SMTL ID : 2yvv.1

Crystal structure of hyluranidase complexed with lactose at 2.6 A resolution reveals three specific sugar recognition sites

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.60 Å

Oligo State

homo-trimer

Ligands

9 x GLC- GAL: beta-D-galactopyranose-(1-4)-alpha-D-glucopyranose(Non-covalent)

GLC-GAL.1: 5 residues within 4Å: Chain A: D.151 Chain B: R.163, G.165, K.166 Chain C: K.179 6 PLIP interactions: 2 interactions with chain C, 1 interactions with chain A, 3 interactions with chain B Hydrogen bonds: C:S.129, C:S.129, A:D.151, B:K.166, B:R.163, B:G.165, B:K.166, C:K.179 Salt bridges: C:K.179 GLC-GAL.2: 9 residues within 4Å: Chain A: N.183, N.186, A.188 Chain B: F.197, S.198, N.202, T.204 Chain C: F.175, Q.214 7 PLIP interactions: 1 interactions with chain A, 3 interactions with chain B, 3 interactions with chain C Hydrogen bonds: A:N.186, B:T.204, B:S.198, B:N.202, A:N.183, C:Q.214 Water bridges: A:T.182, A:T.182, B:S.198, C:Q.214, C:R.216 GLC-GAL.3: 12 residues within 4Å: Chain A: A.221, L.222, G.223, R.277, R.279 Chain B: K.240, N.241, A.242, A.243, S.246 Chain C: Q.261, Y.264 6 PLIP interactions: 1 interactions with chain B, 4 interactions with chain A, 1 interactions with chain C Hydrogen bonds: B:N.241, B:S.246, B:S.246, A:R.277, A:R.279, C:Q.261, B:K.240 Water bridges: A:G.223 Salt bridges: A:R.277, A:R.279 GLC-GAL.4: 5 residues within 4Å: Chain A: K.179 Chain B: D.151 Chain C: R.163, G.165, K.166 6 PLIP interactions: 2 interactions with chain A, 3 interactions with chain C, 1 interactions with chain B Hydrogen bonds: A:S.129, A:S.129, C:K.166, B:D.151, C:R.163, C:G.165, C:K.166, A:K.179 Salt bridges: A:K.179 GLC-GAL.5: 9 residues within 4Å: Chain A: F.175, Q.214 Chain B: N.183, N.186, A.188 Chain C: F.197, S.198, N.202, T.204 7 PLIP interactions: 1 interactions with chain B, 3 interactions with chain C, 3 interactions with chain A Hydrogen bonds: B:N.186, C:T.204, A:Q.214, C:S.198, C:N.202, B:N.183 Water bridges: B:T.182, B:T.182, A:Q.214, A:R.216, C:S.198 GLC-GAL.6: 12 residues within 4Å: Chain A: Q.261, Y.264 Chain B: A.221, L.222, G.223, R.277, R.279 Chain C: K.240, N.241, A.242, A.243, S.246 6 PLIP interactions: 1 interactions with chain C, 4 interactions with chain B, 1 interactions with chain A Hydrogen bonds: C:N.241, C:S.246, C:S.246, C:K.240, B:R.277, B:R.279, A:Q.261 Water bridges: B:G.223 Salt bridges: B:R.277, B:R.279 GLC-GAL.7: 5 residues within 4Å: Chain A: R.163, G.165, K.166 Chain B: K.179 Chain C: D.151 6 PLIP interactions: 3 interactions with chain A, 1 interactions with chain C, 2 interactions with chain B Hydrogen bonds: A:K.166, C:D.151, B:S.129, B:S.129, A:R.163, A:G.165, A:K.166, B:K.179 Salt bridges: B:K.179 GLC-GAL.8: 9 residues within 4Å: Chain A: F.197, S.198, N.202, T.204 Chain B: F.175, Q.214 Chain C: N.183, N.186, A.188 7 PLIP interactions: 1 interactions with chain C, 3 interactions with chain A, 3 interactions with chain B Hydrogen bonds: C:N.186, A:T.204, A:S.198, A:N.202, B:Q.214, C:N.183 Water bridges: C:T.182, C:T.182, A:S.198, B:Q.214, B:R.216 GLC-GAL.9: 12 residues within 4Å: Chain A: K.240, N.241, A.242, A.243, S.246 Chain B: Q.261, Y.264 Chain C: A.221, L.222, G.223, R.277, R.279 6 PLIP interactions: 4 interactions with chain C, 1 interactions with chain A, 1 interactions with chain B Water bridges: C:G.223 Hydrogen bonds: A:N.241, A:S.246, A:S.246, C:R.277, C:R.279, B:Q.261, A:K.240 Salt bridges: C:R.277, C:R.279

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Mishra, P. et al., Crystal structure of hyluranidase complexed with lactose at 2.6 A resolution reveals three specific sugar recognition sites. To be Published

Release Date

2007-05-01

Peptides

Hyaluronidase, phage associated: ABC

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

C
A

Hyaluronidase, phage associated

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