SMTL ID : 1urx.1

Crystallographic structure of beta-agarase A in complex with oligoagarose

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.70 Å

Oligo State

monomer

Ligands

1 x GLA- AAL- GAL- AAL: 3,6-anhydro-alpha-L-galactopyranose-(1-3)-beta-D-galactopyranose-(1-4)-3,6-anhydro-alpha-L-galactopyranose-(1-3)-alpha-D-galactopyranose

GLA-AAL-GAL-AAL.1: 17 residues within 4Å: Chain A: Y.53, N.55, G.56, W.57, A.120, W.122, L.124, E.128, S.131, D.133, E.136, H.156, F.158, R.160, F.163, E.238, Q.240 7 PLIP interactions: 7 interactions with chain A Hydrogen bonds: A:N.55, A:G.56, A:W.57, A:E.128, A:Y.53, A:Y.53, A:R.160, A:S.131, A:S.131, A:H.156 Water bridges: A:R.160, A:E.128, A:R.160, A:D.236, A:D.236, A:Q.240 Salt bridges: A:H.156

1 x AAL- GAL- AAL- GAL- AAL- GAL- AAL: 3,6-anhydro-alpha-L-galactopyranose-(1-3)-beta-D-galactopyranose-(1-4)-3,6-anhydro-alpha-L-galactopyranose-(1-3)-beta-D-galactopyranose-(1-4)-3,6-anhydro-alpha-L-galactopyranose-(1-3)-beta-D-galactopyranose-(1-4)-3,6-anhydro-alpha-L-galactopyranose

AAL-GAL-AAL-GAL-AAL-GAL-AAL.2: 14 residues within 4Å: Chain A: N.66, P.68, Q.69, W.71, N.73, Q.76, Q.80, Q.82, Y.90, K.111, Y.186, D.255, I.259, W.261 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:N.66, A:N.66, A:Q.69, A:Q.82 Water bridges: A:Q.82, A:P.83

1 x CA: CALCIUM ION(Non-covalent)

CA.3: 5 residues within 4Å: Chain A: D.6, S.31, N.33, S.75, D.263 5 PLIP interactions: 5 interactions with chain A Metal complexes: A:D.6, A:S.31, A:S.75, A:D.263, A:D.263

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Allouch, J. et al., Parallel Substrate Binding Sites in a Beta-Agarase Suggest a Novel Mode of Action on Double-Helical Agarose. Structure (2004)

Release Date

2004-03-04

Peptides

BETA-AGARASE A: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

BETA-AGARASE A