SMTL ID : 3wfl.1

Crtstal structure of glycoside hydrolase family 5 beta-mannanase from Talaromyces trachyspermus

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.60 Å

Oligo State

monomer

Ligands

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

NAG.1: 5 residues within 4Å: Chain A: T.176, Y.220, N.225, T.227, L.228 7 PLIP interactions: 7 interactions with chain A Hydrophobic interactions: A:Y.220 Hydrogen bonds: A:Y.220, A:N.225, A:T.227, A:L.228 Water bridges: A:T.176, A:T.227

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

TRS.2: 9 residues within 4Å: Chain A: W.55, N.167, E.168, Y.243, E.276, W.306, Y.322 Ligands: GOL.4, PO4.10 7 PLIP interactions: 7 interactions with chain A Hydrogen bonds: A:N.167, A:N.167, A:E.168, A:Y.243 Water bridges: A:D.115, A:Y.322, A:Y.322

7 x GOL: GLYCEROL(Non-functional Binders)

GOL.3: 3 residues within 4Å: Chain A: T.83, E.89, R.153 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:T.83, A:E.89, A:E.89, A:R.153, A:R.153 GOL.4: 9 residues within 4Å: Chain A: Y.26, W.55, N.111, D.115, Y.116, W.306, D.320 Ligands: TRS.2, PO4.10 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:W.55, A:N.111, A:D.320 GOL.5: 3 residues within 4Å: Chain A: G.48, R.50 Ligands: GOL.8 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:R.50 Water bridges: A:G.48, A:N.102 GOL.6: 2 residues within 4Å: Chain A: D.92, R.153 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:R.153, A:R.153 GOL.7: 3 residues within 4Å: Chain A: S.245, S.246, G.248 1 PLIP interactions: 1 interactions with chain A Water bridges: A:G.248 GOL.8: 1 residues within 4Å: Ligands: GOL.5 No protein-ligand interaction detected (PLIP) GOL.9: 5 residues within 4Å: Chain A: S.245, N.251, V.279, T.280, S.281 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:S.245, A:N.251, A:T.280, A:T.280 Water bridges: A:S.245, A:S.245

2 x PO4: PHOSPHATE ION(Non-functional Binders)

PO4.10: 4 residues within 4Å: Chain A: D.320, Y.322 Ligands: TRS.2, GOL.4 4 PLIP interactions: 4 interactions with chain A Water bridges: A:D.115, A:D.320, A:Y.322, A:Y.322 PO4.11: 5 residues within 4Å: Chain A: T.280, S.281, D.282, K.283, D.330 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:T.280, A:D.282, A:K.283 Water bridges: A:C.284

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Ichinose, H. et al., Purification, cloning, functional expression, structure, and characterization of a thermostable beta-mannanase from Talaromyces trachyspermus and its efficiency in production of mannooligosaccharides from coffee wastes. To be Published

Release Date

2014-07-23

Peptides

beta-mannanase: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

beta-mannanase