3MAZ

Crystal Structure of the Human BRDG1/STAP-1 SH2 Domain in Complex with the NTAL pTyr136 Peptide

Summary for 3MAZ

• Entry DOI: 10.2210/pdb3maz/pdb
• Descriptor: Signal-transducing adaptor protein 1, CheD family protein, MALONATE ION, ... (4 entities in total)
• Functional Keywords: modular domain, phosphotyrosine, specificity, cytoplasm, phosphoprotein, sh2 domain, signaling protein
• Biological source: Homo sapiens (human); More
• Cellular location: Cytoplasm (Potential): Q9ULZ2; Cell membrane; Single-pass type III membrane protein: Q9GZY6
• Total number of polymer chains: 2
• Total formula weight: 15582.51

Authors

Kaneko, T.,Huang, H.,Zhao, B.,Li, L.,Liu, H.,Voss, C.K.,Wu, C.,Schiller, M.R.,Li, S.S. (deposition date: 2010-03-24, release date: 2010-05-12, Last modification date: 2023-11-22)

Primary citation

Kaneko, T.,Huang, H.,Zhao, B.,Li, L.,Liu, H.,Voss, C.K.,Wu, C.,Schiller, M.R.,Li, S.S.
Loops govern SH2 domain specificity by controlling access to binding pockets.
Sci.Signal., 3:ra34-ra34, 2010

PubMed Abstract: Cellular functions require specific protein-protein interactions that are often mediated by modular domains that use binding pockets to engage particular sequence motifs in their partners. Yet, how different members of a domain family select for distinct sequence motifs is not fully understood. The human genome encodes 120 Src homology 2 (SH2) domains (in 110 proteins), which mediate protein-protein interactions by binding to proteins with diverse phosphotyrosine (pTyr)-containing sequences. The structure of the SH2 domain of BRDG1 bound to a peptide revealed a binding pocket that was blocked by a loop residue in most other SH2 domains. Analysis of 63 SH2 domain structures suggested that the SH2 domains contain three binding pockets, which exhibit selectivity for the three positions after the pTyr in a peptide, and that SH2 domain loops defined the accessibility and shape of these pockets. Despite sequence variability in the loops, we identified conserved structural features in the loops of SH2 domains responsible for controlling access to these surface pockets. We engineered new loops in an SH2 domain that altered specificity as predicted. Thus, selective blockage of binding subsites or pockets by surface loops provides a molecular basis by which the diverse modes of ligand recognition by the SH2 domain may have evolved and provides a framework for engineering SH2 domains and designing SH2-specific inhibitors.

PubMed: 20442417
DOI: 10.1126/scisignal.2000796

Experimental method

X-RAY DIFFRACTION (1.9 Å)