SMTL ID : 3fj5.1

Crystal structure of the c-src-SH3 domain

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.65 Å

Oligo State

homo-dimer

Ligands

1 x PGE: TRIETHYLENE GLYCOL(Non-functional Binders)

PGE.1: 14 residues within 4Å: Chain A: Y.9, R.12, T.13, T.15, D.16, W.35, Y.48 Chain B: Y.9, R.12, T.13, T.15, D.16, W.35, Y.48 8 PLIP interactions: 4 interactions with chain B, 4 interactions with chain A Hydrogen bonds: B:Y.9, B:R.12, B:R.12, A:Y.9, A:R.12, A:R.12 Water bridges: B:T.15, A:T.13

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

SO4.2: 4 residues within 4Å: Chain A: T.13, E.14 Chain B: T.13, E.14 3 PLIP interactions: 1 interactions with chain A, 2 interactions with chain B Hydrogen bonds: A:E.14, B:E.14 Water bridges: B:E.14

3 x ACT: ACETATE ION(Non-functional Binders)

ACT.3: 5 residues within 4Å: Chain A: S.11, L.17, S.18 Chain B: R.45 Ligands: GOL.4 3 PLIP interactions: 1 interactions with chain B, 2 interactions with chain A Salt bridges: B:R.45 Hydrogen bonds: A:S.11, A:S.18 ACT.6: 4 residues within 4Å: Chain A: R.45 Chain B: S.11, L.17, S.18 3 PLIP interactions: 2 interactions with chain B, 1 interactions with chain A Hydrogen bonds: B:S.11, B:S.18 Salt bridges: A:R.45 ACT.7: 5 residues within 4Å: Chain A: T.46, G.47 Chain B: E.14, T.15, D.16 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:T.46

1 x GOL: GLYCEROL(Non-functional Binders)

GOL.4: 7 residues within 4Å: Chain A: E.14, T.15, D.16, L.17 Chain B: T.46, G.47 Ligands: ACT.3 1 PLIP interactions: 1 interactions with chain A Water bridges: A:E.14

2 x PG4: TETRAETHYLENE GLYCOL(Non-functional Binders)

PG4.5: 2 residues within 4Å: Chain A: K.21, G.22 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:K.21 PG4.8: 3 residues within 4Å: Chain B: V.4, K.21, G.22 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:K.21

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Morel, B. et al., Intertwined dimeric structure for the SH3 domain of the c-Src tyrosine kinase induced by polyethylene glycol binding. Febs Lett. (2009)

Release Date

2009-03-03

Peptides

Proto-oncogene tyrosine-protein kinase Src: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Proto-oncogene tyrosine-protein kinase Src