Structural and thermodynamic characterization of a cytoplasmic dynein light chain–intermediate chain complex

Cytoplasmic dynein is a microtubule-based motor protein complex that plays important roles in a wide range of fundamental cellular processes, including vesicular transport, mitosis, and cell migration. A single major form of cytoplasmic dynein associates with membranous organelles, mitotic kinetochores, the mitotic and migratory cell cortex, centrosomes, and mRNA complexes. The ability of cytoplasmic dynein to recognize such diverse forms of cargo is thought to be associated with its several accessory subunits, which reside at the base of the molecule. The dynein light chains (LCs) LC8 and TcTex1 form a subcomplex with dynein intermediate chains, and they also interact with numerous protein and ribonucleoprotein partners. This observation has led to the hypothesis that these subunits serve to tether cargo to the dynein motor. Here, we present the structure and a thermodynamic analysis of a complex of LC8 and TcTex1 associated with their intermediate chain scaffold. The intermediate chains effectively block the major putative cargo binding sites within the light chains. These data suggest that, in the dynein complex, the LCs do not bind cargo, in apparent disagreement with a role for LCs in dynein cargo binding interactions.

[1]  Petra L. Roulhac,et al.  SUPREX (Stability of Unpurified Proteins from Rates of H/D Exchange) analysis of the thermodynamics of synergistic anion binding by ferric-binding protein (FbpA), a bacterial transferrin. , 2004, Biochemistry.

[2]  M. Fitzgerald,et al.  Accuracy and precision of a new H/D exchange- and mass spectrometry-based technique for measuring the thermodynamic properties of protein-peptide complexes. , 2003, Biochemistry.

[3]  H. Tochio,et al.  Structural basis of diverse sequence-dependent target recognition by the 8 kDa dynein light chain. , 2001, Journal of molecular biology.

[4]  M. Dessing,et al.  Interaction of p59fyn kinase with the dynein light chain, Tctex-1, and colocalization during cytokinesis. , 1998, Journal of immunology.

[5]  C. Sung,et al.  Cytoplasmic Dynein Regulation by Subunit Heterogeneity and Its Role in Apical Transport , 2001, The Journal of cell biology.

[6]  A. Sahin,et al.  Dynein light chain 1, a p21-activated kinase 1-interacting substrate, promotes cancerous phenotypes. , 2004, Cancer cell.

[7]  Kazuo Sutoh,et al.  Distinct functions of nucleotide-binding/hydrolysis sites in the four AAA modules of cytoplasmic dynein. , 2004, Biochemistry.

[8]  N. Rudarakanchana,et al.  Functional interaction between BMPR-II and Tctex-1, a light chain of Dynein, is isoform-specific and disrupted by mutations underlying primary pulmonary hypertension. , 2003, Human molecular genetics.

[9]  P. Tompa Intrinsically unstructured proteins. , 2002, Trends in biochemical sciences.

[10]  R. Scarpulla,et al.  Dynein light chain interacts with NRF-1 and EWG, structurally and functionally related transcription factors from humans and drosophila. , 2000, Journal of cell science.

[11]  R. Vallee,et al.  Light Intermediate Chain 1 Defines a Functional Subfraction of Cytoplasmic Dynein Which Binds to Pericentrin* , 2000, The Journal of Biological Chemistry.

[12]  Thomas Terwilliger,et al.  SOLVE and RESOLVE: automated structure solution, density modification and model building. , 2004, Journal of synchrotron radiation.

[13]  R. Chisholm,et al.  Interaction Mapping of a Dynein Heavy Chain , 1999, The Journal of Biological Chemistry.

[14]  E. Barbar,et al.  Heteronuclear NMR identifies a nascent helix in intrinsically disordered dynein intermediate chain: implications for folding and dimerization. , 2006, Journal of molecular biology.

[15]  Liyuan Ma,et al.  A new H/D exchange- and mass spectrometry-based method for thermodynamic analysis of protein-DNA interactions. , 2003, Chemistry & biology.

[16]  R. Vallee,et al.  Direct Interaction of Pericentrin with Cytoplasmic Dynein Light Intermediate Chain Contributes to Mitotic Spindle Organization , 1999, The Journal of cell biology.

[17]  R. Vallee,et al.  Distinct but Overlapping Sites within the Cytoplasmic Dynein Heavy Chain for Dimerization and for Intermediate Chain and Light Intermediate Chain Binding* , 2000, The Journal of Biological Chemistry.

[18]  U. Wolfrum,et al.  Rhodopsin’s Carboxy-Terminal Cytoplasmic Tail Acts as a Membrane Receptor for Cytoplasmic Dynein by Binding to the Dynein Light Chain Tctex-1 , 1999, Cell.

[19]  C. Nüsslein-Volhard,et al.  The molecular motor dynein is involved in targeting Swallow and bicoid RNA to the anterior pole of Drosophila oocytes , 2000, Nature Cell Biology.

[20]  G. Murshudov,et al.  Refinement of macromolecular structures by the maximum-likelihood method. , 1997, Acta crystallographica. Section D, Biological crystallography.

[21]  R. Vallee,et al.  Microtubule-associated protein 1C from brain is a two-headed cytosolic dynein , 1988, Nature.

[22]  N. Hilschmann,et al.  Voltage-dependent anion-selective channel (VDAC) interacts with the dynein light chain Tctex1 and the heat-shock protein PBP74. , 2002, The international journal of biochemistry & cell biology.

[23]  C. Sung,et al.  Dynein light chain rp3 acts as a nuclear matrix-associated transcriptional modulator in a dynein-independent pathway , 2005, Journal of Cell Science.

[24]  R J Read,et al.  Crystallography & NMR system: A new software suite for macromolecular structure determination. , 1998, Acta crystallographica. Section D, Biological crystallography.

[25]  K. W. Lo,et al.  Structure of Tctex-1 and Its Interaction with Cytoplasmic Dynein Intermediate Chain* , 2001, The Journal of Biological Chemistry.

[26]  T. Möröy,et al.  Nuclear interaction of the dynein light chain LC8a with the TRPS1 transcription factor suppresses the transcriptional repression activity of TRPS1. , 2003, Human molecular genetics.

[27]  K. W. Lo,et al.  Identification of a Novel Region of the Cytoplasmic Dynein Intermediate Chain Important for Dimerization in the Absence of the Light Chains* , 2006, Journal of Biological Chemistry.

[28]  G M Whitesides,et al.  A trivalent system from vancomycin.D-ala-D-Ala with higher affinity than avidin.biotin. , 1998, Science.

[29]  T. Hays,et al.  Dynein light chain LC8 promotes assembly of the coiled-coil domain of swallow protein. , 2004, Biochemistry.

[30]  R. Vallee,et al.  Cytoplasmic dynein binds dynactin through a direct interaction between the intermediate chains and p150Glued , 1995, The Journal of cell biology.

[31]  J. McIntosh,et al.  Cytoplasmic dynein nomenclature , 2005, The Journal of cell biology.

[32]  Richard B. Vallee,et al.  An extended microtubule-binding structure within the dynein motor domain , 1997, Nature.

[33]  S. Snyder,et al.  Structure of the PIN/LC8 dimer with a bound peptide , 1999, Nature Structural Biology.

[34]  J. Sambrook,et al.  Molecular Cloning: A Laboratory Manual , 2001 .

[35]  Nathan A. Baker,et al.  Electrostatics of nanosystems: Application to microtubules and the ribosome , 2001, Proceedings of the National Academy of Sciences of the United States of America.

[36]  A. Strasser,et al.  The proapoptotic activity of the Bcl-2 family member Bim is regulated by interaction with the dynein motor complex. , 1999, Molecular cell.

[37]  J. Leszyk,et al.  Cytoplasmic Dynein Intermediate Chain Phosphorylation Regulates Binding to Dynactin* 210 , 2001, The Journal of Biological Chemistry.

[38]  S. King The dynein microtubule motor. , 2000, Biochimica et biophysica acta.

[39]  J. Albar,et al.  Proteomic identification of brain proteins that interact with dynein light chain LC8 , 2004, Proteomics.

[40]  C. Collins,et al.  Modulation of cytoplasmic dynein ATPase activity by the accessory subunits. , 2001, Cell motility and the cytoskeleton.

[41]  C. Sung,et al.  Localization of Tctex-1, a Cytoplasmic Dynein Light Chain, to the Golgi Apparatus and Evidence for Dynein Complex Heterogeneity* , 1998, The Journal of Biological Chemistry.

[42]  Liyuan Ma,et al.  A general mass spectrometry-based assay for the quantitation of protein-ligand binding interactions in solution. , 2002 .

[43]  T. A. Jones,et al.  A graphics model building and refinement system for macromolecules , 1978 .

[44]  T. Shimosegawa,et al.  PTH/PTH-related protein receptor interacts directly with Tctex-1 through its COOH terminus. , 2003, Biochemical and biophysical research communications.

[45]  M. Sheng,et al.  Gephyrin Interacts with Dynein Light Chains 1 and 2, Components of Motor Protein Complexes , 2002, The Journal of Neuroscience.

[46]  C. Sung,et al.  The dynein light chain Tctex-1 has a dynein-independent role in actin remodeling during neurite outgrowth. , 2005, Developmental cell.

[47]  W. Hendrickson,et al.  Crystal Structure of Dynein Light Chain TcTex-1* , 2005, Journal of Biological Chemistry.

[48]  T. Hays,et al.  Dimerization and folding of LC8, a highly conserved light chain of cytoplasmic dynein. , 2001, Biochemistry.

[49]  S. Snyder,et al.  PIN: An Associated Protein Inhibitor of Neuronal Nitric Oxide Synthase , 1996, Science.

[50]  S. Karki,et al.  PLAC-24 is a cytoplasmic dynein-binding protein that is recruited to sites of cell-cell contact. , 2002, Molecular biology of the cell.

[51]  W A Hendrickson,et al.  Selenomethionyl proteins produced for analysis by multiwavelength anomalous diffraction (MAD): a vehicle for direct determination of three‐dimensional structure. , 1990, The EMBO journal.