SMTL ID : 1bcj.1

MANNOSE-BINDING PROTEIN-A MUTANT (QPDWGHV) COMPLEXED WITH N-ACETYL-D-GALACTOSAMINE

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.10 Å

Oligo State

homo-trimer

Ligands

3 x NGA: SUGAR (N-ACETYL-D-GALACTOSAMINE)(Non-covalent)

NGA.1: 9 residues within 4Å: Chain A: Q.113, D.115, W.117, E.126, H.130, N.138, D.139, I.140 Ligands: CA.5 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:E.126, A:N.138 NGA.2: 9 residues within 4Å: Chain B: Q.113, D.115, W.117, E.126, H.130, N.138, D.139, I.140 Ligands: CA.9 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:Q.113, B:D.115, B:N.138 Water bridges: B:D.115 NGA.3: 9 residues within 4Å: Chain C: Q.113, D.115, W.117, E.126, H.130, N.138, D.139, I.140 Ligands: CA.12 2 PLIP interactions: 2 interactions with chain C Hydrogen bonds: C:E.126, C:N.138

9 x CA: CALCIUM ION(Non-covalent)

CA.4: 6 residues within 4Å: Chain A: D.89, E.93, D.116, E.126, D.127 Ligands: CA.6 5 PLIP interactions: 4 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:D.89, A:D.89, A:E.93, A:D.116, H2O.1822 CA.5: 6 residues within 4Å: Chain A: Q.113, D.115, E.126, N.138, D.139 Ligands: NGA.1 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:D.115, A:E.126, A:D.139, A:D.139 CA.6: 3 residues within 4Å: Chain A: E.93, D.127 Ligands: CA.4 5 PLIP interactions: 3 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:E.93, A:D.127, A:D.127, H2O.1824, H2O.1824 CA.8: 6 residues within 4Å: Chain B: D.89, E.93, D.116, E.126, D.127 Ligands: CA.10 5 PLIP interactions: 4 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:D.89, B:E.93, B:E.93, B:D.127, H2O.1826 CA.9: 6 residues within 4Å: Chain B: Q.113, D.115, E.126, N.138, D.139 Ligands: NGA.2 4 PLIP interactions: 4 interactions with chain B Metal complexes: B:D.115, B:E.126, B:D.139, B:D.139 CA.10: 3 residues within 4Å: Chain B: E.93, D.127 Ligands: CA.8 5 PLIP interactions: 2 interactions with chain B, 3 Ligand-Water interactions Metal complexes: B:E.93, B:D.127, H2O.1828, H2O.1828, H2O.1828 CA.11: 6 residues within 4Å: Chain C: D.89, E.93, D.116, E.126, D.127 Ligands: CA.13 5 PLIP interactions: 4 interactions with chain C, 1 Ligand-Water interactions Metal complexes: C:D.89, C:E.93, C:D.116, C:D.127, H2O.1829 CA.12: 6 residues within 4Å: Chain C: Q.113, D.115, E.126, N.138, D.139 Ligands: NGA.3 4 PLIP interactions: 4 interactions with chain C Metal complexes: C:D.115, C:E.126, C:D.139, C:D.139 CA.13: 3 residues within 4Å: Chain C: E.93, D.127 Ligands: CA.11 3 PLIP interactions: 3 interactions with chain C Metal complexes: C:E.93, C:D.127, C:D.127

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

CL.7: 4 residues within 4Å: Chain A: G.125, D.127, S.141, C.142 Ligand excluded by PLIP CL.14: 4 residues within 4Å: Chain C: G.125, D.127, S.141, C.142 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBj   PDBsum   CATH   PLIP

Citation

Kolatkar, A.R. et al., Mechanism of N-acetylgalactosamine binding to a C-type animal lectin carbohydrate-recognition domain. J.Biol.Chem. (1998)

Peptides

MANNOSE-BINDING PROTEIN-A: ABC

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
1

B
2

C
3

MANNOSE-BINDING PROTEIN-A