SMTL ID : 1pkg.3 (2 other biounits)

Structure of a c-Kit Kinase Product Complex

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.90 Å

Oligo State

homo-tetramer

Ligands

4 x MG: MAGNESIUM ION(Non-covalent)

MG.1: 5 residues within 4Å: Chain A: R.190, N.191, D.204 Chain B: Y.20 Ligands: ADP.2 2 PLIP interactions: 1 interactions with chain A, 1 interactions with chain B Metal complexes: A:D.204, B:Y.20 MG.3: 4 residues within 4Å: Chain B: N.191, D.204 Chain C: Y.20 Ligands: ADP.4 1 PLIP interactions: 1 interactions with chain B Metal complexes: B:D.204 MG.5: 5 residues within 4Å: Chain C: R.190, N.191, D.204 Chain D: Y.20 Ligands: ADP.6 2 PLIP interactions: 1 interactions with chain C, 1 interactions with chain D Metal complexes: C:D.204, D:Y.20 MG.7: 4 residues within 4Å: Chain A: Y.20 Chain D: N.191, D.204 Ligands: ADP.8 1 PLIP interactions: 1 interactions with chain D Metal complexes: D:D.204

4 x ADP: ADENOSINE-5'-DIPHOSPHATE(Non-covalent)

ADP.2: 21 residues within 4Å: Chain A: L.47, G.48, A.49, G.50, A.51, F.52, G.53, V.55, A.73, K.75, V.106, T.122, E.123, C.125, D.129, R.190, N.191, L.193, D.204 Chain B: Y.20 Ligands: MG.1 13 PLIP interactions: 13 interactions with chain A Hydrogen bonds: A:G.50, A:A.51, A:F.52, A:G.53, A:E.123, A:C.125, A:D.129, A:D.129, A:D.129, A:D.204, A:D.204 Salt bridges: A:K.75, A:K.75 ADP.4: 22 residues within 4Å: Chain B: L.47, G.48, A.49, G.50, A.51, F.52, G.53, V.55, A.73, K.75, T.122, E.123, Y.124, C.125, D.129, R.190, N.191, L.193, C.203, D.204 Chain C: Y.20 Ligands: MG.3 10 PLIP interactions: 10 interactions with chain B Hydrogen bonds: B:A.51, B:F.52, B:T.122, B:E.123, B:C.125, B:D.129, B:D.129, B:D.204 Salt bridges: B:K.75, B:K.75 ADP.6: 21 residues within 4Å: Chain C: L.47, G.48, A.49, G.50, A.51, F.52, G.53, V.55, A.73, K.75, V.106, T.122, E.123, C.125, D.129, R.190, N.191, L.193, D.204 Chain D: Y.20 Ligands: MG.5 13 PLIP interactions: 13 interactions with chain C Hydrogen bonds: C:G.50, C:A.51, C:F.52, C:G.53, C:E.123, C:C.125, C:D.129, C:D.129, C:D.129, C:D.204, C:D.204 Salt bridges: C:K.75, C:K.75 ADP.8: 22 residues within 4Å: Chain A: Y.20 Chain D: L.47, G.48, A.49, G.50, A.51, F.52, G.53, V.55, A.73, K.75, T.122, E.123, Y.124, C.125, D.129, R.190, N.191, L.193, C.203, D.204 Ligands: MG.7 10 PLIP interactions: 10 interactions with chain D Hydrogen bonds: D:A.51, D:F.52, D:T.122, D:E.123, D:C.125, D:D.129, D:D.129, D:D.204 Salt bridges: D:K.75, D:K.75

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Mol, C.D. et al., Structure of a c-Kit Product Complex Reveals the Basis for Kinase Transactivation. J.Biol.Chem. (2003)

Release Date

2003-08-12

Peptides

c-kit protein: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
A

D
B

c-kit protein

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