SMTL ID : 3b2d.1

Crystal structure of human RP105/MD-1 complex

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.80 Å

Oligo State

hetero-2-2-mer

Ligands

1 x NAG- NAG- BMA- MAN- MAN- MAN- MAN- MAN- MAN: alpha-D-mannopyranose-(1-2)-alpha-D-mannopyranose-(1-3)-[alpha-D-mannopyranose-(1-2)-alpha-D-mannopyranose-(1-6)]alpha-D-mannopyranose-(1-6)-[alpha-D-mannopyranose-(1-3)]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-MAN-MAN-MAN-MAN-MAN.1: 20 residues within 4Å: Chain A: R.330, G.331, S.355, H.356, N.379, S.381, H.382, L.401, D.403 Chain C: F.62, D.64, S.78, Y.79, P.80, E.83, Y.125, E.127, R.129 Ligands: NAG-NAG.2, NAG-NAG.2 1 PLIP interactions: 1 interactions with chain C Hydrogen bonds: C:E.127

2 x NAG- NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)

NAG-NAG.2: 8 residues within 4Å: Chain A: L.401, D.403, A.405, V.426, N.428, H.450 Ligands: NAG-NAG-BMA-MAN-MAN-MAN-MAN-MAN-MAN.1, NAG-NAG-BMA-MAN-MAN-MAN-MAN-MAN-MAN.1 No protein-ligand interaction detected (PLIP) NAG-NAG.4: 10 residues within 4Å: Chain B: S.381, H.382, L.401, D.403, A.405, V.426, N.428, H.450 Ligands: NAG-NAG-BMA-MAN-MAN-MAN-MAN-MAN.3, NAG-NAG-BMA-MAN-MAN-MAN-MAN-MAN.3 No protein-ligand interaction detected (PLIP)

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

NAG-NAG-BMA-MAN-MAN-MAN-MAN-MAN.3: 20 residues within 4Å: Chain B: R.330, G.331, S.355, H.356, N.379, S.381, H.382, L.401, D.403 Chain D: F.62, D.64, S.78, Y.79, P.80, E.83, Y.125, E.127, R.129 Ligands: NAG-NAG.4, NAG-NAG.4 1 PLIP interactions: 1 interactions with chain D Hydrogen bonds: D:E.127 Water bridges: D:E.127, D:E.83

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

NAG.5: 3 residues within 4Å: Chain B: E.344, G.347, N.371 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:N.371

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Ohto, U. et al., Crystal Structures of Mouse and Human RP105/MD-1 Complexes Reveal Unique Dimer Organization of the Toll-Like Receptor Family. J.Mol.Biol. (2011)

Release Date

2011-11-09

Peptides

CD180 antigen: AB
Lymphocyte antigen 86: CD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

CD180 antigen

Lymphocyte antigen 86