Macromolecule Content

• Total Structure Weight: 9651.97 
• Atom Count: 552 
• Residue Count: 86 
• Unique protein chains: 2

2GBQ

SOLUTION NMR STRUCTURE OF THE GRB2 N-TERMINAL SH3 DOMAIN COMPLEXED WITH A TEN-RESIDUE PEPTIDE DERIVED FROM SOS DIRECT REFINEMENT AGAINST NOES, J-COUPLINGS, AND 1H AND 13C CHEMICAL SHIFTS, 15 STRUCTURES

• DOI: 10.2210/pdb2GBQ/pdb

• Classification: COMPLEX (SIGNAL TRANSDUCTION/PEPTIDE)
• Organism(s): Mus musculus
• Expression System: Escherichia coli BL21(DE3)


• Deposited: 1996-12-23 Released: 1997-09-04 
• Deposition Author(s): Wittekind, M., Mapelli, C., Lee, V., Goldfarb, V., Friedrichs, M.S., Meyers, C.A., Mueller, L.

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Experimental Data Snapshot

• Method: SOLUTION NMR
• Conformers Calculated: 200 
• Conformers Submitted: 15 

Literature

Solution structure of the Grb2 N-terminal SH3 domain complexed with a ten-residue peptide derived from SOS: direct refinement against NOEs, J-couplings and 1H and 13C chemical shifts.

Wittekind, M., Mapelli, C., Lee, V., Goldfarb, V., Friedrichs, M.S., Meyers, C.A., Mueller, L.

(1997) J.Mol.Biol. 267: 933-952

• PubMed: 9135122 
• DOI: 10.1006/jmbi.1996.0886
• Primary Citation of Related Structures:  
  4GBQ, 3GBQ, 1GBQ


• PubMed Abstract: 
  

Refined ensembles of solution structures have been calculated for the N-terminal SH3 domain of Grb2 (N-SH3) complexed with the ac-VPPPVPPRRR-nh2 peptide derived from residues 1135 to 1144 of the mouse SOS-1 sequence. NMR spectra obtained from different combinations of both 13C-15N-labeled and unlabeled N-SH3 and SOS peptide fragment were used to obtain stereo-assignments for pro-chiral groups of the peptide, angle restraints via heteronuclear coupling constants, and complete 1H, 13C, and 15N resonance assignments for both molecules. One ensemble of structures was calculated using conventional methods while a second ensemble was generated by including additional direct refinements against both 1H and 13C(alpha)/13C(beta) chemical shifts. In both ensembles, the protein:peptide interface is highly resolved, reflecting the inclusion of 110 inter-molecular nuclear Overhauser enhancement (NOE) distance restraints. The first and second peptide-binding sub-sites of N-SH3 interact with structurally well-defined portions of the peptide. These interactions include hydrogen bonds and extensive hydrophobic contacts. In the third highly acidic sub-site, the conformation of the peptide Arg8 side-chain is partially ordered by a set of NOE restraints to the Trp36 ring protons. Overall, several lines of evidence point to dynamical averaging of peptide and N-SH3 side-chain conformations in the third subsite. These conformations are characterized by transient charge stabilized hydrogen bond interactions between the peptide arginine side-chain hydrogen bond donors and either single, or possibly multiple, acceptor(s) in the third peptide-binding sub-site.

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Related Citations: 

• Identification of Murine Homologues of the Drosophila Son of Sevenless Gene: Potential Activators of Ras
  Bowtell, D.,Fu, P.,Simon, M.,Senior, P.
  (1992) Proc.Natl.Acad.Sci.USA 89: 6511
• Molecular Cloning of the Mouse Grb2 Gene: Differential Interaction of the Grb2 Adaptor Protein with Epidermal Growth Factor and Nerve Growth Factor Receptors
  Suen, K.L.,Bustelo, X.R.,Pawson, T.,Barbacid, M.
  (1993) Mol.Cell.Biol. 13: 5500
• Orientation of Peptide Fragments from SOS Proteins Bound to the N-Terminal SH3 Domain of Grb2 Determined by NMR Spectroscopy
  Wittekind, M.,Mapelli, C.,Farmer II, B.T.,Suen, K.L.,Goldfarb, V.,Tsao, J.,Lavoie, T.,Barbacid, M.,Meyers, C.A.,Mueller, L.
  (1994) Biochemistry 33: 13531




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Organizational Affiliation: 

Macromolecular NMR Department, Bristol-Myers Squibb Pharmaceutical Research Institute, Princeton, NJ 08543-4000, USA.

Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details
GRB2	A	74	Mus musculus	Mutation(s): 0  Gene Names: Grb2
Find proteins for Q60631 (Mus musculus) Go to UniProtKB:  Q60631

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details
SOS-1	B	12	Mus musculus	Mutation(s): 0  Gene Names: Sos1
Find proteins for Q62245 (Mus musculus) Go to UniProtKB:  Q62245

Small Molecules

Modified Residues  2 Unique
ID	Chains	Type	Formula	2D Diagram	Parent
NH2	B	NON-POLYMER	H2 N		--
ACE	B	NON-POLYMER	C2 H4 O		--

Experimental Data & Validation

Experimental Data

• Method: SOLUTION NMR
• Conformers Calculated: 200 
• Conformers Submitted: 15 
• Olderado: 2GBQ Olderado

Software Package:

Software Name	Purpose
X-PLOR	phasing
X-PLOR	model building
X-PLOR	refinement

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 1996-12-23 
• Released Date: 1997-09-04 
• Deposition Author(s): Wittekind, M., Mapelli, C., Lee, V., Goldfarb, V., Friedrichs, M.S., Meyers, C.A., Mueller, L.

Revision History 

• Version 1.0: 1997-09-04
  Type: Initial release
• Version 1.1: 2008-03-24
  Type: Version format compliance
• Version 1.2: 2011-07-13
  Type: Version format compliance