SMTL ID : 2brp.1

Crystal structure of S. pneumoniae hyaluronate lyase in complex with W249b

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.00 Å

Oligo State

monomer

Ligands

1 x SIE: SULFAMIC ACID 1-DECYL-2-(4-SULFAMOYLOXYPHENYL)-1H-INDOL-6-YL ESTER(Non-covalent)

SIE.1: 12 residues within 4Å: Chain A: G.122, N.123, W.124, W.125, R.169, E.221, D.231, H.232, Y.241, R.295, R.299, N.413 9 PLIP interactions: 9 interactions with chain A Hydrophobic interactions: A:N.123, A:W.124, A:W.125 Water bridges: A:S.296 Salt bridges: A:R.295, A:R.299 pi-Stacking: A:W.124, A:W.125 pi-Cation interactions: A:R.295

3 x XLS: D-xylose(Non-covalent)

XLS.2: 3 residues within 4Å: Chain A: T.233, N.234, V.468 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:T.233, A:N.234 XLS.3: 7 residues within 4Å: Chain A: Y.224, T.233, N.234, K.382, R.405, T.406, Q.711 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:T.233, A:K.382, A:Q.711 Water bridges: A:G.220 XLS.4: 3 residues within 4Å: Chain A: E.700, Y.701, D.716 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:Y.701, A:Y.701, A:D.716

5 x SO4: SULFATE ION(Non-functional Binders)

SO4.5: 5 residues within 4Å: Chain A: H.411, K.414, K.417, D.462, S.463 6 PLIP interactions: 6 interactions with chain A Water bridges: A:H.411, A:H.411, A:K.414, A:K.417 Salt bridges: A:H.411, A:K.417 SO4.6: 3 residues within 4Å: Chain A: A.461, D.462, S.463 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:D.462, A:S.463 Water bridges: A:R.418, A:S.463 SO4.7: 4 residues within 4Å: Chain A: Q.562, F.580, K.581, K.582 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:Q.562, A:Q.562, A:K.582 Salt bridges: A:K.582 SO4.8: 1 residues within 4Å: Chain A: K.644 1 PLIP interactions: 1 interactions with chain A Salt bridges: A:K.644 SO4.9: 3 residues within 4Å: Chain A: K.277, L.377, K.478 8 PLIP interactions: 8 interactions with chain A Water bridges: A:K.277, A:K.277, A:K.277, A:L.377, A:L.377, A:K.478 Salt bridges: A:K.277, A:K.478

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Rigden, D.J. et al., Design of new benzoxazole-2-thione-derived inhibitors of Streptococcus pneumoniae hyaluronan lyase: structure of a complex with a 2-phenylindole. Glycobiology (2006)

Release Date

2006-04-24

Peptides

HYALURONATE LYASE: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

HYALURONATE LYASE

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