SMTL ID : 3ulv.1

Structure of quaternary complex of human TLR3ecd with three Fabs (Form2)

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: 2 residues within 4Å: Chain A: N.249, W.280 No protein-ligand interaction detected (PLIP) NAG-NAG.2: 3 residues within 4Å: Chain A: N.275, F.298, H.300 No protein-ligand interaction detected (PLIP) NAG-NAG.3: 3 residues within 4Å: Chain A: N.382, E.383 Ligands: SO4.17 No protein-ligand interaction detected (PLIP) NAG-NAG.5: 4 residues within 4Å: Chain A: P.464, S.465, N.491, K.515 No protein-ligand interaction detected (PLIP)

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.4: 6 residues within 4Å: Chain A: S.371, N.397, T.399, K.400, D.421, Y.446 No protein-ligand interaction detected (PLIP)

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

NAG.6: 2 residues within 4Å: Chain A: E.17, N.36 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.36 NAG.7: 5 residues within 4Å: Chain A: T.27, Q.28, R.49, P.51, N.54 No protein-ligand interaction detected (PLIP) NAG.8: 4 residues within 4Å: Chain A: P.83, M.84, T.107, N.108 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:T.107 NAG.9: 3 residues within 4Å: Chain A: A.230, N.231, W.257 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:N.231, A:W.257 NAG.10: 2 residues within 4Å: Chain A: N.236, M.262 No protein-ligand interaction detected (PLIP) NAG.11: 3 residues within 4Å: Chain A: T.232, W.257, N.259 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.259

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

SO4.12: 5 residues within 4Å: Chain A: R.472, N.499, Q.522, H.523 Chain B: Q.27 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:Q.522 Salt bridges: A:R.472, A:H.523 SO4.13: 3 residues within 4Å: Chain A: Y.310, H.343, N.345 1 PLIP interactions: 1 interactions with chain A Salt bridges: A:H.343 SO4.14: 4 residues within 4Å: Chain A: S.376, L.377, R.378, T.379 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:R.378, A:T.379, A:T.379 SO4.15: 6 residues within 4Å: Chain A: K.147, T.150, E.173 Chain E: R.56, Y.60, N.62 5 PLIP interactions: 3 interactions with chain A, 2 interactions with chain E Hydrogen bonds: A:E.173, A:E.173, E:N.62 Salt bridges: A:K.147, E:R.56 SO4.16: 4 residues within 4Å: Chain A: S.408 Chain F: N.28, H.30, N.31 5 PLIP interactions: 3 interactions with chain F, 2 interactions with chain A Hydrogen bonds: F:N.28, F:N.28, A:S.408, A:S.408 Salt bridges: F:H.30 SO4.17: 4 residues within 4Å: Chain F: S.67, G.68 Ligands: NAG-NAG.3, NAG-NAG.3 1 PLIP interactions: 1 interactions with chain F Hydrogen bonds: F:G.68

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

Related Entries With Identical Sequence