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Structure - Resources

Publications - last updated July, 2010

2010 | 2009 | 2008 | 2007 | 2006 | 2005 | 2004 | 2003 | 2002

  • Geblinger D, Addadi L, Geiger B. Nano-topography sensing by osteoclasts. J. Cell. Sci. 2010; 123:1503-10 PubMed | CMC Update Article.
  • Goult BT, Bouaouina M, Elliott PR, Bate N, Patel B, Gingras AR, Grossmann JG, Roberts GC, Calderwood DA, Critchley DR, Barsukov IL. Structure of a double ubiquitin-like domain in the talin head: a role in integrin activation. EMBO J 2010; PubMed | CMC Update Article.
  • Goult BT, Gingras AR, Bate N, Barsukov IL, Critchley DR, Roberts GC. The domain structure of talin: residues 1815-1973 form a five-helix bundle containing a cryptic vinculin-binding site. FEBS Lett. 2010; 584:2237-41 PubMed.
  • Premkumar L, Bobkov AA, Patel M, Jaroszewski L, Bankston LA, Stec B, Vuori K, Côté JF, Liddington RC. Structural basis of membrane-targeting by the Dock180 family of Rho-family guanine exchange factors (RhoGEFs). J Biol Chem 2010; PubMed | CMC Update Article.
  • Ye F, Hu G, Taylor D, Ratnikov B, Bobkov AA, McLean MA, Sligar SG, Taylor KA, Ginsberg MH. Recreation of the terminal events in physiological integrin activation. J Cell Biol 2010; PubMed | CMC Update Article.
  • Zaidel-Bar R, Geiger B. The switchable integrin adhesome. J. Cell. Sci. 2010; 123:1385-8 PubMed.

2010 | 2009 | 2008 | 2007 | 2006 | 2005 | 2004 | 2003 | 2002

  • Anthis NJ, Haling JR, Oxley CL, Memo M, Wegener KL, Lim CJ, Ginsberg MH, Campbell ID. {beta} integrin tyrosine phosphorylation is a conserved mechanism for regulating talin-induced integrin activation. J. Biol. Chem. 2009; PubMed | CMC Update Article.
  • Anthis NJ, Wegener KL, Ye F, Kim C, Goult BT, Lowe ED, Vakonakis I, Bate N, Critchley DR, Ginsberg MH, Campbell ID. The structure of an integrin/talin complex reveals the basis of inside-out signal transduction. EMBO J. 2009; PubMed | CMC Update Article.
  • Geblinger D, Geiger B, Addadi L. Surface-induced regulation of podosome organization and dynamics in cultured osteoclasts. Chembiochem 2009; 10:158-65 PubMed | CMC Update Article.
  • Gingras AR, Ziegler WH, Bobkov AA, Joyce MG, Fasci D, Himmel M, Rothemund S, Ritter A, Grossmann JG, Patel B, Bate N, Goult BT, Emsley J, Barsukov IL, Roberts GC, Liddington RC, Ginsberg MH, Critchley DR. Structural determinants of integrin binding to the talin rod. J. Biol. Chem. 2009; 284:8866-76 PubMed.
  • Goult BT, Bate N, Anthis NJ, Wegener KL, Gingras AR, Patel B, Barsukov IL, Campbell ID, Roberts GC, Critchley DR. The structure of an interdomain complex that regulates talin activity. J. Biol. Chem. 2009; 284:15097-106 PubMed | CMC Update Article.
  • Goult BT, Bouaouina M, Harburger DS, Bate N, Patel B, Anthis NJ, Campbell ID, Calderwood DA, Barsukov IL, Roberts GC, Critchley DR. The structure of the N-terminus of kindlin-1: a domain important for alphaiibbeta3 integrin activation. J. Mol. Biol. 2009; 394:944-56 PubMed | CMC Update Article.
  • Lee HS, Lim CJ, Puzon-McLaughlin W, Shattil SJ, Ginsberg MH. RIAM activates integrins by linking talin to ras GTPase membrane-targeting sequences. J. Biol. Chem. 2009; 284:5119-27 PubMed.
  • Winkler H, Zhu P, Liu J, Ye F, Roux KH, Taylor KA. Tomographic subvolume alignment and subvolume classification applied to myosin V and SIV envelope spikes. J. Struct. Biol. 2009; 165:64-77 PubMed.

2010 | 2009 | 2008 | 2007 | 2006 | 2005 | 2004 | 2003 | 2002

  • Auer M, Koster AJ, Ziese U, Bajaj C, Volkmann N, Wang da N, Hudspeth AJ. Three-dimensional architecture of hair-bundle linkages revealed by electron-microscopic tomography. J. Assoc. Res. Otolaryngol. 2008; 9:215-24 PubMed.
  • Campbell ID. Studies of focal adhesion assembly. Biochem. Soc. Trans. 2008; 36:263-6 PubMed | CMC Update Article.
  • Garduño E, Wong-Barnum M, Volkmann N, Ellisman MH. Segmentation of electron tomographic data sets using fuzzy set theory principles. J. Struct. Biol. 2008; 162:368-79 PubMed.
  • Gingras AR, Bate N, Goult BT, Hazelwood L, Canestrelli I, Grossmann JG, Liu H, Putz NS, Roberts GC, Volkmann N, Hanein D, Barsukov IL, Critchley DR. The structure of the C-terminal actin-binding domain of talin. EMBO J. 2008; 27:458-69 PubMed | CMC Update Article.
  • Hampton CM, Liu J, Taylor DW, DeRosier DJ, Taylor KA. The 3D structure of villin as an unusual F-Actin crosslinker. Structure 2008; 16:1882-91 PubMed | CMC Update Article.
  • Leone M, Yu EC, Liddington RC, Pasquale EB, Pellecchia M. The PTB domain of tensin: NMR solution structure and phosphoinositides binding studies. Biopolymers 2008; 89:86-92 PubMed | CMC Update Article.
  • Miao L, Vanderlinde O, Liu J, Grant RP, Wouterse A, Shimabukuro K, Philipse A, Stewart M, Roberts TM. The role of filament-packing dynamics in powering amoeboid cell motility. Proc. Natl. Acad. Sci. U.S.A. 2008; 105:5390-5 PubMed.
  • Oxley CL, Anthis NJ, Lowe ED, Vakonakis I, Campbell ID, Wegener KL. An integrin phosphorylation switch: the effect of beta3 integrin tail phosphorylation on Dok1 and talin binding. J. Biol. Chem. 2008; 283:5420-6 PubMed | CMC Update Article.
  • Rouiller I, Xu XP, Amann KJ, Egile C, Nickell S, Nicastro D, Li R, Pollard TD, Volkmann N, Hanein D. The structural basis of actin filament branching by the Arp2/3 complex. J. Cell Biol. 2008; 180:887-95 PubMed | CMC Update Article.
  • Wegener KL, Basran J, Bagshaw CR, Campbell ID, Roberts GC, Critchley DR, Barsukov IL. Structural basis for the interaction between the cytoplasmic domain of the hyaluronate receptor layilin and the talin F3 subdomain. J. Mol. Biol. 2008; 382:112-26 PubMed.
  • Wegener KL, Campbell ID. Transmembrane and cytoplasmic domains in integrin activation and protein-protein interactions (review). Mol. Membr. Biol. 2008; 25:376-87 PubMed | CMC Update Article.
  • Ye F, Liu J, Winkler H, Taylor KA. Integrin alpha IIb beta 3 in a membrane environment remains the same height after Mn2+ activation when observed by cryoelectron tomography. J. Mol. Biol. 2008; 378:976-86 PubMed | CMC Update Article.

2010 | 2009 | 2008 | 2007 | 2006 | 2005 | 2004 | 2003 | 2002

  • Applewhite DA, Barzik M, Kojima S, Svitkina TM, Gertler FB, Borisy GG. Ena/VASP proteins have an anti-capping independent function in filopodia formation. Mol. Biol. Cell 2007; 18:2579-91 PubMed.
  • Hampton CM, Taylor DW, Taylor KA. Novel structures for alpha-actinin:F-actin interactions and their implications for actin-membrane attachment and tension sensing in the cytoskeleton. J. Mol. Biol. 2007; 368:92-104 PubMed | CMC Update Article.
  • Lad Y, Kiema T, Jiang P, Pentikäinen OT, Coles CH, Campbell ID, Calderwood DA, Ylänne J. Structure of three tandem filamin domains reveals auto-inhibition of ligand binding. EMBO J. 2007; 26:3993-4004 PubMed.
  • Lowey S, Saraswat LD, Liu H, Volkmann N, Hanein D. Evidence for an interaction between the SH3 domain and the N-terminal extension of the essential light chain in class II myosins. J. Mol. Biol. 2007; 371:902-13 PubMed.
  • Luxenburg C, Geblinger D, Klein E, Anderson K, Hanein D, Geiger B, Addadi L. The architecture of the adhesive apparatus of cultured osteoclasts: from podosome formation to sealing zone assembly. PLoS ONE 2007; 2:e179 PubMed | CMC Update Article.
  • McCleverty CJ, Lin DC, Liddington RC. Structure of the PTB domain of tensin1 and a model for its recruitment to fibrillar adhesions. Protein Sci. 2007; 16:1223-9 PubMed | CMC Update Article.
  • Petrich BG, Fogelstrand P, Partridge AW, Yousefi N, Ablooglu AJ, Shattil SJ, Ginsberg MH. The antithrombotic potential of selective blockade of talin-dependent integrin alpha IIb beta 3 (platelet GPIIb-IIIa) activation. J. Clin. Invest. 2007; 117:2250-9 PubMed | CMC Update Article.
  • Petrich BG, Marchese P, Ruggeri ZM, Spiess S, Weichert RA, Ye F, Tiedt R, Skoda RC, Monkley SJ, Critchley DR, Ginsberg MH. Talin is required for integrin-mediated platelet function in hemostasis and thrombosis. J. Exp. Med. 2007; 204:3103-11 PubMed | CMC Update Article.
  • Prager GW, Féral CC, Kim C, Han J, Ginsberg MH. CD98hc (SLC3A2) interaction with the integrin beta subunit cytoplasmic domain mediates adhesive signaling. J. Biol. Chem. 2007; 282:24477-84 PubMed.
  • Taylor DW, Kelly DF, Cheng A, Taylor KA. On the freezing and identification of lipid monolayer 2-D arrays for cryoelectron microscopy. J. Struct. Biol. 2007; 160:305-12 PubMed | CMC Update Article.
  • Trybus KM, Gushchin MI, Lui H, Hazelwood L, Krementsova EB, Volkmann N, Hanein D. Effect of calcium on calmodulin bound to the IQ motifs of myosin V. J. Biol. Chem. 2007; 282:23316-25 PubMed.
  • van der Heide P, Xu XP, Marsh BJ, Hanein D, Volkmann N. Efficient automatic noise reduction of electron tomographic reconstructions based on iterative median filtering. J. Struct. Biol. 2007; 158:196-204 PubMed | CMC Update Article.
  • Volkmann N, Lui H, Hazelwood L, Trybus KM, Lowey S, Hanein D. The R403Q myosin mutation implicated in familial hypertrophic cardiomyopathy causes disorder at the actomyosin interface. PLoS ONE 2007; 2:e1123 PubMed.
  • Wegener KL, Partridge AW, Han J, Pickford AR, Liddington RC, Ginsberg MH, Campbell ID. Structural basis of integrin activation by talin. Cell 2007; 128:171-82 PubMed | CMC Update Article.

2010 | 2009 | 2008 | 2007 | 2006 | 2005 | 2004 | 2003 | 2002

  • Gingras AR, Vogel KP, Steinhoff HJ, Ziegler WH, Patel B, Emsley J, Critchley DR, Roberts GC, Barsukov IL. Structural and dynamic characterization of a vinculin binding site in the talin rod. Biochemistry 2006; 45:1805-17 PubMed.
  • Harris ES, Rouiller I, Hanein D, Higgs HN. Mechanistic differences in actin bundling activity of two mammalian formins, FRL1 and mDia2. J. Biol. Chem. 2006; 281:14383-92 PubMed.
  • Iber D, Campbell ID. Integrin activation--the importance of a positive feedback. Bull. Math. Biol. 2006; 68:945-56 PubMed.
  • Janssen ME, Kim E, Liu H, Fujimoto LM, Bobkov A, Volkmann N, Hanein D. Three-dimensional structure of vinculin bound to actin filaments. Mol. Cell 2006; 21:271-81 PubMed | CMC Update Article.
  • Kelly DF, Taylor DW, Bakolitsa C, Bobkov AA, Bankston L, Liddington RC, Taylor KA. Structure of the alpha-actinin-vinculin head domain complex determined by cryo-electron microscopy. J. Mol. Biol. 2006; 357:562-73 PubMed.
  • Kiema T, Lad Y, Jiang P, Oxley CL, Baldassarre M, Wegener KL, Campbell ID, Ylänne J, Calderwood DA. The molecular basis of filamin binding to integrins and competition with talin. Mol. Cell 2006; 21:337-47 PubMed | CMC Update Article.
  • Liu J, Taylor DW, Krementsova EB, Trybus KM, Taylor KA. Three-dimensional structure of the myosin V inhibited state by cryoelectron tomography. Nature 2006; 442:208-11 PubMed | CMC Update Article.
  • Luxenburg C, Addadi L, Geiger B. The molecular dynamics of osteoclast adhesions. Eur. J. Cell Biol. 2006; 85:203-11 PubMed | CMC Update Article.
  • Luxenburg C, Parsons JT, Addadi L, Geiger B. Involvement of the Src-cortactin pathway in podosome formation and turnover during polarization of cultured osteoclasts. J. Cell. Sci. 2006; 119:4878-88 PubMed | CMC Update Article.
  • Patel B, Gingras AR, Bobkov AA, Fujimoto LM, Zhang M, Liddington RC, Mazzeo D, Emsley J, Roberts GC, Barsukov IL, Critchley DR. The activity of the vinculin binding sites in talin is influenced by the stability of the helical bundles that make up the talin rod. J. Biol. Chem. 2006; 281:7458-67 PubMed.
  • Saunders RM, Holt MR, Jennings L, Sutton DH, Barsukov IL, Bobkov A, Liddington RC, Adamson EA, Dunn GA, Critchley DR. Role of vinculin in regulating focal adhesion turnover. Eur. J. Cell Biol. 2006; 85:487-500 PubMed.
  • Winkler H, Taylor KA. Accurate marker-free alignment with simultaneous geometry determination and reconstruction of tilt series in electron tomography. Ultramicroscopy 2006; 106:240-54 PubMed.
  • Ziegler WH, Liddington RC, Critchley DR. The structure and regulation of vinculin. Trends Cell Biol. 2006; 16:453-60 PubMed | CMC Update Article.

2010 | 2009 | 2008 | 2007 | 2006 | 2005 | 2004 | 2003 | 2002

  • Barzik M, Kotova TI, Higgs HN, Hazelwood L, Hanein D, Gertler FB, Schafer DA. Ena/VASP proteins enhance actin polymerization in the presence of barbed end capping proteins. J. Biol. Chem. 2005; 280:28653-62 PubMed.
  • de Pereda JM, Wegener KL, Santelli E, Bate N, Ginsberg MH, Critchley DR, Campbell ID, Liddington RC. Structural basis for phosphatidylinositol phosphate kinase type Igamma binding to talin at focal adhesions. J. Biol. Chem. 2005; 280:8381-6 PubMed | CMC Update Article.
  • Egile C, Rouiller I, Xu XP, Volkmann N, Li R, Hanein D. Mechanism of filament nucleation and branch stability revealed by the structure of the Arp2/3 complex at actin branch junctions. PLoS Biol. 2005; 3:e383 PubMed | CMC Update Article.
  • Gingras AR, Ziegler WH, Frank R, Barsukov IL, Roberts GC, Critchley DR, Emsley J. Mapping and consensus sequence identification for multiple vinculin binding sites within the talin rod. J. Biol. Chem. 2005; 280:37217-24 PubMed.
  • Gupton SL, Anderson KL, Kole TP, Fischer RS, Ponti A, Hitchcock-DeGregori SE, Danuser G, Fowler VM, Wirtz D, Hanein D, Waterman-Storer CM. Cell migration without a lamellipodium: translation of actin dynamics into cell movement mediated by tropomyosin. J. Cell Biol. 2005; 168:619-31 PubMed | CMC Update Article.
  • Kelly DF, Taylor KA. Identification of the beta1-integrin binding site on alpha-actinin by cryoelectron microscopy. J. Struct. Biol. 2005; 149:290-302 PubMed | CMC Update Article.
  • Martin AC, Xu XP, Rouiller I, Kaksonen M, Sun Y, Belmont L, Volkmann N, Hanein D, Welch M, Drubin DG. Effects of Arp2 and Arp3 nucleotide-binding pocket mutations on Arp2/3 complex function. J. Cell Biol. 2005; 168:315-28 PubMed | CMC Update Article.
  • Volkmann N, Liu H, Hazelwood L, Krementsova EB, Lowey S, Trybus KM, Hanein D. The structural basis of myosin V processive movement as revealed by electron cryomicroscopy. Mol. Cell 2005; 19:595-605 PubMed | CMC Update Article.

2010 | 2009 | 2008 | 2007 | 2006 | 2005 | 2004 | 2003 | 2002

  • Bakolitsa C, Cohen DM, Bankston LA, Bobkov AA, Cadwell GW, Jennings L, Critchley DR, Craig SW, Liddington RC. Structural basis for vinculin activation at sites of cell adhesion. Nature 2004; 430:583-6 PubMed | CMC Update Article.
  • Biyasheva A, Svitkina T, Kunda P, Baum B, Borisy G. Cascade pathway of filopodia formation downstream of SCAR. J. Cell. Sci. 2004; 117:837-48 PubMed.
  • Campbell ID, Ginsberg MH. The talin-tail interaction places integrin activation on FERM ground. Trends Biochem. Sci. 2004; 29:429-35 PubMed.
  • Jeng RL, Goley ED, D'Alessio JA, Chaga OY, Svitkina TM, Borisy GG, Heinzen RA, Welch MD. A Rickettsia WASP-like protein activates the Arp2/3 complex and mediates actin-based motility. Cell. Microbiol. 2004; 6:761-9 PubMed.
  • Lebrand C, Dent EW, Strasser GA, Lanier LM, Krause M, Svitkina TM, Borisy GG, Gertler FB. Critical role of Ena/VASP proteins for filopodia formation in neurons and in function downstream of netrin-1. Neuron 2004; 42:37-49 PubMed.
  • Lee HS, Bellin RM, Walker DL, Patel B, Powers P, Liu H, Garcia-Alvarez B, de Pereda JM, Liddington RC, Volkmann N, Hanein D, Critchley DR, Robson RM. Characterization of an actin-binding site within the talin FERM domain. J. Mol. Biol. 2004; 343:771-84 PubMed.
  • Liu J, Taylor DW, Taylor KA. A 3-D reconstruction of smooth muscle alpha-actinin by CryoEm reveals two different conformations at the actin-binding region. J. Mol. Biol. 2004; 338:115-25 PubMed.
  • Mejillano MR, Kojima S, Applewhite DA, Gertler FB, Svitkina TM, Borisy GG. Lamellipodial versus filopodial mode of the actin nanomachinery: pivotal role of the filament barbed end. Cell 2004; 118:363-73 PubMed.

2010 | 2009 | 2008 | 2007 | 2006 | 2005 | 2004 | 2003 | 2002

  • Calderwood DA, Fujioka Y, de Pereda JM, García-Alvarez B, Nakamoto T, Margolis B, McGlade CJ, Liddington RC, Ginsberg MH. Integrin beta cytoplasmic domain interactions with phosphotyrosine-binding domains: a structural prototype for diversity in integrin signaling. Proc. Natl. Acad. Sci. U.S.A. 2003; 100:2272-7 PubMed.
  • Calderwood DA, Ginsberg MH. Talin forges the links between integrins and actin. Nat. Cell Biol. 2003; 5:694-7 PubMed.
  • García-Alvarez B, de Pereda JM, Calderwood DA, Ulmer TS, Critchley D, Campbell ID, Ginsberg MH, Liddington RC. Structural determinants of integrin recognition by talin. Mol. Cell 2003; 11:49-58 PubMed.
  • Liddington RC, Bankston LA, de Pereda JM. Cell adhesion: a FERM grasp of membrane dynamics. Curr. Biol. 2003; 13:R94-5 PubMed.
  • Pollard TD, Borisy GG. Cellular motility driven by assembly and disassembly of actin filaments. Cell 2003; 112:453-65 PubMed.
  • Svitkina TM, Bulanova EA, Chaga OY, Vignjevic DM, Kojima S, Vasiliev JM, Borisy GG. Mechanism of filopodia initiation by reorganization of a dendritic network. J. Cell Biol. 2003; 160:409-21 PubMed.
  • Ulmer TS, Calderwood DA, Ginsberg MH, Campbell ID. Domain-specific interactions of talin with the membrane-proximal region of the integrin beta3 subunit. Biochemistry 2003; 42:8307-12 PubMed.
  • Verkhovsky AB, Chaga OY, Schaub S, Svitkina TM, Meister JJ, Borisy GG. Orientational order of the lamellipodial actin network as demonstrated in living motile cells. Mol. Biol. Cell 2003; 14:4667-75 PubMed.
  • Vignjevic D, Yarar D, Welch MD, Peloquin J, Svitkina T, Borisy GG. Formation of filopodia-like bundles in vitro from a dendritic network. J. Cell Biol. 2003; 160:951-62 PubMed.
  • Volkmann N, Hanein D. Electron microscopy. Methods Biochem Anal 2003; 44:115-33 PubMed.
  • Volkmann N, Hanein D. Docking of atomic models into reconstructions from electron microscopy. Meth. Enzymol. 2003; 374:204-25 PubMed.
  • Volkmann N, Ouyang G, Trybus KM, DeRosier DJ, Lowey S, Hanein D. Myosin isoforms show unique conformations in the actin-bound state. Proc. Natl. Acad. Sci. U.S.A. 2003; 100:3227-32 PubMed.

2010 | 2009 | 2008 | 2007 | 2006 | 2005 | 2004 | 2003 | 2002

  • Bear JE, Svitkina TM, Krause M, Schafer DA, Loureiro JJ, Strasser GA, Maly IV, Chaga OY, Cooper JA, Borisy GG, Gertler FB. Antagonism between Ena/VASP proteins and actin filament capping regulates fibroblast motility. Cell 2002; 109:509-21 PubMed.
  • Calderwood DA, Yan B, de Pereda JM, Alvarez BG, Fujioka Y, Liddington RC, Ginsberg MH. The phosphotyrosine binding-like domain of talin activates integrins. J. Biol. Chem. 2002; 277:21749-58 PubMed.
  • Hayashi I, Vuori K, Liddington RC. The focal adhesion targeting (FAT) region of focal adhesion kinase is a four-helix bundle that binds paxillin. Nat. Struct. Biol. 2002; 9:101-6 PubMed.
  • Liddington RC, Ginsberg MH. Integrin activation takes shape. J. Cell Biol. 2002; 158:833-9 PubMed | CMC Update Article.
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Software

Volkmann Lab

  • Click here to go to the CoAn site, which provides a framework designed to facilitate data analysis. It currently consists of a collection of command-line executables, each of which performs a relatively simple task. These can be strung together in various ways to allow a certain type of analysis such as segmentation, denoising, or docking of atomic models into a density. Some of these packages are available for public download, (CoFi - Correlation based Fitting, CoDiv - Continental Divide Watershed Segmentation, iMed - iterative Median Filtering).
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Links

  • NCBI's Structure site provides software (3-D structure viewer) as a helper application for your web browser, allowing you to interactively view 3-D structures, sequences, and sequence alignments. Cn3D is available for Windows, MacOS, and Unix. The NCBI Molecular Modelling Database (MMDB) contains over 20,000 3-D macromolecular structures, including proteins and polynucleotides and is linked to the rest of the NCBI databases, including sequences, bibliographic citations, taxonomic classifications, and sequence and structure neighbors.
  • Protein Data Bank is the single worldwide repository for the processing and distribution of 3-D structure data of large molecules of proteins and nucleic acids. New structures are released each Wednesday by 1:00am Pacific time.
  • Research Collaboratory for Structural Bioinformatics (RCSB) is a non-profit consortium dedicated to improving understanding of the function of biological systems through the study of the 3-D structure of biological macromolecules. RCSB members work cooperatively and equally through joint grants and subsequently provide free public resources and publications to assist others and further the fields of bioinformatics and biology.
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