SMTL ID : 4ojz.1

Crystal Structure of Alg17c Mutant Y258A Complexed with Alginate Trisaccharide

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.90 Å

Oligo State

homo-dimer

Ligands

2 x LGU- MAV- BEM: beta-D-mannopyranuronic acid-(1-4)-alpha-D-mannopyranuronic acid-(1-4)-alpha-L-gulopyranuronic acid(Non-covalent)

LGU-MAV-BEM.1: 17 residues within 4Å: Chain A: K.136, Q.146, L.148, N.149, K.198, H.200, N.201, H.202, Y.257, R.260, Y.261, H.413, R.438, L.440, H.449, Y.450 Chain B: E.667 7 PLIP interactions: 7 interactions with chain A Hydrophobic interactions: A:Y.261 Hydrogen bonds: A:Q.146, A:N.149, A:Y.257, A:R.260, A:R.260, A:R.438, A:R.438, A:K.136, A:K.198, A:H.200, A:Q.146, A:R.438, A:R.438, A:Y.450, A:Y.450 Water bridges: A:Y.257, A:N.441, A:N.441, A:N.441 Salt bridges: A:K.136, A:K.136, A:K.198, A:H.449, A:H.202, A:H.413 LGU-MAV-BEM.2: 18 residues within 4Å: Chain A: E.667 Chain B: K.136, Q.138, Q.146, L.148, N.149, K.198, H.200, N.201, H.202, Y.257, R.260, Y.261, H.413, R.438, L.440, H.449, Y.450 8 PLIP interactions: 8 interactions with chain B Hydrophobic interactions: B:Y.261 Hydrogen bonds: B:Q.146, B:N.149, B:Y.257, B:Y.257, B:R.260, B:R.260, B:R.438, B:R.438, B:K.136, B:H.200, B:Q.146, B:N.201, B:D.311, B:R.438, B:R.438, B:Y.450 Water bridges: B:N.441, B:N.441 Salt bridges: B:K.136, B:K.136, B:H.449, B:H.202, B:H.413

2 x ZN: ZINC ION(Non-covalent)

ZN.3: 3 residues within 4Å: Chain A: H.415, D.433, H.464 6 PLIP interactions: 3 interactions with chain A, 3 Ligand-Water interactions Metal complexes: A:H.415, A:D.433, A:H.464, H2O.1, H2O.23, H2O.27 ZN.5: 3 residues within 4Å: Chain B: H.415, D.433, H.464 6 PLIP interactions: 3 interactions with chain B, 3 Ligand-Water interactions Metal complexes: B:H.415, B:D.433, B:H.464, H2O.31, H2O.47, H2O.54

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

EDO.4: 8 residues within 4Å: Chain A: S.301, Y.302, A.303, G.304, I.318, E.345, Y.372, H.397 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:S.301, A:A.303, A:G.304, A:Y.372 Water bridges: A:A.303 EDO.6: 9 residues within 4Å: Chain B: S.301, Y.302, A.303, G.304, I.318, I.342, E.345, Y.372, H.397 7 PLIP interactions: 7 interactions with chain B Hydrogen bonds: B:S.301, B:G.304, B:Y.372 Water bridges: B:S.301, B:A.303, B:A.303, B:E.345

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Park, D. et al., Structure of a PL17 Family Alginate Lyase Demonstrates Functional Similarities among Exotype Depolymerases. J.Biol.Chem. (2014)

Release Date

2014-01-29

Peptides

Putative alginate lyase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Putative alginate lyase

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