SMTL ID : 2ggu.1

crystal structure of the trimeric neck and carbohydrate recognition domain of human surfactant protein D in complex with maltotriose

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.90 Å

Oligo State

homo-trimer

Ligands

3 x GLC- GLC- GLC: alpha-D-glucopyranose-(1-4)-alpha-D-glucopyranose-(1-4)-alpha-D-glucopyranose(Non-covalent)

GLC-GLC-GLC.1: 10 residues within 4Å: Chain A: E.126, N.128, E.134, F.140, T.141, N.142, N.146, D.147, R.148 Ligands: CA.4 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:E.126, A:N.128, A:E.134, A:N.146 Water bridges: A:R.148, A:R.148 GLC-GLC-GLC.2: 10 residues within 4Å: Chain B: E.126, N.128, E.134, F.140, T.141, N.142, N.146, D.147, R.148 Ligands: CA.7 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:E.126, B:N.128, B:E.134, B:N.146 GLC-GLC-GLC.3: 10 residues within 4Å: Chain C: E.126, N.128, E.134, F.140, T.141, N.142, N.146, D.147, R.148 Ligands: CA.10 6 PLIP interactions: 6 interactions with chain C Hydrogen bonds: C:E.126, C:N.128, C:E.134, C:N.146 Water bridges: C:E.126, C:E.126

9 x CA: CALCIUM ION(Non-covalent)

CA.4: 6 residues within 4Å: Chain A: E.126, N.128, E.134, N.146, D.147 Ligands: GLC-GLC-GLC.1 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:E.126, A:E.134, A:D.147, A:D.147 CA.5: 6 residues within 4Å: Chain A: D.102, E.106, D.129, E.134, D.135 Ligands: CA.6 5 PLIP interactions: 5 interactions with chain A Metal complexes: A:D.102, A:D.102, A:E.106, A:D.129, A:D.135 CA.6: 3 residues within 4Å: Chain A: E.106, D.135 Ligands: CA.5 5 PLIP interactions: 2 interactions with chain A, 3 Ligand-Water interactions Metal complexes: A:D.135, A:D.135, H2O.4, H2O.4, H2O.4 CA.7: 6 residues within 4Å: Chain B: E.126, N.128, E.134, N.146, D.147 Ligands: GLC-GLC-GLC.2 4 PLIP interactions: 4 interactions with chain B Metal complexes: B:E.126, B:E.134, B:D.147, B:D.147 CA.8: 5 residues within 4Å: Chain B: D.102, E.106, D.129, E.134, D.135 5 PLIP interactions: 4 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:D.102, B:E.106, B:D.129, B:D.135, H2O.8 CA.9: 2 residues within 4Å: Chain B: E.106, D.135 5 PLIP interactions: 1 interactions with chain B, 4 Ligand-Water interactions Metal complexes: B:D.135, H2O.8, H2O.8, H2O.8, H2O.8 CA.10: 6 residues within 4Å: Chain C: E.126, N.128, E.134, N.146, D.147 Ligands: GLC-GLC-GLC.3 4 PLIP interactions: 4 interactions with chain C Metal complexes: C:E.126, C:E.134, C:D.147, C:D.147 CA.11: 6 residues within 4Å: Chain C: D.102, E.106, D.129, E.134, D.135 Ligands: CA.12 5 PLIP interactions: 4 interactions with chain C, 1 Ligand-Water interactions Metal complexes: C:D.102, C:E.106, C:D.129, C:D.135, H2O.11 CA.12: 3 residues within 4Å: Chain C: E.106, D.135 Ligands: CA.11 5 PLIP interactions: 2 interactions with chain C, 3 Ligand-Water interactions Metal complexes: C:E.106, C:D.135, H2O.11, H2O.11, H2O.11

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Crouch, E. et al., Contributions of Phenylalanine 335 to Ligand Recognition by Human Surfactant Protein D: ring interactions with Sp-D ligands. J.Biol.Chem. (2006)

Release Date

2006-05-02

Peptides

Pulmonary surfactant-associated protein D: ABC

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

Pulmonary surfactant-associated protein D

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