SMTL ID : 7a3a.1

Intertwined dimer of the c-Src SH3 domain mutant V111L-N113S-T114S-Q128E at pH 6.0

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.80 Å

Oligo State

homo-dimer

Ligands

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

PGE.1: 15 residues within 4Å: Chain A: Y.11, R.14, T.15, T.17, D.18, W.37, Y.50 Chain B: Y.11, R.14, T.15, T.17, D.18, W.37, Y.50 Ligands: PGE.6 11 PLIP interactions: 5 interactions with chain A, 6 interactions with chain B Hydrogen bonds: A:Y.11, A:R.14, A:R.14, A:T.17, B:Y.11, B:R.14, B:R.14, B:T.17, B:D.18 Water bridges: A:T.15, B:T.15 PGE.6: 15 residues within 4Å: Chain A: Y.11, R.14, T.15, T.17, D.18, W.37, Y.50 Chain B: Y.11, R.14, T.15, T.17, D.18, W.37, Y.50 Ligands: PGE.1 11 PLIP interactions: 5 interactions with chain A, 6 interactions with chain B Hydrogen bonds: A:Y.11, A:R.14, A:R.14, A:T.17, B:Y.11, B:R.14, B:R.14, B:T.17, B:D.18 Water bridges: A:T.15, B:T.15

2 x PEG: DI(HYDROXYETHYL)ETHER(Non-functional Binders)

PEG.2: 6 residues within 4Å: Chain A: V.6, A.7, L.8, K.23, G.24 Ligands: EDO.3 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:K.23 PEG.7: 6 residues within 4Å: Chain B: V.6, A.7, L.8, K.23, G.24 Ligands: EDO.8 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:K.23

2 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)

EDO.3: 2 residues within 4Å: Chain A: K.23 Ligands: PEG.2 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:K.23 EDO.8: 2 residues within 4Å: Chain B: K.23 Ligands: PEG.7 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:K.23

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

SO4.4: 5 residues within 4Å: Chain A: T.15, E.16 Chain B: T.15, E.16 Ligands: SO4.9 2 PLIP interactions: 1 interactions with chain A, 1 interactions with chain B Hydrogen bonds: A:E.16, B:E.16 SO4.5: 3 residues within 4Å: Chain A: R.26 Chain B: L.43, T.44 1 PLIP interactions: 1 interactions with chain A Salt bridges: A:R.26 SO4.9: 5 residues within 4Å: Chain A: T.15, E.16 Chain B: T.15, E.16 Ligands: SO4.4 2 PLIP interactions: 1 interactions with chain A, 1 interactions with chain B Hydrogen bonds: A:E.16, B:E.16 SO4.10: 3 residues within 4Å: Chain A: L.43, T.44 Chain B: R.26 1 PLIP interactions: 1 interactions with chain B Salt bridges: B:R.26

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Camara-Artigas, A. et al., Intertwined dimer of the c-Src SH3 domain mutant V111L-N113S-T114S-Q128E at pH 6.0. To be published

Release Date

2021-08-25

Peptides

Proto-oncogene tyrosine-protein kinase Src: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

Proto-oncogene tyrosine-protein kinase Src

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