SMTL ID : 6f39.1

C1r homodimer CUB1-EGF-CUB2

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 5.80 Å

Oligo State

homo-dimer

Ligands

2 x NAG- NAG- BMA- MAN- GAL- MAN: beta-D-galactopyranose-(1-4)-alpha-D-mannopyranose-(1-3)-[alpha-D-mannopyranose-(1-6)]beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose

NAG-NAG-BMA-MAN-GAL-MAN.1: 5 residues within 4Å: Chain A: N.200, S.202, R.204, D.263, L.265 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:R.204 NAG-NAG-BMA-MAN-GAL-MAN.2: 5 residues within 4Å: Chain B: N.200, S.202, R.204, D.263, L.265 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:R.204

6 x CA: CALCIUM ION(Non-covalent)

CA.3: 6 residues within 4Å: Chain A: Y.17, D.53, T.97, D.98, S.100, N.101 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:D.53, A:D.53, A:S.100 CA.4: 5 residues within 4Å: Chain A: D.121, L.122, D.123, Y.147, G.150 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:D.123, A:D.123, A:Y.147, A:G.150 CA.5: 7 residues within 4Å: Chain A: Y.193, D.222, D.269, S.271, G.272, D.273, S.274 1 PLIP interactions: 1 interactions with chain A Metal complexes: A:D.222 CA.8: 6 residues within 4Å: Chain B: Y.17, N.19, D.53, T.97, D.98, N.101 No protein-ligand interaction detected (PLIP) CA.9: 6 residues within 4Å: Chain B: L.122, D.123, E.124, Y.147, G.150, Y.151 3 PLIP interactions: 3 interactions with chain B Metal complexes: B:L.122, B:D.123, B:G.150 CA.10: 6 residues within 4Å: Chain B: Y.193, D.222, Y.231, D.232, D.269, S.271 3 PLIP interactions: 3 interactions with chain B Metal complexes: B:Y.193, B:D.222, B:D.269

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

NA.6: 7 residues within 4Å: Chain A: S.186, L.187, E.188, R.191, Y.193, R.275, G.276 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:S.186, A:L.187 NA.11: 6 residues within 4Å: Chain B: S.186, L.187, R.191, Y.193, R.275, G.276 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:S.186, B:S.186

1 x NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)

NAG.7: 3 residues within 4Å: Chain A: N.104, G.105, T.106 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:G.105

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Almitairi, J.O.M. et al., Structure of the C1r-C1s interaction of the C1 complex of complement activation. Proc. Natl. Acad. Sci. U.S.A. (2018)

Release Date

2018-01-24

Peptides

Complement C1r subcomponent: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Complement C1r subcomponent