Published in Q Rev Biophys on August 01, 2007
Robust, high-throughput solution structural analyses by small angle X-ray scattering (SAXS). Nat Methods (2009) 6.77
Structural mechanism of abscisic acid binding and signaling by dimeric PYR1. Science (2009) 4.41
Mre11 dimers coordinate DNA end bridging and nuclease processing in double-strand-break repair. Cell (2008) 4.26
FoXS: a web server for rapid computation and fitting of SAXS profiles. Nucleic Acids Res (2010) 3.91
Structure and flexibility within proteins as identified through small angle X-ray scattering. Gen Physiol Biophys (2009) 3.24
Accurate assessment of mass, models and resolution by small-angle scattering. Nature (2013) 3.18
Structural basis of RNA recognition and activation by innate immune receptor RIG-I. Nature (2011) 3.05
Asymmetric recognition of the HIV-1 trimer by broadly neutralizing antibody PG9. Proc Natl Acad Sci U S A (2013) 2.96
ModBase, a database of annotated comparative protein structure models, and associated resources. Nucleic Acids Res (2010) 2.96
Nbs1 flexibly tethers Ctp1 and Mre11-Rad50 to coordinate DNA double-strand break processing and repair. Cell (2009) 2.90
Characterizing flexible and intrinsically unstructured biological macromolecules by SAS using the Porod-Debye law. Biopolymers (2011) 2.87
Plant UVR8 photoreceptor senses UV-B by tryptophan-mediated disruption of cross-dimer salt bridges. Science (2012) 2.80
Bridging the solution divide: comprehensive structural analyses of dynamic RNA, DNA, and protein assemblies by small-angle X-ray scattering. Curr Opin Struct Biol (2010) 2.45
Crystal structure of the lysine riboswitch regulatory mRNA element. J Biol Chem (2008) 2.27
UCSF Chimera, MODELLER, and IMP: an integrated modeling system. J Struct Biol (2011) 2.10
Integration of small-angle X-ray scattering data into structural modeling of proteins and their assemblies. J Mol Biol (2008) 2.05
Free state conformational sampling of the SAM-I riboswitch aptamer domain. Structure (2010) 2.02
Mre11-Rad50-Nbs1 conformations and the control of sensing, signaling, and effector responses at DNA double-strand breaks. DNA Repair (Amst) (2010) 1.96
Structural basis for the nucleotide-dependent dimerization of the large G protein atlastin-1/SPG3A. Proc Natl Acad Sci U S A (2011) 1.93
Ku and DNA-dependent protein kinase dynamic conformations and assembly regulate DNA binding and the initial non-homologous end joining complex. J Biol Chem (2009) 1.91
Protein structural dynamics in solution unveiled via 100-ps time-resolved x-ray scattering. Proc Natl Acad Sci U S A (2010) 1.90
SMARCAL1 catalyzes fork regression and Holliday junction migration to maintain genome stability during DNA replication. Genes Dev (2012) 1.85
Accurate SAXS profile computation and its assessment by contrast variation experiments. Biophys J (2013) 1.83
Multidomain assembled states of Hck tyrosine kinase in solution. Proc Natl Acad Sci U S A (2010) 1.79
The structure and conformation of Lys63-linked tetraubiquitin. J Mol Biol (2009) 1.77
Supramolecular coordination: self-assembly of finite two- and three-dimensional ensembles. Chem Rev (2011) 1.76
Riboswitches: structures and mechanisms. Cold Spring Harb Perspect Biol (2011) 1.75
Molecular mechanism by which the nucleoid occlusion factor, SlmA, keeps cytokinesis in check. EMBO J (2010) 1.72
Implementation and performance of SIBYLS: a dual endstation small-angle X-ray scattering and macromolecular crystallography beamline at the Advanced Light Source. J Appl Crystallogr (2013) 1.69
ABC ATPase signature helices in Rad50 link nucleotide state to Mre11 interface for DNA repair. Nat Struct Mol Biol (2011) 1.66
A rapid coarse residue-based computational method for x-ray solution scattering characterization of protein folds and multiple conformational states of large protein complexes. Biophys J (2009) 1.63
Effect of interdomain dynamics on the structure determination of modular proteins by small-angle scattering. Eur Biophys J (2009) 1.62
Practical factors affecting the performance of a thin-film phase plate for transmission electron microscopy. Ultramicroscopy (2008) 1.60
Improving small-angle X-ray scattering data for structural analyses of the RNA world. RNA (2010) 1.60
Structural basis for viral 5'-PPP-RNA recognition by human IFIT proteins. Nature (2013) 1.58
Solution structure of tRNAVal from refinement of homology model against residual dipolar coupling and SAXS data. J Biomol NMR (2008) 1.53
An integrated high-throughput data acquisition system for biological solution X-ray scattering studies. J Synchrotron Radiat (2012) 1.52
Mass spectrometry of membrane transporters reveals subunit stoichiometry and interactions. Nat Methods (2009) 1.51
The structural biochemistry of the superoxide dismutases. Biochim Biophys Acta (2009) 1.50
XRCC4 protein interactions with XRCC4-like factor (XLF) create an extended grooved scaffold for DNA ligation and double strand break repair. J Biol Chem (2011) 1.48
Dimerization of Plasmodium vivax DBP is induced upon receptor binding and drives recognition of DARC. Nat Struct Mol Biol (2011) 1.48
The RIG-I ATPase domain structure reveals insights into ATP-dependent antiviral signalling. EMBO Rep (2011) 1.47
XPB and XPD helicases in TFIIH orchestrate DNA duplex opening and damage verification to coordinate repair with transcription and cell cycle via CAK kinase. DNA Repair (Amst) (2011) 1.45
Structural organization of the functional domains of Clostridium difficile toxins A and B. Proc Natl Acad Sci U S A (2010) 1.44
Simulated x-ray scattering of protein solutions using explicit-solvent models. J Chem Phys (2009) 1.43
Improved fitting of solution X-ray scattering data to macromolecular structures and structural ensembles by explicit water modeling. J Am Chem Soc (2010) 1.40
The molecular basis for the regulation of the cap-binding complex by the importins. Nat Struct Mol Biol (2009) 1.38
Structures of inactive retinoblastoma protein reveal multiple mechanisms for cell cycle control. Genes Dev (2012) 1.37
Allosteric inhibition of complement function by a staphylococcal immune evasion protein. Proc Natl Acad Sci U S A (2010) 1.37
How random are intrinsically disordered proteins? A small angle scattering perspective. Curr Protein Pept Sci (2012) 1.37
XLF regulates filament architecture of the XRCC4·ligase IV complex. Structure (2010) 1.33
Superoxide dismutase from the eukaryotic thermophile Alvinella pompejana: structures, stability, mechanism, and insights into amyotrophic lateral sclerosis. J Mol Biol (2008) 1.32
Human DNA ligase III recognizes DNA ends by dynamic switching between two DNA-bound states. Biochemistry (2010) 1.32
Structural dynamics in DNA damage signaling and repair. Curr Opin Struct Biol (2010) 1.31
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Structural insights into the dynamics and function of the C-terminus of the E. coli RNA chaperone Hfq. Nucleic Acids Res (2011) 1.30
Comprehensive macromolecular conformations mapped by quantitative SAXS analyses. Nat Methods (2013) 1.29
gammaH2A binds Brc1 to maintain genome integrity during S-phase. EMBO J (2010) 1.28
Structural biochemistry of nuclear actin-related proteins 4 and 8 reveals their interaction with actin. EMBO J (2011) 1.28
A functional interaction between gp41 and gp120 is observed for monomeric but not oligomeric, uncleaved HIV-1 Env gp140. J Virol (2013) 1.25
Structure of IL-33 and its interaction with the ST2 and IL-1RAcP receptors--insight into heterotrimeric IL-1 signaling complexes. Structure (2009) 1.24
Mechanism of DNA substrate recognition by the mammalian DNA repair enzyme, Polynucleotide Kinase. Nucleic Acids Res (2009) 1.24
Synchrotron-based small-angle X-ray scattering of proteins in solution. Nat Protoc (2014) 1.22
Solution structure of the ESCRT-I complex by small-angle X-ray scattering, EPR, and FRET spectroscopy. Proc Natl Acad Sci U S A (2011) 1.22
Integrative structural modeling with small angle X-ray scattering profiles. BMC Struct Biol (2012) 1.22
High-throughput SAXS for the characterization of biomolecules in solution: a practical approach. Methods Mol Biol (2014) 1.22
A general protocol for the crystallization of membrane proteins for X-ray structural investigation. Nat Protoc (2009) 1.21
ATP-dependent conformational dynamics underlie the functional asymmetry of the replicative helicase from a minimalist eukaryote. Proc Natl Acad Sci U S A (2012) 1.21
Solution structure, conformational dynamics, and CD4-induced activation in full-length, glycosylated, monomeric HIV gp120. J Virol (2012) 1.21
Divergence of multimodular polyketide synthases revealed by a didomain structure. Nat Chem Biol (2012) 1.20
Metal ion dependence of cooperative collapse transitions in RNA. J Mol Biol (2009) 1.20
AquaSAXS: a web server for computation and fitting of SAXS profiles with non-uniformally hydrated atomic models. Nucleic Acids Res (2011) 1.20
Structural interconversions modulate activity of Escherichia coli ribonucleotide reductase. Proc Natl Acad Sci U S A (2011) 1.19
pH-dependent conformational changes in bacterial Hsp90 reveal a Grp94-like conformation at pH 6 that is highly active in suppression of citrate synthase aggregation. J Mol Biol (2009) 1.19
Molecular structure of low density lipoprotein: current status and future challenges. Eur Biophys J (2008) 1.17
Structural biology: Proteins in dynamic equilibrium. Nature (2010) 1.16
The structure of the CRISPR-associated protein Csa3 provides insight into the regulation of the CRISPR/Cas system. J Mol Biol (2010) 1.16
A molecular insight into complement evasion by the staphylococcal complement inhibitor protein family. J Immunol (2009) 1.16
A preformed binding interface in the unbound ensemble of an intrinsically disordered protein: evidence from molecular simulations. PLoS Comput Biol (2012) 1.15
PqqD is a novel peptide chaperone that forms a ternary complex with the radical S-adenosylmethionine protein PqqE in the pyrroloquinoline quinone biosynthetic pathway. J Biol Chem (2015) 1.14
The bacterial DnaC helicase loader is a DnaB ring breaker. Cell (2013) 1.14
Analysis of PKR structure by small-angle scattering. J Mol Biol (2009) 1.14
ATP-driven Rad50 conformations regulate DNA tethering, end resection, and ATM checkpoint signaling. EMBO J (2014) 1.14
Validation of macromolecular flexibility in solution by small-angle X-ray scattering (SAXS). Eur Biophys J (2012) 1.13
Structural basis for recognition of 5'-phosphotyrosine adducts by Tdp2. Nat Struct Mol Biol (2012) 1.12
A new structural framework for integrating replication protein A into DNA processing machinery. Nucleic Acids Res (2013) 1.12
A split active site couples cap recognition by Dcp2 to activation. Nat Struct Mol Biol (2010) 1.12
Small angle X-ray scattering as a complementary tool for high-throughput structural studies. Biopolymers (2011) 1.12
SoftWAXS: a computational tool for modeling wide-angle X-ray solution scattering from biomolecules. J Appl Crystallogr (2009) 1.11
Biophysical analysis and small-angle X-ray scattering-derived structures of MeCP2-nucleosome complexes. Nucleic Acids Res (2011) 1.11
Insights into FlaI functions in archaeal motor assembly and motility from structures, conformations, and genetics. Mol Cell (2013) 1.09
XRCC4 and XLF form long helical protein filaments suitable for DNA end protection and alignment to facilitate DNA double strand break repair. Biochem Cell Biol (2013) 1.09
Molecular basis of Rrn3-regulated RNA polymerase I initiation and cell growth. Genes Dev (2011) 1.09
Structural insights into the interaction of IL-33 with its receptors. Proc Natl Acad Sci U S A (2013) 1.09
Macromolecular docking restrained by a small angle X-ray scattering profile. J Struct Biol (2010) 1.07
Envisioning the dynamics and flexibility of Mre11-Rad50-Nbs1 complex to decipher its roles in DNA replication and repair. Prog Biophys Mol Biol (2015) 1.07
Solution conformations of prototype foamy virus integrase and its stable synaptic complex with U5 viral DNA. Structure (2012) 1.07
Dengue virus nonstructural protein 5 adopts multiple conformations in solution. Biochemistry (2012) 1.07
Breaking the radiation damage limit with Cryo-SAXS. Biophys J (2013) 1.06
Ca2+ regulation in the Na+/Ca2+ exchanger features a dual electrostatic switch mechanism. Proc Natl Acad Sci U S A (2009) 1.05
Robust, high-throughput solution structural analyses by small angle X-ray scattering (SAXS). Nat Methods (2009) 6.77
Development of an improved four-site water model for biomolecular simulations: TIP4P-Ew. J Chem Phys (2004) 6.09
Structural insights into NEDD8 activation of cullin-RING ligases: conformational control of conjugation. Cell (2008) 6.07
Type IV pilus structure and bacterial pathogenicity. Nat Rev Microbiol (2004) 4.29
Mre11 dimers coordinate DNA end bridging and nuclease processing in double-strand-break repair. Cell (2008) 4.26
FoXS: a web server for rapid computation and fitting of SAXS profiles. Nucleic Acids Res (2010) 3.91
The Rad50 zinc-hook is a structure joining Mre11 complexes in DNA recombination and repair. Nature (2002) 3.48
Type IV pilus structure by cryo-electron microscopy and crystallography: implications for pilus assembly and functions. Mol Cell (2006) 3.36
Structural basis for FEN-1 substrate specificity and PCNA-mediated activation in DNA replication and repair. Cell (2004) 3.33
Structure and flexibility within proteins as identified through small angle X-ray scattering. Gen Physiol Biophys (2009) 3.24
Accurate assessment of mass, models and resolution by small-angle scattering. Nature (2013) 3.18
XPD helicase structures and activities: insights into the cancer and aging phenotypes from XPD mutations. Cell (2008) 3.14
Mre11-Rad50-Nbs1 is a keystone complex connecting DNA repair machinery, double-strand break signaling, and the chromatin template. Biochem Cell Biol (2007) 3.13
Full-length archaeal Rad51 structure and mutants: mechanisms for RAD51 assembly and control by BRCA2. EMBO J (2003) 2.95
Nbs1 flexibly tethers Ctp1 and Mre11-Rad50 to coordinate DNA double-strand break processing and repair. Cell (2009) 2.90
Characterizing flexible and intrinsically unstructured biological macromolecules by SAS using the Porod-Debye law. Biopolymers (2011) 2.87
DNA binding and nucleotide flipping by the human DNA repair protein AGT. Nat Struct Mol Biol (2004) 2.86
Structures of SPOP-substrate complexes: insights into molecular architectures of BTB-Cul3 ubiquitin ligases. Mol Cell (2009) 2.84
Type IV pilin structure and assembly: X-ray and EM analyses of Vibrio cholerae toxin-coregulated pilus and Pseudomonas aeruginosa PAK pilin. Mol Cell (2003) 2.78
SUMO-targeted ubiquitin ligases in genome stability. EMBO J (2007) 2.77
Microbial metalloproteomes are largely uncharacterized. Nature (2010) 2.62
Bridging the solution divide: comprehensive structural analyses of dynamic RNA, DNA, and protein assemblies by small-angle X-ray scattering. Curr Opin Struct Biol (2010) 2.45
Human flap endonuclease structures, DNA double-base flipping, and a unified understanding of the FEN1 superfamily. Cell (2011) 2.44
ATM regulates Mre11-dependent DNA end-degradation and microhomology-mediated end joining. Cell Cycle (2010) 2.32
Structural basis for isozyme-specific regulation of electron transfer in nitric-oxide synthase. J Biol Chem (2004) 2.28
Human ABH3 structure and key residues for oxidative demethylation to reverse DNA/RNA damage. EMBO J (2006) 2.27
The intricate structural chemistry of base excision repair machinery: implications for DNA damage recognition, removal, and repair. DNA Repair (Amst) (2007) 2.26
A flexible interface between DNA ligase and PCNA supports conformational switching and efficient ligation of DNA. Mol Cell (2006) 2.23
DNA base damage recognition and removal: new twists and grooves. Mutat Res (2005) 2.21
The DNA repair endonuclease XPG interacts directly and functionally with the WRN helicase defective in Werner syndrome. Cell Cycle (2011) 2.15
Conserved XPB core structure and motifs for DNA unwinding: implications for pathway selection of transcription or excision repair. Mol Cell (2006) 2.13
Identification of a new cryptochrome class. Structure, function, and evolution. Mol Cell (2003) 2.11
A SIM-ultaneous role for SUMO and ubiquitin. Trends Biochem Sci (2008) 2.05
Mre11-Rad50-Nbs1 conformations and the control of sensing, signaling, and effector responses at DNA double-strand breaks. DNA Repair (Amst) (2010) 1.96
Rad50/SMC proteins and ABC transporters: unifying concepts from high-resolution structures. Curr Opin Struct Biol (2003) 1.93
Ku and DNA-dependent protein kinase dynamic conformations and assembly regulate DNA binding and the initial non-homologous end joining complex. J Biol Chem (2009) 1.91
MDB: the Metalloprotein Database and Browser at The Scripps Research Institute. Nucleic Acids Res (2002) 1.89
Recognition of RNA polymerase II and transcription bubbles by XPG, CSB, and TFIIH: insights for transcription-coupled repair and Cockayne Syndrome. Mol Cell (2005) 1.89
Accurate SAXS profile computation and its assessment by contrast variation experiments. Biophys J (2013) 1.83
ALS mutants of human superoxide dismutase form fibrous aggregates via framework destabilization. J Mol Biol (2003) 1.82
The structure and conformation of Lys63-linked tetraubiquitin. J Mol Biol (2009) 1.77
Hexameric structures of the archaeal secretion ATPase GspE and implications for a universal secretion mechanism. EMBO J (2007) 1.77
DNA charge transport as a first step in coordinating the detection of lesions by repair proteins. Proc Natl Acad Sci U S A (2012) 1.71
A structural model for regulation of NHEJ by DNA-PKcs autophosphorylation. DNA Repair (Amst) (2010) 1.71
Flipping of alkylated DNA damage bridges base and nucleotide excision repair. Nature (2009) 1.70
Implementation and performance of SIBYLS: a dual endstation small-angle X-ray scattering and macromolecular crystallography beamline at the Advanced Light Source. J Appl Crystallogr (2013) 1.69
DNA double-strand break repair from head to tail. Curr Opin Struct Biol (2002) 1.67
ABC ATPase signature helices in Rad50 link nucleotide state to Mre11 interface for DNA repair. Nat Struct Mol Biol (2011) 1.66
Nickel superoxide dismutase structure and mechanism. Biochemistry (2004) 1.66
Three-dimensional structure of the KChIP1-Kv4.3 T1 complex reveals a cross-shaped octamer. Nat Struct Mol Biol (2006) 1.64
Improving small-angle X-ray scattering data for structural analyses of the RNA world. RNA (2010) 1.60
Crosstalk between primase subunits can act to regulate primer synthesis in trans. Mol Cell (2005) 1.57
Enhancement of RAD51 recombinase activity by the tumor suppressor PALB2. Nat Struct Mol Biol (2010) 1.55
WRN exonuclease structure and molecular mechanism imply an editing role in DNA end processing. Nat Struct Mol Biol (2006) 1.55
XRCC4 protein interactions with XRCC4-like factor (XLF) create an extended grooved scaffold for DNA ligation and double strand break repair. J Biol Chem (2011) 1.48
Protein mimicry of DNA and pathway regulation. DNA Repair (Amst) (2005) 1.46
DNA apurinic-apyrimidinic site binding and excision by endonuclease IV. Nat Struct Mol Biol (2008) 1.46
XPB and XPD helicases in TFIIH orchestrate DNA duplex opening and damage verification to coordinate repair with transcription and cell cycle via CAK kinase. DNA Repair (Amst) (2011) 1.45
Mechanism and energetics of green fluorescent protein chromophore synthesis revealed by trapped intermediate structures. Proc Natl Acad Sci U S A (2003) 1.41
Report of the wwPDB Small-Angle Scattering Task Force: data requirements for biomolecular modeling and the PDB. Structure (2013) 1.39
Atg8 transfer from Atg7 to Atg3: a distinctive E1-E2 architecture and mechanism in the autophagy pathway. Mol Cell (2011) 1.38
Structures of inactive retinoblastoma protein reveal multiple mechanisms for cell cycle control. Genes Dev (2012) 1.37
Allosteric inhibition of complement function by a staphylococcal immune evasion protein. Proc Natl Acad Sci U S A (2010) 1.37
Proliferating cell nuclear antigen loaded onto double-stranded DNA: dynamics, minor groove interactions and functional implications. Nucleic Acids Res (2006) 1.37
Structural basis for endothelial nitric oxide synthase binding to calmodulin. EMBO J (2003) 1.37
Functional motifs in the (6-4) photolyase crystal structure make a comparative framework for DNA repair photolyases and clock cryptochromes. Proc Natl Acad Sci U S A (2009) 1.36
Super-resolution in solution X-ray scattering and its applications to structural systems biology. Annu Rev Biophys (2013) 1.36
DNA binding, nucleotide flipping, and the helix-turn-helix motif in base repair by O6-alkylguanine-DNA alkyltransferase and its implications for cancer chemotherapy. DNA Repair (Amst) (2007) 1.36
XLF regulates filament architecture of the XRCC4·ligase IV complex. Structure (2010) 1.33
Human DNA ligase III recognizes DNA ends by dynamic switching between two DNA-bound states. Biochemistry (2010) 1.32
Superoxide dismutase from the eukaryotic thermophile Alvinella pompejana: structures, stability, mechanism, and insights into amyotrophic lateral sclerosis. J Mol Biol (2008) 1.32
Structural dynamics in DNA damage signaling and repair. Curr Opin Struct Biol (2010) 1.31
Cloning, expression, and characterization of a nitric oxide synthase protein from Deinococcus radiodurans. Proc Natl Acad Sci U S A (2001) 1.30
Comprehensive macromolecular conformations mapped by quantitative SAXS analyses. Nat Methods (2013) 1.29
gammaH2A binds Brc1 to maintain genome integrity during S-phase. EMBO J (2010) 1.28
Mechanism of ubiquitin ligation and lysine prioritization by a HECT E3. Elife (2013) 1.27
Structural characterization of zinc-deficient human superoxide dismutase and implications for ALS. J Mol Biol (2007) 1.26
Structures of endonuclease V with DNA reveal initiation of deaminated adenine repair. Nat Struct Mol Biol (2009) 1.26
A novel processive mechanism for DNA synthesis revealed by structure, modeling and mutagenesis of the accessory subunit of human mitochondrial DNA polymerase. J Mol Biol (2006) 1.25
Anchored plasticity opens doors for selective inhibitor design in nitric oxide synthase. Nat Chem Biol (2008) 1.25
High-throughput SAXS for the characterization of biomolecules in solution: a practical approach. Methods Mol Biol (2014) 1.22
Structural analysis of flexible proteins in solution by small angle X-ray scattering combined with crystallography. J Struct Biol (2006) 1.21
The C-terminal domain of yeast PCNA is required for physical and functional interactions with Cdc9 DNA ligase. Nucleic Acids Res (2007) 1.21
Conformational trapping of mismatch recognition complex MSH2/MSH3 on repair-resistant DNA loops. Proc Natl Acad Sci U S A (2011) 1.21