SMTL ID : 2ah2.1

Trypanosoma cruzi trans-sialidase in complex with 2,3-difluorosialic acid (covalent intermediate)

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.60 Å

Oligo State

monomer

Ligands

1 x CL: CHLORIDE ION(Non-functional Binders)

CL.1: 5 residues within 4Å: Chain A: M.184, H.185, N.212, K.213, K.214 Ligand excluded by PLIP

1 x FSI: 5-acetamido-3,5-dideoxy-3-fluoro-D-erythro-alpha-L-manno-non-2-ulopyranosonic acid(Post Translational Modification)

FSI.2: 17 residues within 4Å: Chain A: R.49, L.50, R.67, D.73, D.110, Y.133, W.134, L.190, Q.209, S.243, E.244, R.259, W.326, R.328, Y.356 Ligands: GOL.3, GOL.4 14 PLIP interactions: 14 interactions with chain A Hydrophobic interactions: A:L.190 Hydrogen bonds: A:R.67, A:D.110, A:Q.209, A:E.244, A:R.259 Water bridges: A:D.110, A:Y.133, A:Y.133, A:E.244 Salt bridges: A:R.49, A:R.259, A:R.328 Halogen bonds: A:D.73

3 x GOL: GLYCEROL(Non-functional Binders)

GOL.3: 6 residues within 4Å: Chain A: Y.133, R.259, D.261, W.326 Ligands: FSI.2, GOL.4 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:R.259, A:W.326 Water bridges: A:T.135, A:T.135, A:D.261 GOL.4: 7 residues within 4Å: Chain A: D.73, W.326, R.328, E.376, Y.378 Ligands: FSI.2, GOL.3 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:D.73, A:E.376 Water bridges: A:R.328 GOL.5: 4 residues within 4Å: Chain A: R.21, E.23, R.27, I.372 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:R.21, A:E.23, A:R.27 Water bridges: A:E.352

1 x IPA: ISOPROPYL ALCOHOL(Non-functional Binders)

IPA.6: 1 residues within 4Å: Chain A: G.607 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Amaya, M.F. et al., Structural Insights into the Catalytic Mechanism of Trypanosoma cruzi trans-Sialidase. Structure (2004)

Release Date

2005-08-23

Peptides

trans-sialidase: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

trans-sialidase

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