SMTL ID : 4euu.1

Structure of BX-795 Complexed with Human TBK1 Kinase Domain Phosphorylated on Ser172

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.80 Å

Oligo State

homo-dimer

Ligands

2 x BX7: N-(3-{[5-iodo-4-({3-[(thiophen-2-ylcarbonyl)amino]propyl}amino)pyrimidin-2-yl]amino}phenyl)pyrrolidine-1-carboxamide(Non-covalent)

BX7.1: 25 residues within 4Å: Chain A: L.17, G.18, Q.19, G.20, A.23, V.25, A.38, K.40, M.88, E.89, F.90, C.91, P.92, G.94, T.98, G.141, M.144, T.158, D.159 Chain B: L.13, S.14, I.16, Q.19, N.24 Ligands: IOD.2 7 PLIP interactions: 5 interactions with chain A, 2 interactions with chain B Hydrophobic interactions: A:L.17, B:I.16, B:Q.19 Hydrogen bonds: A:L.17, A:C.91, A:C.91, A:T.98 BX7.8: 26 residues within 4Å: Chain A: L.13, S.14, I.16, Q.19, N.24 Chain B: L.17, G.18, Q.19, G.20, A.23, V.25, A.38, K.40, M.88, E.89, F.90, C.91, P.92, G.94, T.98, G.141, M.144, T.158, D.159 Ligands: IOD.9, GOL.13 7 PLIP interactions: 6 interactions with chain B, 1 interactions with chain A Hydrophobic interactions: B:L.17, B:V.25, A:Q.19 Hydrogen bonds: B:L.17, B:C.91, B:C.91 Water bridges: B:G.141

2 x IOD: IODIDE ION(Non-functional Binders)

IOD.2: 5 residues within 4Å: Chain A: K.40, M.88, T.158, D.159 Ligands: BX7.1 Ligand excluded by PLIP IOD.9: 5 residues within 4Å: Chain B: K.40, M.88, T.158, D.159 Ligands: BX7.8 Ligand excluded by PLIP

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

SO4.3: 6 residues within 4Å: Chain A: R.189, R.193 Chain B: R.231, N.232, K.233, E.234 4 PLIP interactions: 2 interactions with chain A, 2 interactions with chain B Salt bridges: A:R.189, A:R.193 Hydrogen bonds: B:K.233, B:E.234 SO4.4: 4 residues within 4Å: Chain A: R.129, G.296, F.297, D.298 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:F.297, A:D.298 Water bridges: A:G.296, A:G.296 Salt bridges: A:R.129 SO4.10: 6 residues within 4Å: Chain A: R.231, N.232, K.233, E.234 Chain B: R.189, R.193 5 PLIP interactions: 2 interactions with chain B, 3 interactions with chain A Salt bridges: B:R.189, B:R.193 Hydrogen bonds: A:K.233, A:E.234, A:E.234

7 x GOL: GLYCEROL(Non-functional Binders)

GOL.5: 5 residues within 4Å: Chain A: V.99, E.102, N.105, P.110, E.113 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:E.102 GOL.6: 6 residues within 4Å: Chain A: D.35, L.36, F.37, F.73, E.89, F.90 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:L.36, A:F.90 GOL.7: 1 residues within 4Å: Chain A: R.273 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:R.273 GOL.11: 4 residues within 4Å: Chain B: D.168, G.296, F.297, D.298 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:F.297, B:D.298 Water bridges: B:Q.299 GOL.12: 6 residues within 4Å: Chain B: D.35, L.36, F.37, F.73, E.89, F.90 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:L.36, B:F.90 Water bridges: B:E.89, B:F.90 GOL.13: 7 residues within 4Å: Chain A: G.2, L.13 Chain B: P.92, C.93, G.94, T.98 Ligands: BX7.8 5 PLIP interactions: 4 interactions with chain A, 1 interactions with chain B Hydrogen bonds: A:G.2, B:T.98 Water bridges: A:L.13, A:S.14, A:S.14 GOL.14: 3 residues within 4Å: Chain B: H.66, K.67, G.123 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:H.66

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Ma, X. et al., Molecular basis of Tank-binding kinase 1 activation by transautophosphorylation. Proc.Natl.Acad.Sci.USA (2012)

Release Date

2012-05-23

Peptides

Serine/threonine-protein kinase TBK1: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Serine/threonine-protein kinase TBK1