3MXY	Protein Binding	date	May 08, 2010
title	Structures Of Grb2-Sh2 Domain And Aicd Peptide Complexes Rev Conformational Switch And Their Functional Implications.
authors	U.Sen, S.Das
compound		source
Molecule: Growth Factor Receptor-Bound Protein 2 Chain: A Synonym: Adapter Protein Grb2, Sh2sh3 Adapter Grb2, Protei Engineered: Yes		Organism_scientific: Homo Sapiens Organism_common: Human Organism_taxid: 9606 Gene: Grb2, Ash Expression_system: Escherichia Coli Expression_system_taxid: 562 Expression_system_strain: Bl21 (De3) Expression_system_vector_type: Plasmid Expression_system_plasmid: Pet(28a)
Molecule: Aicd Peptide E683v Variant Chain: L Engineered: Yes		Synthetic: Yes
symmetry	Space Group: P 61 2 2	R_factor 0.232 R_Free 0.252
crystal cell	length a length b length c angle alpha angle beta angle gamma 58.980 58.980 117.060 90.00 90.00 120.00
method	X-Ray Diffraction	resolution	2.30 Å
ligand	PTR	enzyme
Gene Ontology	Chain Function Process Component A phosphotyrosine binding SH3/SH2 adaptor activity epidermal growth factor rece... neurotrophin TRKA receptor b... protein binding SH3 domain binding protein kinase binding protein phosphatase binding protein domain specific bind... identical protein binding insulin receptor substrate b... ephrin receptor binding phosphoprotein binding epidermal growth factor rece... Ras protein signal transduct... cell-cell signaling axon guidance aging blood coagulation insulin receptor signaling p... fibroblast growth factor rec... virus-host interaction cell differentiation platelet activation positive regulation of actin... T cell costimulation receptor internalization Fc-gamma receptor signaling ... negative regulation of epide... signal transduction in respo... regulation of MAPK cascade innate immune response neurotrophin TRK receptor si... phosphatidylinositol-mediate... anatomical structure formati... leukocyte migration protein heterooligomerizatio... branching involved in labyri... cellular response to ionizin... positive regulation of react... nucleus cytoplasm endosome Golgi apparatus cytosol plasma membrane signalosome vesicle membrane membrane protein complex Grb2-EGFR complex
Primary reference	Functional Implications of the Conformational Switch in AICD Peptide upon Binding to Grb2-SH2 Domain., Das S, Raychaudhuri M, Sen U, Mukhopadhyay D, J Mol Biol. 2011 Oct 4. PMID:22001015

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (26 Kb) [Save to disk] Biological Unit Coordinates (3mxy.pdb1.gz) 21 Kb LPC: Ligand-Protein Contacts for 3MXY CSU: Contacts of Structural Units for 3MXY Structure Factors (51 Kb) Retrieve 3MXY in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 3MXY from S2C, [Save to disk] Re-refined 3mxy structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 3MXY in 3D

Proteopedia, because life has more than 2D. On Jmol, a nice Rasmol like molecule viewer. This is good for easiest viewing of basic structure. On FirstGlance, an excellent tool for a guided tour on the structure components, by E. Martz. On AstexViewer, from MSD-EBI (viewer documentation). On RasMol (Install RasMol freeware) Here's help on how to use RasMol.

Visual 3D analysis of 3MXY

Cartoon representation from PDB Cartoon Ramachandran plot from PDBSum

Structure-derived information

Electron Density related parameters from EDS Electron Density Server, at Upsala Dipole moment, from Dipole Server at Weizmann Institute Crystal Contacts, from CryCo at Weizmann Institute 3D motif for 3MXY, from MSDmotif at EBI Fold representative 3mxy from FSSP and Dali (Families of Structurally Similar Proteins)

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [3mxy_A] [3mxy_L] SWISS-PROT database: Domain organization of by SWISSPFAM Alignments of the sequence of 3MXY with the sequences similar proteins can be viewed for 3MXY's classification at ProtoMap. Click on "Neighbors List", then on the "See Alignments" button below the list. A sequence distance tree ("phylogenetic tree") can be viewed for 1ACL's classification at ProtoMap. Click on the Cluster number.

Other resources with information on 3MXY

Community annotation for 3MXY at PDBWiki (http://pdbwiki.org) MMDB (Entrez's Structure Database)

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