SMTL ID : 2z7x.1

Crystal structure of the TLR1-TLR2 heterodimer induced by binding of a tri-acylated lipopeptide

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.10 Å

Oligo State

hetero-1-1-mer

Ligands

1 x DCY- SER- LYS- LYS- LYS- LYS: Pam3CSK4(Non-covalent)

DCY-SER-LYS-LYS-LYS-LYS.1: 13 residues within 4Å: Chain A: N.268, L.298, F.299, Y.300, D.301, L.324, P.326 Chain B: F.288, G.289, P.291, Y.294 Ligands: PLM.10, Z41.11 8 PLIP interactions: 6 interactions with chain A, 2 interactions with chain B Hydrogen bonds: A:L.298, A:F.299, A:F.299, A:D.301, B:G.289, B:Y.294 Water bridges: A:N.268, A:Y.300

1 x NAG- NDG- MAN: alpha-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-alpha-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose

NAG-NDG-MAN.2: 6 residues within 4Å: Chain B: D.6, S.8, K.9, N.27, Q.30, I.51 1 PLIP interactions: 1 interactions with chain B Hydrophobic interactions: B:I.51 Hydrogen bonds: B:S.8, B:K.9, B:N.27, B:Q.30

1 x NAG- NAG- MAN: alpha-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose

NAG-NAG-MAN.3: 6 residues within 4Å: Chain B: Y.251, A.277, N.306, H.328, T.352, Q.378 No protein-ligand interaction detected (PLIP)

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

NAG-NAG-BMA.4: 9 residues within 4Å: Chain B: Q.356, S.382, Q.383, N.405, S.407, S.408, V.425, D.427, H.429 1 PLIP interactions: 1 interactions with chain B Water bridges: B:Q.383

1 x NAG- BMA: beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose(Non-functional Binders)

NAG-BMA.5: 1 residues within 4Å: Ligands: NAG.8 No protein-ligand interaction detected (PLIP)

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

NAG.6: 3 residues within 4Å: Chain A: Q.172, N.173, L.224 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:Q.172 NAG.7: 3 residues within 4Å: Chain A: P.361, Q.364, N.388 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.388 NAG.8: 8 residues within 4Å: Chain A: R.369, S.395, K.396, Y.414, N.416, D.437, Y.457 Ligands: NAG-BMA.5 6 PLIP interactions: 6 interactions with chain A Hydrophobic interactions: A:Y.414, A:Y.457 Hydrogen bonds: A:S.395, A:N.416, A:D.437 Water bridges: A:D.437 NAG.9: 2 residues within 4Å: Chain B: H.137, N.139 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:H.137, B:N.139, B:N.139

1 x PLM: PALMITIC ACID(Non-covalent)

PLM.10: 10 residues within 4Å: Chain A: F.323, L.324, Y.350 Chain B: F.288, Q.292, F.299, T.312, R.313 Ligands: DCY-SER-LYS-LYS-LYS-LYS.1, DCY-SER-LYS-LYS-LYS-LYS.1 8 PLIP interactions: 4 interactions with chain A, 4 interactions with chain B Hydrophobic interactions: A:F.323, A:L.324, A:Y.350, A:Y.350, B:F.288, B:F.288, B:F.299 Hydrogen bonds: B:Q.292

1 x Z41: (2S)-3-hydroxypropane-1,2-diyl dihexadecanoate(Non-covalent)

Z41.11: 19 residues within 4Å: Chain A: M.244, L.256, L.286, L.291, I.293, F.296, F.299, Y.300, L.302, L.308, S.320, K.321, V.322, F.323, L.324, V.325, P.326, L.329 Ligands: DCY-SER-LYS-LYS-LYS-LYS.1 13 PLIP interactions: 13 interactions with chain A Hydrophobic interactions: A:L.286, A:L.291, A:I.293, A:F.299, A:L.308, A:V.322, A:V.322, A:F.323, A:F.323, A:V.325, A:L.329 Hydrogen bonds: A:F.323, A:L.324

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Jin, M.S. et al., Crystal Structure of the TLR1-TLR2 Heterodimer Induced by Binding of a Tri-Acylated Lipopeptide. Cell(Cambridge,Mass.) (2007)

Release Date

2007-10-02

Peptides

Toll-like receptor 2,Variable lymphocyte receptor B: A
Toll-like receptor 1,Variable lymphocyte receptor B: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Toll-like receptor 2,Variable lymphocyte receptor B

Toll-like receptor 1,Variable lymphocyte receptor B