.234 EDO.3: 3 residues within 4Å: Chain A: Y.304, N.305 Chain B: Y.304 4 PLIP interactions: 2 interactions with chain A, 2 interactions with chain B Hydrogen bonds: A:N.305, A:N.305 Water bridges: B:Y.304, B:N.305 EDO.4: 6 residues within 4Å: Chain A: W.358, E.372, K.392, T.404, C.405, M.408 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:E.372, A:E.372 Water bridges: A:T.404 EDO.5: 4 residues within 4Å: Chain A: Y.313, V.343, N.344, D.347 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:N.344 Water bridges: A:Y.313, A:Y.313 EDO.6: 3 residues within 4Å: Chain A: A.182, F.185, V.277 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:A.182 Water bridges: A:N.278 EDO.7: 8 residues within 4Å: Chain A: L.253, N.322, H.323, H.324 Chain B: L.253, N.322, H.323, H.324 4 PLIP interactions: 2 interactions with chain B, 2 interactions with chain A Hydrogen bonds: B:N.322, A:N.322 Water bridges: B:H.323, A:H.323 EDO.8: 4 residues within 4Å: Chain A: P.233 Chain B: F.366, Y.381, D.382 4 PLIP interactions: 2 interactions with chain B, 2 interactions with chain A Hydrogen bonds: B:D.382 Water bridges: B:K.425, A:V.234, A:V.234 EDO.9: 3 residues within 4Å: Chain B: R.220, H.378, I.379 2 PLIP interactions: 2 interactions with chain B Water bridges: B:E.421, B:E.421 EDO.10: 5 residues within 4Å: Chain B: E.372, K.392, T.404, C.405, M.408 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:T.404 EDO.11: 7 residues within 4Å: Chain B: T.82, I.85, W.89, D.92, D.248, R.433, F.436 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:D.92, B:D.248, B:R.433, B:R.433 EDO.12: 6 residues within 4Å: Chain B: F.185, N.186, E.187, I.190, N.278, K.280 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:N.186, B:N.278, B:N.278 Water bridges: B:K.280 EDO.13: 5 residues within 4Å: Chain B: W.89, E.157, K.159, R.216, D.248 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:R.216, B:R.216, B:D.248

1 x PGE: TRIETHYLENE GLYCOL(Non-functional Binders)

PGE.14: 3 residues within 4Å: Chain B: M.383, K.430, T.432 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:K.430 Water bridges: B:F.431, B:F.431

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Joint Center for Structural Genomics (JCSG), Crystal structure of a putative glycosyl hydrolase (BACOVA_03347) from Bacteroides ovatus at 1.60 A resolution. To be published

Release Date

2010-10-27

Peptides

Putative glycosyl hydrolase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Putative glycosyl hydrolase