SMTL ID : 6r41.1

Structure of P110 from Mycoplasma genitalium complexed with 3'SL

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.21 Å

Oligo State

monomer

Ligands

1 x GAL- SIA: N-acetyl-alpha-neuraminic acid-(2-3)-beta-D-galactopyranose(Non-covalent)

GAL-SIA.1: 10 residues within 4Å: Chain A: P.175, S.176, P.177, N.178, A.179, S.434, F.435, S.436, Y.447 Ligands: BGC.3 6 PLIP interactions: 6 interactions with chain A Hydrophobic interactions: A:F.435 Hydrogen bonds: A:N.178, A:N.178, A:S.434, A:S.436, A:Y.447

1 x K: POTASSIUM ION(Non-covalent)

K.2: 5 residues within 4Å: Chain A: T.809, R.812, D.814, G.817, K.818 5 PLIP interactions: 3 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:T.809, A:R.812, A:D.814, H2O.5, H2O.6

1 x BGC: beta-D-glucopyranose(Non-functional Binders)

BGC.3: 1 residues within 4Å: Ligands: GAL-SIA.1 No protein-ligand interaction detected (PLIP)

1 x PO4: PHOSPHATE ION(Non-functional Binders)

PO4.4: 6 residues within 4Å: Chain A: P.24, I.25, T.26, D.27, S.28, K.29 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:D.27, A:S.28, A:K.29 Water bridges: A:T.16

1 x GOL: GLYCEROL(Non-functional Binders)

GOL.5: 5 residues within 4Å: Chain A: N.848, F.851, F.853, K.861, A.862 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:N.848, A:N.848, A:A.862 Water bridges: A:F.853, A:F.853

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Aparicio, D. et al., Mycoplasma genitalium adhesin P110 binds sialic-acid human receptors. Nat Commun (2018)

Release Date

2019-05-08

Peptides

Mgp-operon protein 3: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Mgp-operon protein 3

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