SMTL ID : 3ulu.1

Structure of quaternary complex of human TLR3ecd with three Fabs (Form1)

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 3.52 Å

Oligo State

hetero-1-1-1-1-1-1-1-mer

Ligands

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

NAG-NAG.1: 4 residues within 4Å: Chain A: P.83, M.84, K.86, N.108 No protein-ligand interaction detected (PLIP) NAG-NAG.2: 2 residues within 4Å: Chain A: N.249, W.280 No protein-ligand interaction detected (PLIP) NAG-NAG.3: 4 residues within 4Å: Chain A: N.275, F.298, S.299, H.300 No protein-ligand interaction detected (PLIP) NAG-NAG.4: 4 residues within 4Å: Chain A: N.382, E.383 Chain F: S.67, G.68 1 PLIP interactions: 1 interactions with chain F Hydrogen bonds: F:G.68

1 x NAG- NAG- BMA- MAN: 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(Post Translational Modification)

NAG-NAG-BMA-MAN.5: 8 residues within 4Å: Chain A: E.347, Y.367, S.371, N.397, T.399, K.400, D.421 Chain B: S.67 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:S.67

1 x NAG- NAG- BMA: 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.6: 4 residues within 4Å: Chain A: P.464, S.465, N.491, K.515 No protein-ligand interaction detected (PLIP)

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

NAG.7: 2 residues within 4Å: Chain A: E.17, N.36 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.36 NAG.9: 5 residues within 4Å: Chain A: T.27, Q.28, V.29, P.51, N.54 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:Q.28 Hydrogen bonds: A:V.29, A:N.54 NAG.10: 3 residues within 4Å: Chain A: A.230, N.231, W.257 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.231 NAG.11: 2 residues within 4Å: Chain A: N.236, M.262 No protein-ligand interaction detected (PLIP) NAG.12: 3 residues within 4Å: Chain A: T.232, W.257, N.259 No protein-ligand interaction detected (PLIP)

1 x SO4: SULFATE ION(Non-functional Binders)

SO4.8: 6 residues within 4Å: Chain A: K.147, T.150 Chain D: F.95 Chain E: Q.54, R.56, N.62 5 PLIP interactions: 4 interactions with chain E, 1 interactions with chain A Hydrogen bonds: E:Q.54, E:N.62, E:N.62 Salt bridges: E:R.56, A:K.147

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Luo, J. et al., Lateral Clustering of TLR3:dsRNA Signaling Units Revealed by TLR3ecd:3Fabs Quaternary Structure. J.Mol.Biol. (2012)

Release Date

2012-05-23

Peptides

Toll-like receptor 3: A
Fab15 light chain: B
Fab15 heavy chain: C
Fab12 light chain: D
Fab12 heavy chain: E
Fab1068 light chain: F
Fab1068 heavy chain: G

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
L

C
H

D
C

E
D

F
E

G
F

Toll-like receptor 3

Fab15 light chain

Fab15 heavy chain

Fab12 light chain

Fab12 heavy chain

Fab1068 light chain

Fab1068 heavy chain

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