SMTL ID : 6rus.2 (1 other biounit)

Structure of a functional properdin monomer

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.80 Å

Oligo State

monomer

Ligands

1 x FUC- BGC: beta-D-glucopyranose-(1-3)-alpha-L-fucopyranose(Post Translational Modification)

FUC-BGC.1: 5 residues within 4Å: Chain A: V.17, T.18, C.19, C.58, P.59 No protein-ligand interaction detected (PLIP)

1 x NAG- NAG- FUC: 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-[alpha-L-fucopyranose-(1-6)]2-acetamido-2-deoxy-beta-D-glucopyranose

NAG-NAG-FUC.2: 1 residues within 4Å: Chain A: N.174 No protein-ligand interaction detected (PLIP)

7 x MAN: alpha-D-mannopyranose(Post Translational Modification)

MAN.3: 3 residues within 4Å: Chain A: S.66, W.67, R.92 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:W.67, A:W.67, A:R.92, A:R.92 MAN.4: 5 residues within 4Å: Chain A: G.68, E.69, W.70, R.114, W.178 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:W.70, A:W.70, A:R.114, A:W.178 MAN.5: 4 residues within 4Å: Chain A: S.127, W.128, E.186, L.188 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:W.128, A:W.128, A:E.186 MAN.6: 4 residues within 4Å: Chain A: S.132, T.133, W.134, R.147 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:S.132, A:W.134, A:R.147, A:R.147 MAN.7: 4 residues within 4Å: Chain A: E.130, W.131, R.149, R.151 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:E.130, A:W.131, A:R.149, A:R.149, A:R.151, A:R.151 MAN.8: 3 residues within 4Å: Chain A: W.6, R.28, A.43 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:W.6, A:W.6 MAN.9: 3 residues within 4Å: Chain A: P.8, W.9, R.48 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:W.9, A:W.9, A:R.48, A:R.48

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Pedersen, D.V. et al., Structural Basis for Properdin Oligomerization and Convertase Stimulation in the Human Complement System. Front Immunol (2019)

Release Date

2019-08-21

Peptides

Properdin: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

Properdin

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