SMTL ID : 6oyc.4 (3 other biounits)

Glycosylation Associate Protein (Gap123) complex from Streptococcus agalactiae

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.35 Å

Oligo State

hetero-1-1-1-mer

Ligands

13 x GOL: GLYCEROL(Non-functional Binders)

GOL.1: 8 residues within 4Å: Chain A: D.103, K.114, S.116, G.117 Chain B: V.203, S.205, E.218, K.243 5 PLIP interactions: 3 interactions with chain A, 2 interactions with chain B Hydrogen bonds: A:G.117, B:S.205, B:K.243 Water bridges: A:D.103, A:K.114 GOL.2: 3 residues within 4Å: Chain A: S.48, R.49, S.71 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:S.48, A:R.49 GOL.3: 3 residues within 4Å: Chain A: E.11, P.26, R.358 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:R.358, A:R.358 Water bridges: A:F.24 GOL.4: 2 residues within 4Å: Chain A: R.326, I.433 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:R.326, A:R.326 GOL.5: 4 residues within 4Å: Chain A: V.297, V.298, H.299, R.509 No protein-ligand interaction detected (PLIP) GOL.6: 9 residues within 4Å: Chain A: S.7, W.8, Y.9, N.18, N.28, V.29, G.30, D.32, Y.62 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:Y.9, A:N.18, A:G.30, A:G.30, A:D.32 GOL.9: 4 residues within 4Å: Chain B: K.3, T.7, E.27, R.58 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:K.3, B:E.27 Water bridges: B:I.4, B:T.7 GOL.10: 3 residues within 4Å: Chain B: R.305, S.306, A.307 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:S.306, B:A.307 GOL.11: 7 residues within 4Å: Chain B: Q.108, R.109, Y.110, L.118, Q.121, G.265, L.266 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:Q.108, B:Q.121 GOL.12: 4 residues within 4Å: Chain B: Y.131, P.179, R.259, N.261 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:R.259, B:R.259, B:N.261 GOL.14: 8 residues within 4Å: Chain A: N.97, Y.136, K.144, Y.146 Chain C: S.299, S.300, N.302, L.303 6 PLIP interactions: 4 interactions with chain A, 2 interactions with chain C Hydrogen bonds: A:N.97, A:K.144, A:K.144, A:Y.146, C:N.302, C:L.303 GOL.15: 5 residues within 4Å: Chain C: Q.49, Y.91, N.95, T.118, T.120 1 PLIP interactions: 1 interactions with chain C Hydrogen bonds: C:N.95 GOL.16: 5 residues within 4Å: Chain C: I.204, P.206, E.209, Y.239, L.268 2 PLIP interactions: 2 interactions with chain C Hydrogen bonds: C:E.209, C:Y.239

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

SO4.7: 7 residues within 4Å: Chain A: F.234, N.235, Q.236, R.259, N.260, N.261, N.264 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:Q.236, A:Q.236, A:N.260, A:N.261, A:N.264 SO4.8: 3 residues within 4Å: Chain A: P.26, T.27, R.358 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:T.27 Salt bridges: A:R.358 SO4.13: 3 residues within 4Å: Chain B: K.217, W.219, E.233 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:W.219 Salt bridges: B:K.217

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

zhang, H. et al., Glycosylation Associate Protein (Gap123) complex from Streptococcus agalactiae. To Be Published

Release Date

2020-05-20

Peptides

Glycosylation Associate Protein 1: A
Glycosylation Associate Protein 2: B
Glycosylation Associate Protein 3: C

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

Glycosylation Associate Protein 1

Glycosylation Associate Protein 2

Glycosylation Associate Protein 3

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