SMTL ID : 3wc3.1

Crystal structure of endo-1,4-beta-glucanase from Eisenia fetida

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.50 Å

Oligo State

monomer

Ligands

1 x CA: CALCIUM ION(Non-covalent)

CA.1: 4 residues within 4Å: Chain A: A.213, D.216, E.217, N.254 5 PLIP interactions: 3 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:A.213, A:D.216, A:E.217, H2O.1, H2O.4

1 x NA: SODIUM ION(Non-functional Binders)

NA.2: 3 residues within 4Å: Chain A: D.26, L.27, D.38 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:D.38

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

TRS.3: 6 residues within 4Å: Chain A: H.127, F.208, Y.209, E.414 Ligands: GOL.5, GOL.9 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:E.414, A:E.414

1 x FLC: CITRATE ANION(Non-covalent)

FLC.4: 6 residues within 4Å: Chain A: Y.86, E.87, G.90, Q.91, Y.92, N.93 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:Y.92, A:N.93, A:N.93 Water bridges: A:E.87, A:E.87, A:L.94

5 x GOL: GLYCEROL(Non-functional Binders)

GOL.5: 5 residues within 4Å: Chain A: H.127, H.361, Y.410, E.414 Ligands: TRS.3 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:H.127, A:E.414 GOL.6: 5 residues within 4Å: Chain A: T.265, T.271, L.274, Y.322, I.324 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:Y.322 Water bridges: A:T.265, A:N.323 GOL.7: 8 residues within 4Å: Chain A: W.299, Q.302, P.305, G.396, P.397, D.398, I.411, R.412 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:Q.302 Water bridges: A:D.398, A:D.398 GOL.8: 6 residues within 4Å: Chain A: W.249, D.252, W.253, N.254, Y.308 Ligands: GOL.9 2 PLIP interactions: 2 interactions with chain A Water bridges: A:N.254, A:N.254 GOL.9: 6 residues within 4Å: Chain A: W.253, W.303, R.307, Y.419 Ligands: TRS.3, GOL.8 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:W.253, A:R.307, A:R.307 Water bridges: A:W.303, A:Y.419

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Arimori, T. et al., Crystal structure of endo-1,4-beta-glucanase from Eisenia fetida. J.SYNCHROTRON RADIAT. (2013)

Release Date

2013-10-30

Peptides

Endo-1, 4-beta-glucanase: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Endo-1, 4-beta-glucanase