Recent developments in the PHENIX software for automated crystallographic structure determination.

Phaser crystallographic software. J Appl Crystallogr (2007) 108.34

Surprises and pitfalls arising from (pseudo)symmetry. Acta Crystallogr D Biol Crystallogr (2007) 4.44

Structure of HIV-1 gp120 with gp41-interactive region reveals layered envelope architecture and basis of conformational mobility. Proc Natl Acad Sci U S A (2009) 3.92

Developmental pathway for potent V1V2-directed HIV-neutralizing antibodies. Nature (2014) 3.73

Structure and immune recognition of trimeric pre-fusion HIV-1 Env. Nature (2014) 3.50

Crystal structure of PG16 and chimeric dissection with somatically related PG9: structure-function analysis of two quaternary-specific antibodies that effectively neutralize HIV-1. J Virol (2010) 3.40

Structure and rearrangements in the carboxy-terminal region of SpIH channels. Structure (2007) 3.09

A general method for phasing novel complex RNA crystal structures without heavy-atom derivatives. Acta Crystallogr D Biol Crystallogr (2008) 3.06

The crystal structure of mouse VDAC1 at 2.3 A resolution reveals mechanistic insights into metabolite gating. Proc Natl Acad Sci U S A (2008) 2.82

The protective antigen component of anthrax toxin forms functional octameric complexes. J Mol Biol (2009) 2.69

Unliganded HIV-1 gp120 core structures assume the CD4-bound conformation with regulation by quaternary interactions and variable loops. Proc Natl Acad Sci U S A (2012) 2.69

Capturing hammerhead ribozyme structures in action by modulating general base catalysis. PLoS Biol (2008) 1.95

Regulation of response regulator autophosphorylation through interdomain contacts. J Biol Chem (2010) 1.85

tRNA-mRNA mimicry drives translation initiation from a viral IRES. Nat Struct Mol Biol (2007) 1.84

The Corynebacterium diphtheriae shaft pilin SpaA is built of tandem Ig-like modules with stabilizing isopeptide and disulfide bonds. Proc Natl Acad Sci U S A (2009) 1.79

A general strategy to solve the phase problem in RNA crystallography. Structure (2007) 1.74

Crystal structure of human antibody 2909 reveals conserved features of quaternary structure-specific antibodies that potently neutralize HIV-1. J Virol (2010) 1.70

Structure of the Ire1 autophosphorylation complex and implications for the unfolded protein response. EMBO J (2011) 1.65

Crystal structure, conformational fixation and entry-related interactions of mature ligand-free HIV-1 Env. Nat Struct Mol Biol (2015) 1.64

Structural basis for the unfolding of anthrax lethal factor by protective antigen oligomers. Nat Struct Mol Biol (2010) 1.62

Basis of altered RNA-binding specificity by PUF proteins revealed by crystal structures of yeast Puf4p. Nat Struct Mol Biol (2008) 1.62

The mechanism of patellamide macrocyclization revealed by the characterization of the PatG macrocyclase domain. Nat Struct Mol Biol (2012) 1.53

Crystal structures of Mycobacterium tuberculosis KasA show mode of action within cell wall biosynthesis and its inhibition by thiolactomycin. Structure (2009) 1.50

A 5' cytosine binding pocket in Puf3p specifies regulation of mitochondrial mRNAs. Proc Natl Acad Sci U S A (2009) 1.40

Rapid determination of hydrogen positions and protonation states of diisopropyl fluorophosphatase by joint neutron and X-ray diffraction refinement. Proc Natl Acad Sci U S A (2009) 1.38

Crystal structure of the oligomerization domain of the phosphoprotein of vesicular stomatitis virus. J Virol (2006) 1.35

Crystal structure of Bacillus anthracis dihydrofolate reductase with the dihydrophthalazine-based trimethoprim derivative RAB1 provides a structural explanation of potency and selectivity. Antimicrob Agents Chemother (2009) 1.34

Role of intermolecular interactions of vesicular stomatitis virus nucleoprotein in RNA encapsidation. J Virol (2007) 1.30

Structure-based design, synthesis, and characterization of dual hotspot small-molecule HIV-1 entry inhibitors. J Med Chem (2012) 1.29

Structures of human folate receptors reveal biological trafficking states and diversity in folate and antifolate recognition. Proc Natl Acad Sci U S A (2013) 1.28

Atomic resolution cryo electron microscopy of macromolecular complexes. Adv Protein Chem Struct Biol (2011) 1.27

Mechanistic and structural analysis of aminoglycoside N-acetyltransferase AAC(6')-Ib and its bifunctional, fluoroquinolone-active AAC(6')-Ib-cr variant. Biochemistry (2008) 1.27

Domain orientation in the inactive response regulator Mycobacterium tuberculosis MtrA provides a barrier to activation. Biochemistry (2007) 1.27

Structural and functional analysis of the Crb2-BRCT2 domain reveals distinct roles in checkpoint signaling and DNA damage repair. Genes Dev (2008) 1.27

Structural analysis of leader peptide binding enables leader-free cyanobactin processing. Nat Chem Biol (2015) 1.21

Structure of an antibody in complex with its mucin domain linear epitope that is protective against Ebola virus. J Virol (2011) 1.21

Crystal structure of the Mg·ADP-inhibited state of the yeast F1c10-ATP synthase. J Biol Chem (2010) 1.20

Structural analysis of the genetic switch that regulates the expression of restriction-modification genes. Nucleic Acids Res (2008) 1.19

Complex of a protective antibody with its Ebola virus GP peptide epitope: unusual features of a V lambda x light chain. J Mol Biol (2007) 1.14

Comparison of a preQ1 riboswitch aptamer in metabolite-bound and free states with implications for gene regulation. J Biol Chem (2011) 1.14

Structure and function of the Rad9-binding region of the DNA-damage checkpoint adaptor TopBP1. Nucleic Acids Res (2010) 1.13

Structure of an As(III) S-adenosylmethionine methyltransferase: insights into the mechanism of arsenic biotransformation. Biochemistry (2012) 1.13

Plasmid replication initiator RepB forms a hexamer reminiscent of ring helicases and has mobile nuclease domains. EMBO J (2009) 1.12

Structural and biophysical properties of metal-free pathogenic SOD1 mutants A4V and G93A. Arch Biochem Biophys (2009) 1.09

Crystal structure of an intramolecular chaperone mediating triple-beta-helix folding. Nat Struct Mol Biol (2010) 1.08

Evolution of a designed retro-aldolase leads to complete active site remodeling. Nat Chem Biol (2013) 1.07

Structure of Smad1 MH1/DNA complex reveals distinctive rearrangements of BMP and TGF-beta effectors. Nucleic Acids Res (2010) 1.06

Crystal structure of the flavoprotein ArsH from Sinorhizobium meliloti. FEBS Lett (2007) 1.06

Experimental phasing: best practice and pitfalls. Acta Crystallogr D Biol Crystallogr (2010) 1.04

Ferritin structure from Mycobacterium tuberculosis: comparative study with homologues identifies extended C-terminus involved in ferroxidase activity. PLoS One (2011) 1.03

Bifunctional NMN adenylyltransferase/ADP-ribose pyrophosphatase: structure and function in bacterial NAD metabolism. Structure (2008) 1.03

Mutation to Bax beyond the BH3 domain disrupts interactions with pro-survival proteins and promotes apoptosis. J Biol Chem (2011) 1.02

Structural insight into the functional mechanism of Nep1/Emg1 N1-specific pseudouridine methyltransferase in ribosome biogenesis. Nucleic Acids Res (2010) 1.01

Schizosacharomyces pombe RNA polymerase II at 3.6-A resolution. Proc Natl Acad Sci U S A (2009) 1.01

A conserved active site tyrosine residue of proline dehydrogenase helps enforce the preference for proline over hydroxyproline as the substrate. Biochemistry (2009) 1.00

The crystal structure of the intact E. coli RelBE toxin-antitoxin complex provides the structural basis for conditional cooperativity. Structure (2012) 1.00

Techniques and tactics used in determining the structure of the trimeric ebolavirus glycoprotein. Acta Crystallogr D Biol Crystallogr (2009) 0.99

Crystal structure of Bfr A from Mycobacterium tuberculosis: incorporation of selenomethionine results in cleavage and demetallation of haem. PLoS One (2009) 0.98

Prediction and characterization of enzymatic activities guided by sequence similarity and genome neighborhood networks. Elife (2014) 0.98

Structures of Cryptococcus neoformans protein farnesyltransferase reveal strategies for developing inhibitors that target fungal pathogens. J Biol Chem (2011) 0.98

Structural basis of allosteric activation of sterile α motif and histidine-aspartate domain-containing protein 1 (SAMHD1) by nucleoside triphosphates. J Biol Chem (2014) 0.97

New Member of the V1V2-Directed CAP256-VRC26 Lineage That Shows Increased Breadth and Exceptional Potency. J Virol (2015) 0.97

The 1.4 A crystal structure of the ArsD arsenic metallochaperone provides insights into its interaction with the ArsA ATPase. Biochemistry (2010) 0.96

The three-dimensional structural basis of type II hyperprolinemia. J Mol Biol (2012) 0.96

Structure and histone binding properties of the Vps75-Rtt109 chaperone-lysine acetyltransferase complex. J Biol Chem (2011) 0.95

Structural insights into the function of aminoglycoside-resistance A1408 16S rRNA methyltransferases from antibiotic-producing and human pathogenic bacteria. Nucleic Acids Res (2010) 0.95

The family X DNA polymerase from Deinococcus radiodurans adopts a non-standard extended conformation. J Biol Chem (2009) 0.94

Protein structures by spallation neutron crystallography. J Synchrotron Radiat (2008) 0.94

Structural determinants for activity and specificity of the bacterial toxin LlpA. PLoS Pathog (2013) 0.94

Zinc-independent folate biosynthesis: genetic, biochemical, and structural investigations reveal new metal dependence for GTP cyclohydrolase IB. J Bacteriol (2009) 0.94

Structural basis for the inactivation of Thermus thermophilus proline dehydrogenase by N-propargylglycine. Biochemistry (2008) 0.93

Insights into metalloregulation by M-box riboswitch RNAs via structural analysis of manganese-bound complexes. J Mol Biol (2011) 0.93

To automate or not to automate: this is the question. J Struct Funct Genomics (2010) 0.93

Crystal structure of an apo form of Shigella flexneri ArsH protein with an NADPH-dependent FMN reductase activity. Protein Sci (2007) 0.92

Structural determinants of oligomerization of δ(1)-pyrroline-5-carboxylate dehydrogenase: identification of a hexamerization hot spot. J Mol Biol (2013) 0.92

Structure and substrate ion binding in the sodium/proton antiporter PaNhaP. Elife (2014) 0.92

The structural basis of chain length control in Rv1086. J Mol Biol (2008) 0.91

Altered antibiotic transport in OmpC mutants isolated from a series of clinical strains of multi-drug resistant E. coli. PLoS One (2011) 0.91

Bothnia dystrophy is caused by domino-like rearrangements in cellular retinaldehyde-binding protein mutant R234W. Proc Natl Acad Sci U S A (2009) 0.91

Structural basis for the cooperative DNA recognition by Smad4 MH1 dimers. Nucleic Acids Res (2011) 0.91

Comparison of Verona Integron-Borne Metallo-β-Lactamase (VIM) Variants Reveals Differences in Stability and Inhibition Profiles. Antimicrob Agents Chemother (2015) 0.90

Identification of the allosteric regulatory site of insulysin. PLoS One (2011) 0.90

Segmented helical structure of the neck region of the glycan-binding receptor DC-SIGNR. J Mol Biol (2009) 0.90

Structural basis for antifreeze activity of ice-binding protein from arctic yeast. J Biol Chem (2012) 0.89

Crystallization of a pentapeptide-repeat protein by reductive cyclic pentylation of free amines with glutaraldehyde. Acta Crystallogr D Biol Crystallogr (2009) 0.88

Experimental strategies for functional annotation and metabolism discovery: targeted screening of solute binding proteins and unbiased panning of metabolomes. Biochemistry (2015) 0.88

Structural and functional insights into the molecular mechanisms responsible for the regulation of pyruvate dehydrogenase kinase 2. J Biol Chem (2008) 0.88

Interaction of Rio1 kinase with toyocamycin reveals a conformational switch that controls oligomeric state and catalytic activity. PLoS One (2012) 0.87

Crystal Structures of the histidine acid phosphatase from Francisella tularensis provide insight into substrate recognition. J Mol Biol (2009) 0.87

The structural basis for peptidomimetic inhibition of eukaryotic ribonucleotide reductase: a conformationally flexible pharmacophore. J Med Chem (2008) 0.86

Enzyme-ligand interactions that drive active site rearrangements in the Helicobacter pylori 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase. Protein Sci (2010) 0.86

Structural, kinetic and chemical mechanism of isocitrate dehydrogenase-1 from Mycobacterium tuberculosis. Biochemistry (2013) 0.86

Identification of lysine residues in the Borrelia burgdorferi DbpA adhesin required for murine infection. Infect Immun (2014) 0.86

Structure of Shigella IpgB2 in complex with human RhoA: implications for the mechanism of bacterial guanine nucleotide exchange factor mimicry. J Biol Chem (2010) 0.86

The tip of the tail needle affects the rate of DNA delivery by bacteriophage P22. PLoS One (2013) 0.85

The RGD finger of Del-1 is a unique structural feature critical for integrin binding. FASEB J (2012) 0.85

Complexes of bacterial nicotinate mononucleotide adenylyltransferase with inhibitors: implication for structure-based drug design and improvement. J Med Chem (2010) 0.85

Diverse substrate recognition and hydrolysis mechanisms of human NUDT5. Nucleic Acids Res (2011) 0.85

Lateral clustering of TLR3:dsRNA signaling units revealed by TLR3ecd:3Fabs quaternary structure. J Mol Biol (2012) 0.84

Insight into the molecular basis of aromatic polyketide cyclization: crystal structure and in vitro characterization of WhiE-ORFVI. Biochemistry (2012) 0.84

PHENIX: a comprehensive Python-based system for macromolecular structure solution. Acta Crystallogr D Biol Crystallogr (2010) 108.52

Phaser crystallographic software. J Appl Crystallogr (2007) 108.34

Overview of the CCP4 suite and current developments. Acta Crystallogr D Biol Crystallogr (2011) 67.55

PHENIX: building new software for automated crystallographic structure determination. Acta Crystallogr D Biol Crystallogr (2002) 53.61

Likelihood-enhanced fast translation functions. Acta Crystallogr D Biol Crystallogr (2005) 29.38

Likelihood-enhanced fast rotation functions. Acta Crystallogr D Biol Crystallogr (2004) 23.86

Towards automated crystallographic structure refinement with phenix.refine. Acta Crystallogr D Biol Crystallogr (2012) 11.31

Blu-Ice and the Distributed Control System: software for data acquisition and instrument control at macromolecular crystallography beamlines. J Synchrotron Radiat (2002) 9.48

Engineering and characterization of a superfolder green fluorescent protein. Nat Biotechnol (2005) 9.17

Iterative model building, structure refinement and density modification with the PHENIX AutoBuild wizard. Acta Crystallogr D Biol Crystallogr (2007) 7.72

High-resolution structure prediction and the crystallographic phase problem. Nature (2007) 7.67

Decision-making in structure solution using Bayesian estimates of map quality: the PHENIX AutoSol wizard. Acta Crystallogr D Biol Crystallogr (2009) 6.47

Simple algorithm for a maximum-likelihood SAD function. Acta Crystallogr D Biol Crystallogr (2004) 5.77

Automated structure solution with the PHENIX suite. Methods Mol Biol (2008) 5.65

Molecular architecture and functional model of the endocytic AP2 complex. Cell (2002) 5.44

The application of multivariate statistical techniques improves single-wavelength anomalous diffraction phasing. Acta Crystallogr D Biol Crystallogr (2003) 5.16

Automated ligand fitting by core-fragment fitting and extension into density. Acta Crystallogr D Biol Crystallogr (2006) 5.03

electronic Ligand Builder and Optimization Workbench (eLBOW): a tool for ligand coordinate and restraint generation. Acta Crystallogr D Biol Crystallogr (2009) 4.90

A robust bulk-solvent correction and anisotropic scaling procedure. Acta Crystallogr D Biol Crystallogr (2005) 4.82

Surprises and pitfalls arising from (pseudo)symmetry. Acta Crystallogr D Biol Crystallogr (2007) 4.44

Use of whole genome sequencing to estimate the mutation rate of Mycobacterium tuberculosis during latent infection. Nat Genet (2011) 4.19

High-resolution phenotypic profiling defines genes essential for mycobacterial growth and cholesterol catabolism. PLoS Pathog (2011) 4.10

Recent developments in phasing and structure refinement for macromolecular crystallography. Curr Opin Struct Biol (2009) 4.09

Protein production and purification. Nat Methods (2008) 3.97

The Phenix software for automated determination of macromolecular structures. Methods (2011) 3.81

Genome analysis of multi- and extensively-drug-resistant tuberculosis from KwaZulu-Natal, South Africa. PLoS One (2009) 3.68

Protein tagging and detection with engineered self-assembling fragments of green fluorescent protein. Nat Biotechnol (2004) 3.68

Simultaneous femtosecond X-ray spectroscopy and diffraction of photosystem II at room temperature. Science (2013) 3.60

Robust indexing for automatic data collection. J Appl Crystallogr (2004) 3.51

Automated server predictions in CASP7. Proteins (2007) 3.40

CsoR is a novel Mycobacterium tuberculosis copper-sensing transcriptional regulator. Nat Chem Biol (2006) 3.30

Iterative-build OMIT maps: map improvement by iterative model building and refinement without model bias. Acta Crystallogr D Biol Crystallogr (2008) 3.07

Interpretation of ensembles created by multiple iterative rebuilding of macromolecular models. Acta Crystallogr D Biol Crystallogr (2007) 3.07

The fatty acid biosynthesis enzyme FabI plays a key role in the development of liver-stage malarial parasites. Cell Host Microbe (2008) 2.98

Is one solution good enough? Nat Struct Mol Biol (2006) 2.91

Ligand identification using electron-density map correlations. Acta Crystallogr D Biol Crystallogr (2006) 2.82

Application of the complex multivariate normal distribution to crystallographic methods with insights into multiple isomorphous replacement phasing. Acta Crystallogr D Biol Crystallogr (2003) 2.77

On macromolecular refinement at subatomic resolution with interatomic scatterers. Acta Crystallogr D Biol Crystallogr (2007) 2.75

Improved molecular replacement by density- and energy-guided protein structure optimization. Nature (2011) 2.74

Automatic multiple-zone rigid-body refinement with a large convergence radius. J Appl Crystallogr (2009) 2.66

Room temperature femtosecond X-ray diffraction of photosystem II microcrystals. Proc Natl Acad Sci U S A (2012) 2.43

Variation among genome sequences of H37Rv strains of Mycobacterium tuberculosis from multiple laboratories. J Bacteriol (2010) 2.36

Transfer of a point mutation in Mycobacterium tuberculosis inhA resolves the target of isoniazid. Nat Med (2006) 2.35

A large-scale conformational change couples membrane recruitment to cargo binding in the AP2 clathrin adaptor complex. Cell (2010) 2.35

New Python-based methods for data processing. Acta Crystallogr D Biol Crystallogr (2013) 2.34

Nanoflow electrospinning serial femtosecond crystallography. Acta Crystallogr D Biol Crystallogr (2012) 2.32