SMTL ID : 3in8.1

Crystal Structure of the Grb2 SH2 Domain in Complex with a Flexible Ac-pTyr-Ile-Asn-NH2 Tripeptide Mimic

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.70 Å

Oligo State

homo-dimer

Ligands

2 x FYI: N-{(2S)-4-(methylamino)-4-oxo-2-[4-(phosphonooxy)benzyl]butanoyl}-L-isoleucyl-L-aspartamide(Non-covalent)

FYI.1: 12 residues within 4Å: Chain A: R.15, R.34, S.36, S.38, S.44, Q.54, H.55, F.56, K.57, L.59, L.68, W.69 25 PLIP interactions: 25 interactions with chain A Hydrophobic interactions: A:Q.54, A:H.55, A:F.56, A:F.56, A:K.57, A:W.69, A:W.69 Hydrogen bonds: A:R.15, A:R.15, A:S.38, A:S.38, A:S.44, A:S.44, A:H.55, A:K.57, A:L.68 Water bridges: A:R.34, A:R.34, A:H.55, A:K.57, A:K.57, A:K.57, A:K.57 Salt bridges: A:R.15, A:R.34 FYI.3: 12 residues within 4Å: Chain B: R.15, R.34, S.36, S.38, S.44, Q.54, H.55, F.56, K.57, L.59, L.68, W.69 25 PLIP interactions: 25 interactions with chain B Hydrophobic interactions: B:Q.54, B:H.55, B:F.56, B:F.56, B:K.57, B:W.69, B:W.69 Hydrogen bonds: B:R.15, B:R.15, B:S.38, B:S.38, B:S.44, B:S.44, B:H.55, B:K.57, B:L.68 Water bridges: B:R.34, B:R.34, B:H.55, B:K.57, B:K.57, B:K.57, B:K.57 Salt bridges: B:R.15, B:R.34

2 x FMT: FORMIC ACID(Non-functional Binders)

FMT.2: 5 residues within 4Å: Chain A: K.24, Q.25, R.26, H.27, E.100 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:K.24, A:R.26 Water bridges: A:H.27, A:H.27 FMT.4: 5 residues within 4Å: Chain B: K.24, Q.25, R.26, H.27, E.100 5 PLIP interactions: 5 interactions with chain B Hydrogen bonds: B:K.24, B:R.26, B:H.27 Water bridges: B:H.27, B:H.27

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Delorbe, J.E. et al., Thermodynamic and Structural Effects of Conformational Constraints in Protein-Ligand Interactions. Entropic Paradoxy Associated with Ligand Preorganization. J.Am.Chem.Soc. (2009)

Release Date

2009-11-17

Peptides

Growth factor receptor-bound protein 2: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

Growth factor receptor-bound protein 2

Related Entries With Identical Sequence