SMTL ID : 3ank.2 (1 other biounit)

Crystal structure of unsaturated glucuronyl hydrolase mutant D175N from Streptcoccus agalactiae complexed with dGlcA-GalNAc6S

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.02 Å

Oligo State

homo-dimer

Ligands

2 x NG6- GCD: 4-deoxy-alpha-L-threo-hex-4-enopyranuronic acid-(1-3)-2-acetamido-2-deoxy-6-O-sulfo-beta-D-galactopyranose(Non-covalent)

NG6-GCD.1: 14 residues within 4Å: Chain A: W.69, H.114, D.115, F.118, N.175, G.233, T.235, W.245, R.247, W.251, Y.364, S.365, S.368, K.370 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:W.69 Hydrogen bonds: A:H.114, A:W.251, A:T.235, A:S.365, A:S.368 Salt bridges: A:R.247, A:K.370 Water bridges: A:D.115 NG6-GCD.7: 14 residues within 4Å: Chain B: W.69, H.114, D.115, F.118, N.175, G.233, T.235, W.245, R.247, W.251, Y.364, S.365, S.368, K.370 4 PLIP interactions: 4 interactions with chain B Hydrophobic interactions: B:W.69 Hydrogen bonds: B:H.114, B:W.251, B:S.365, B:S.368 Salt bridges: B:R.247, B:K.370 Water bridges: B:Y.364

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

EDO.2: 3 residues within 4Å: Chain A: L.19, E.330, Y.334 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:Y.334 EDO.3: 4 residues within 4Å: Chain A: R.196, V.200, Y.204, M.263 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:R.196, A:R.196, A:Y.204, A:Y.204 EDO.4: 6 residues within 4Å: Chain A: I.4, K.5, P.6, V.7, Q.267, I.270 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:K.5, A:V.7 EDO.5: 2 residues within 4Å: Chain A: K.392, D.393 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:D.393, A:D.393 EDO.6: 4 residues within 4Å: Chain A: L.319, K.320, E.324, K.329 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:E.324, A:K.329 Water bridges: A:L.322 EDO.8: 3 residues within 4Å: Chain B: L.19, E.330, Y.334 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:Y.334 EDO.9: 4 residues within 4Å: Chain B: R.196, V.200, Y.204, M.263 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:R.196, B:R.196, B:Y.204 EDO.10: 6 residues within 4Å: Chain B: I.4, K.5, P.6, V.7, Q.267, I.270 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:K.5, B:V.7 EDO.11: 2 residues within 4Å: Chain B: K.392, D.393 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:D.393, B:D.393 EDO.12: 4 residues within 4Å: Chain B: L.319, K.320, E.324, K.329 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:K.329 Water bridges: B:L.322

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Nakamichi, Y. et al., Structural determinants in streptococcal unsaturated glucuronyl hydrolase for recognition of glycosaminoglycan sulfate groups. J.Biol.Chem. (2011)

Release Date

2010-10-06

Peptides

Putative uncharacterized protein gbs1889: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

Putative uncharacterized protein gbs1889

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