SMTL ID : 1bch.1

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

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.00 Å

Oligo State

homo-trimer

Ligands

1 x A2G: 2-acetamido-2-deoxy-alpha-D-galactopyranose(Non-covalent)

A2G.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.3 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:Q.113, A:N.138, A:N.138

9 x CA: CALCIUM ION(Non-covalent)

CA.2: 5 residues within 4Å: Chain A: D.89, E.93, D.116, E.126, D.127 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.1 CA.3: 6 residues within 4Å: Chain A: Q.113, D.115, E.126, N.138, D.139 Ligands: A2G.1 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:D.115, A:E.126, A:D.139, A:D.139 CA.4: 1 residues within 4Å: Chain A: E.12 2 PLIP interactions: 1 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:E.12, H2O.1 CA.7: 6 residues within 4Å: Chain B: D.89, E.93, D.116, E.126, D.127 Ligands: CA.9 5 PLIP interactions: 4 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:D.89, B:E.93, B:D.116, B:D.127, H2O.7 CA.8: 6 residues within 4Å: Chain B: Q.113, D.115, E.126, N.138, D.139 Ligands: NGA.6 4 PLIP interactions: 4 interactions with chain B Metal complexes: B:D.115, B:E.126, B:D.139, B:D.139 CA.9: 3 residues within 4Å: Chain B: E.93, D.127 Ligands: CA.7 5 PLIP interactions: 1 interactions with chain B, 4 Ligand-Water interactions Metal complexes: B:E.93, H2O.8, H2O.9, H2O.9, H2O.9 CA.13: 5 residues within 4Å: Chain C: D.89, E.93, D.116, E.126, D.127 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.9 CA.14: 6 residues within 4Å: Chain C: Q.113, D.115, E.126, N.138, D.139 Ligands: NGA.12 4 PLIP interactions: 4 interactions with chain C Metal complexes: C:D.115, C:E.126, C:D.139, C:D.139 CA.15: 1 residues within 4Å: Chain C: E.12 4 PLIP interactions: 1 interactions with chain C, 3 Ligand-Water interactions Metal complexes: C:E.12, H2O.1, H2O.9, H2O.10

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

CL.5: 5 residues within 4Å: Chain A: G.125, E.126, D.127, S.141, C.142 Ligand excluded by PLIP CL.10: 4 residues within 4Å: Chain B: G.125, D.127, S.141, C.142 Ligand excluded by PLIP CL.16: 5 residues within 4Å: Chain C: G.125, E.126, D.127, S.141, C.142 Ligand excluded by PLIP

2 x NGA: 2-acetamido-2-deoxy-beta-D-galactopyranose(Non-covalent)

NGA.6: 9 residues within 4Å: Chain B: Q.113, D.115, W.117, E.126, H.130, N.138, D.139, I.140 Ligands: CA.8 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:Q.113, B:N.138, B:N.138 NGA.12: 9 residues within 4Å: Chain C: Q.113, D.115, W.117, E.126, H.130, N.138, D.139, I.140 Ligands: CA.14 3 PLIP interactions: 3 interactions with chain C Hydrogen bonds: C:K.110, C:E.126, C:N.138

1 x NA: SODIUM ION(Non-functional Binders)

NA.11: 3 residues within 4Å: Chain A: H.27 Chain B: H.27 Chain C: H.27 3 PLIP interactions: 1 interactions with chain C, 1 interactions with chain A, 1 interactions with chain B Hydrogen bonds: C:H.27, A:H.27, B:H.27

Links

RCSB   PDBe   PDBe-KB   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)

Release Date

1998-06-17

Peptides

MANNOSE-BINDING PROTEIN-A: ABC

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
1

B
2

C
3

MANNOSE-BINDING PROTEIN-A