SMTL ID : 3eka.1

Crystal structure of the complex of hyaluranidase trimer with ascorbic acid at 3.1 A resolution reveals the locations of three binding sites

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 3.10 Å

Oligo State

homo-trimer

Ligands

9 x ASC: ASCORBIC ACID(Non-covalent)

ASC.1: 2 residues within 4Å: Chain B: K.173 Chain C: E.161 2 PLIP interactions: 1 interactions with chain C, 1 interactions with chain B Hydrogen bonds: C:E.161 Salt bridges: B:K.173 ASC.2: 5 residues within 4Å: Chain A: N.177 Chain B: Q.208, R.210 Chain C: N.196, T.198 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:Q.208, B:R.210 ASC.3: 8 residues within 4Å: Chain A: A.215, L.216, R.271 Chain B: Q.255, Y.258, N.260, T.262 Chain C: N.235 11 PLIP interactions: 3 interactions with chain C, 4 interactions with chain A, 4 interactions with chain B Hydrogen bonds: C:N.235, C:S.240, C:S.240, A:R.271, B:Q.255, B:Y.258, B:N.260 Water bridges: A:G.217, A:S.276, A:S.276 pi-Stacking: B:Y.258 ASC.4: 2 residues within 4Å: Chain A: E.161 Chain C: K.173 2 PLIP interactions: 1 interactions with chain C, 1 interactions with chain A Salt bridges: C:K.173 Hydrogen bonds: A:E.161 ASC.5: 5 residues within 4Å: Chain A: N.196, T.198 Chain B: N.177 Chain C: Q.208, R.210 2 PLIP interactions: 2 interactions with chain C Hydrogen bonds: C:Q.208, C:R.210 ASC.6: 8 residues within 4Å: Chain A: N.235 Chain B: A.215, L.216, R.271 Chain C: Q.255, Y.258, N.260, T.262 11 PLIP interactions: 4 interactions with chain C, 4 interactions with chain B, 3 interactions with chain A Hydrogen bonds: C:Q.255, C:Y.258, C:N.260, B:R.271, A:N.235, A:S.240, A:S.240 pi-Stacking: C:Y.258 Water bridges: B:G.217, B:S.276, B:S.276 ASC.7: 2 residues within 4Å: Chain A: K.173 Chain B: E.161 2 PLIP interactions: 1 interactions with chain B, 1 interactions with chain A Hydrogen bonds: B:E.161 Salt bridges: A:K.173 ASC.8: 5 residues within 4Å: Chain A: Q.208, R.210 Chain B: N.196, T.198 Chain C: N.177 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:Q.208, A:R.210 ASC.9: 8 residues within 4Å: Chain A: Q.255, Y.258, N.260, T.262 Chain B: N.235 Chain C: A.215, L.216, R.271 11 PLIP interactions: 3 interactions with chain B, 4 interactions with chain A, 4 interactions with chain C Hydrogen bonds: B:N.235, B:S.240, B:S.240, A:Q.255, A:Y.258, A:N.260, C:R.271 pi-Stacking: A:Y.258 Water bridges: C:G.217, C:S.276, C:S.276

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Mishra, P. et al., Polysaccharide binding sites in hyaluronate lyase--crystal structures of native phage-encoded hyaluronate lyase and its complexes with ascorbic acid and lactose. Febs J. (2009)

Release Date

2009-09-29

Peptides

Hyaluronidase, phage associated: ABC

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

C
A

Hyaluronidase, phage associated