SMTL ID : 2ved.1

crystal structure of the chimerical mutant CapABK55M protein

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.60 Å

Oligo State

homo-octamer

Ligands

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

ADP.1: 16 residues within 4Å: Chain A: I.37, Q.38, K.39, F.40, S.51, P.92, G.93, A.94, G.95, M.96, S.97, T.98, T.125, N.252, R.253 Ligands: MG.2 18 PLIP interactions: 18 interactions with chain A Hydrogen bonds: A:Q.38, A:F.40, A:G.93, A:A.94, A:G.95, A:M.96, A:S.97, A:S.97, A:T.98, A:T.98, A:T.98, A:T.125, A:N.252, A:R.253, A:R.253 Water bridges: A:S.51, A:S.51 pi-Stacking: A:F.40 ADP.3: 14 residues within 4Å: Chain B: Q.38, K.39, F.40, S.51, P.92, G.93, A.94, G.95, M.96, S.97, T.98, N.252, R.253 Ligands: MG.4 17 PLIP interactions: 17 interactions with chain B Hydrogen bonds: B:F.40, B:S.51, B:S.51, B:G.93, B:A.94, B:G.95, B:M.96, B:S.97, B:T.98, B:T.98, B:T.125, B:N.252, B:N.252, B:R.253, B:R.253 pi-Stacking: B:F.40 pi-Cation interactions: B:R.253 ADP.5: 16 residues within 4Å: Chain C: I.37, Q.38, K.39, F.40, S.51, P.92, G.93, A.94, G.95, M.96, S.97, T.98, T.125, N.252, R.253 Ligands: MG.6 18 PLIP interactions: 18 interactions with chain C Hydrogen bonds: C:Q.38, C:F.40, C:G.93, C:A.94, C:G.95, C:M.96, C:S.97, C:S.97, C:T.98, C:T.98, C:T.98, C:T.125, C:N.252, C:R.253, C:R.253 Water bridges: C:S.51, C:S.51 pi-Stacking: C:F.40 ADP.7: 14 residues within 4Å: Chain D: Q.38, K.39, F.40, S.51, P.92, G.93, A.94, G.95, M.96, S.97, T.98, N.252, R.253 Ligands: MG.8 17 PLIP interactions: 17 interactions with chain D Hydrogen bonds: D:F.40, D:S.51, D:S.51, D:G.93, D:A.94, D:G.95, D:M.96, D:S.97, D:T.98, D:T.98, D:T.125, D:N.252, D:N.252, D:R.253, D:R.253 pi-Stacking: D:F.40 pi-Cation interactions: D:R.253 ADP.9: 16 residues within 4Å: Chain E: I.37, Q.38, K.39, F.40, S.51, P.92, G.93, A.94, G.95, M.96, S.97, T.98, T.125, N.252, R.253 Ligands: MG.10 18 PLIP interactions: 18 interactions with chain E Hydrogen bonds: E:Q.38, E:F.40, E:G.93, E:A.94, E:G.95, E:M.96, E:S.97, E:S.97, E:T.98, E:T.98, E:T.98, E:T.125, E:N.252, E:R.253, E:R.253 Water bridges: E:S.51, E:S.51 pi-Stacking: E:F.40 ADP.11: 14 residues within 4Å: Chain F: Q.38, K.39, F.40, S.51, P.92, G.93, A.94, G.95, M.96, S.97, T.98, N.252, R.253 Ligands: MG.12 17 PLIP interactions: 17 interactions with chain F Hydrogen bonds: F:F.40, F:S.51, F:S.51, F:G.93, F:A.94, F:G.95, F:M.96, F:S.97, F:T.98, F:T.98, F:T.125, F:N.252, F:N.252, F:R.253, F:R.253 pi-Stacking: F:F.40 pi-Cation interactions: F:R.253 ADP.13: 16 residues within 4Å: Chain G: I.37, Q.38, K.39, F.40, S.51, P.92, G.93, A.94, G.95, M.96, S.97, T.98, T.125, N.252, R.253 Ligands: MG.14 18 PLIP interactions: 18 interactions with chain G Hydrogen bonds: G:Q.38, G:F.40, G:G.93, G:A.94, G:G.95, G:M.96, G:S.97, G:S.97, G:T.98, G:T.98, G:T.98, G:T.125, G:N.252, G:R.253, G:R.253 Water bridges: G:S.51, G:S.51 pi-Stacking: G:F.40 ADP.15: 14 residues within 4Å: Chain H: Q.38, K.39, F.40, S.51, P.92, G.93, A.94, G.95, M.96, S.97, T.98, N.252, R.253 Ligands: MG.16 17 PLIP interactions: 17 interactions with chain H Hydrogen bonds: H:F.40, H:S.51, H:S.51, H:G.93, H:A.94, H:G.95, H:M.96, H:S.97, H:T.98, H:T.98, H:T.125, H:N.252, H:N.252, H:R.253, H:R.253 pi-Stacking: H:F.40 pi-Cation interactions: H:R.253

8 x MG: MAGNESIUM ION(Non-covalent)

MG.2: 4 residues within 4Å: Chain A: S.97, D.120, D.198 Ligands: ADP.1 1 PLIP interactions: 1 interactions with chain A Metal complexes: A:S.97 MG.4: 5 residues within 4Å: Chain B: M.96, S.97, D.198, T.199 Ligands: ADP.3 1 PLIP interactions: 1 interactions with chain B Metal complexes: B:S.97 MG.6: 4 residues within 4Å: Chain C: S.97, D.120, D.198 Ligands: ADP.5 1 PLIP interactions: 1 interactions with chain C Metal complexes: C:S.97 MG.8: 5 residues within 4Å: Chain D: M.96, S.97, D.198, T.199 Ligands: ADP.7 1 PLIP interactions: 1 interactions with chain D Metal complexes: D:S.97 MG.10: 4 residues within 4Å: Chain E: S.97, D.120, D.198 Ligands: ADP.9 1 PLIP interactions: 1 interactions with chain E Metal complexes: E:S.97 MG.12: 5 residues within 4Å: Chain F: M.96, S.97, D.198, T.199 Ligands: ADP.11 1 PLIP interactions: 1 interactions with chain F Metal complexes: F:S.97 MG.14: 4 residues within 4Å: Chain G: S.97, D.120, D.198 Ligands: ADP.13 1 PLIP interactions: 1 interactions with chain G Metal complexes: G:S.97 MG.16: 5 residues within 4Å: Chain H: M.96, S.97, D.198, T.199 Ligands: ADP.15 1 PLIP interactions: 1 interactions with chain H Metal complexes: H:S.97

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Olivares-Illana, V. et al., Structural Basis for the Regulation Mechanism of the Tyrosine Kinase Capb from Staphylococcus Aureus. Plos Biol. (2008)

Release Date

2008-07-01

Peptides

MEMBRANE PROTEIN CAPA1, PROTEIN TYROSINE KINASE: ABCDEFGH

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
A

D
B

E
A

F
B

G
A

H
B

MEMBRANE PROTEIN CAPA1, PROTEIN TYROSINE KINASE