Crystal Structure Of Complex Research Articles

Targeting prolyl-tRNA synthetase via a series of ATP-mimetics to accelerate drug discovery against toxoplasmosis.

The prolyl-tRNA synthetase (PRS) is a validated drug target for febrifugine and its synthetic analog halofuginone (HFG) against multiple apicomplexan parasites including Plasmodium falciparum and Toxoplasma gondii. Here, a novel ATP-mimetic centered on 1-(pyridin-4-yl) pyrrolidin-2-one (PPL) scaffold has been validated to bind to Toxoplasma gondii PRS and kill toxoplasma parasites. PPL series exhibited potent inhibition at the cellular (T. gondii parasites) and enzymatic (TgPRS) levels compared to the human counterparts. Cell-based chemical mutagenesis was employed to determine the mechanism of action via a forward genetic screen. Tg-resistant parasites were analyzed with wild-type strain by RNA-seq to identify mutations in the coding sequence conferring drug resistance by computational analysis of variants. DNA sequencing established two mutations, T477A and T592S, proximal to terminals of the PPL scaffold and not directly in the ATP, tRNA, or L-pro sites, as supported by the structural data from high-resolution crystal structures of drug-bound enzyme complexes. These data provide an avenue for structure-based activity enhancement of this chemical series as anti-infectives.

Crystal structure of a methyl benzoate quadruple-bonded dimolybdenum complex.

Quadruple-bond dimolybdenum complexes provide invaluable insight into the two-electron bond, with structural chemistry providing a foundation for examination of bond properties. The synthesis and solid-state structure of the quadruple-bonded dimolybdenum(II) complex tetra-kis-(μ-4-methyl-benzoato-κ 2 O:O')bis[(tetra-hydro-furan-κO)molybdenum(II)] tetra-hydro-furan disolvate, [Mo2(C8H7O2)4(C4H8O)2]·2C4H8O, are presented. This complex crystallizes in a triclinic cell with low-symmetry space group P . The dimolybdenum paddlewheel structure comprises four methyl-benzoate ligands and two axial THF ligands. The dimolybdenum bond distance of 2.1012 (4) Å is exemplary of this class of compounds.

Synthesis, electronic structure and interaction of rhodium(I) and iridium(I) bisimine-acenaphthalene complexes with CO2

The bis(arylimino)acenaphthalene (BIAN) group of α-diimine compounds has shown promising electron sink behaviour and redox non-innocent activity as ligands to main group and transition metals. Here we present a series of rhodium(I) and iridium(I) complexes of BIAN derivatives with 2,6-diisopropylphenyl (DippBIAN, DB) and 2,4,6-trimethylphenyl (MesBIAN, MB), featuring various electron withdrawing and donating ancillary ligands. The crystal structures of square planar complexes 1b [RhMB(cod)]PF6, 1d [IrMB(cod)]PF6, 2a [RhDB(CO)2]PF6, 2b [RhMB(CO)2]PF6, 2c [IrDB(CO)2]PF6 and 3a [RhDB(CO)(PEt3)]PF6 are reported, as well as the square pyramidal structure of 4c [IrDB(cod)Cl]. The C-N and C-C bond lengths within the bisimine moiety for the structures of 2a and 4c suggest that the DippBIAN ligands are present in a reduced state, however, all other data from our multi-technique analyses correspond to results for neutral BIAN ligands. These contrasting results are indicative of the DippBIAN’s non-innocent behaviour, accepting additional electron density from the metal centre due to push–pull mechanism between the ancillary and BIAN ligands. The electrochemical study in non-coordinating solvent CH2Cl2 revealed that all complexes featured at least one reversible, ligand-centred reduction event at less negative potentials (above –1.0 V vs Ag/Ag+). In addition, preliminary results from our electrocatalytic CO2 reduction study has shown a promising interaction between CO2 and complex 3a, paving the way for exploring heterogeneous catalysis on these class of compounds

Synthesis, Characterization, Crystal Structures, and Supramolecular Assembly of Copper Complexes Derived from Nitroterephthalic Acid along with Hirshfeld Surface Analysis and Quantum Chemical Studies.

Two new Cu(II) carboxylate complexes, Cu-NTA and Cu-DNTA, were prepared by treating 2-nitroterephthalic acid with CuSO4·5H2O at room temperature. The synthesized complexes were characterized by elemental (CHN), FT-IR, and thermogravimetric analysis. The crystal structures of both complexes were explored by single crystal X-ray diffraction analysis, which inferred that the coordination geometry is slightly distorted octahedral and square pyramidal in Cu-NTA and Cu-DNTA, respectively. The non-covalent interactions that are the main feature of the supramolecular assembly were investigated by Hirshfeld surface analysis for both complexes. The propensity of each pair of chemical moieties involved in crystal-packing interactions was determined by the enrichment ratio. Quantum chemical computations were performed to optimize the molecular geometry of complex Cu-NTA and compared it with the experimental single crystal structure, which was found to be in sensible agreement with the experimental structure of the complex. The DFT method was used to see the potential of the selected Cu-NTA complex for linear and nonlinear optical properties. The static NLO polarizability <γ> of complex Cu-NTA was calculated to be 86.28 × 10-36 esu at M06 functional and 6-31G*/LANL2DZ basis set, which was rationally large to look for NLO applications of complex Cu-NTA. Additionally, the molecular electrostatic potential and frontier molecular orbitals were also computed with the same methodology to see electronic characteristics and ground-state electronic charge distributions.

Crystal structure, photophysical properties, and DFT calculations of a boron difluoride curcumin complex

Abstract The crystal structure of a curcumin-BF2 complex has been successfully refined from single-crystal X-ray diffraction data of crystals with one molecule of co-crystallized dichloromethane. The complex has a nearly coplanar structure. The molecules form a mesh structure by intermolecular multiple hydrogen bonds, as well as weak hydrogen bonds with CH2Cl2 molecules. An investigation of the photo-physical properties has indicated that the curcumin-BF2 complex possesses a wide absorption band and an intense red emission in the solid state due to a strong electron-withdrawing effect of the BF2 groups. DFT calculations of a single molecule verify the relationships between the photo-physical properties and its intrinsic electronic features, but neglect the role of hydrogen bonding.

Synthesis and Characterization of Donor-Acceptor Iron Porphyrin Carbenes and Their Reactivities in N-H Insertion and Related Three-Component Reaction.

Iron porphyrin carbenes (IPCs) have been extensively recognized as the reactive intermediates in various iron porphyrin-catalyzed carbene transfer reactions. While donor-acceptor diazo compounds have been frequently used for such transformations, the structures and reactivities of donor-acceptor IPCs are less explored. To date, no crystal structures of donor-acceptor IPC complexes have been reported, and therefore, the involvement of IPC intermediacy for such transformations lacks direct evidence. Here we report the synthesis and NMR characterization of several donor-acceptor IPC complexes from iron porphyrin and corresponding donor-acceptor diazo compounds. The X-ray crystal structure of an IPC complex derived from a morpholine-substituted diazo amide was obtained. The carbene transfer reactivities of those IPCs were tested by the N-H insertion reactions with aniline or morpholine as well as the three-component reaction with aniline and γ,δ-unsaturated α-keto ester based on electrophilic trapping of an ammonium ylide intermediate. Based on these results, IPCs were identified as the real intermediates for iron porphyrin-catalyzed carbene transfer reactions from donor-acceptor diazo compounds.

Burst kinetics and CNNM binding are evolutionarily conserved properties of phosphatases of regenerating liver

Phosphatases of regenerating liver (PRL or PTP4A) are a family of enigmatic protein phosphatases implicated in cell growth and metabolism. Despite their relevance in metastatic cancer, much remains unknown about the PRL family. They act as pseudo-phosphatases to regulate the CNNM family of magnesium transporters yet also have enzymatic activity on unknown substrates. In mammals, PRLs are mostly found trapped in an intermediate catalytic state that regulates their pseudo-phosphatase activity. Phosphocysteine, which is formed as an intermediate in the phosphatase catalytic cycle, is inefficiently hydrolyzed leading to burst enzyme kinetics and turnover numbers of less than one per hour. In flies, PRLs have recently been shown to have neuroprotective and neurodevelopmental roles raising the question whether they act as phosphatases, pseudo-phosphatases, or both. Here, we characterize the evolutionary development of PRLs and ask whether their unique structural and functional properties are conserved. We purified recombinant PRL proteins from fifteen phylogenetically diverse organisms and characterized their catalytic activities and ability to bind CNNM proteins. We observed PRLs from humans to amoebae form a stable phosphocysteine intermediate and exhibit burst kinetics. Isothermal titration calorimetry experiments confirmed that the PRL-CNNM interaction is broadly conserved with nanomolar affinity in vertebrates. Lastly, we determined the crystal structure of the Drosophila melanogaster PRL-CNNM complex and identified mutants that specifically impair either phosphatase activity or CNNM binding. Our results reveal that the unique properties of PRLs are conserved throughout the animal kingdom and open the door to using model organisms to dissect PRL function in cell signaling.

Low-Coordinate Mixed Ligand NacNac Complexes of Rare Earth Metals

We report the synthesis and characterization of two types of new mixed-ligand rare earth complexes: tetracoordinate (NacNacMes)Ln(BIANdipp) (Ln = Dy (1), Er (2) and Y (3)) and pentacoordinate (NacNacMes)Ln(APdipp)(THF) (Ln = Dy (4), Er (5) and Y (6)). The first three compounds were prepared by the reaction of [(BIANDipp)LnI] with potassium β-diketiminate. The salt metathesis of β-diketiminato-supported rare earth dichlorides (NacNacMes)LnCl2(THF)2 with sodium o-amidophenolate results in compounds 4-6. The crystal structures of complexes 1-6 were determined by single-crystal analysis. The combination of bulky monoanionic N-mesityl-substituted β-diketiminates with sterically hindered redox-active ligands led to the very low coordination numbers of rare earths and strong distortion of the chelate ligands.

Chirality as a Feature of the Crystal Structure of Lanthanide Ion Complexes—Some Simple Examples

Single-crystal X-ray structure determinations are reported for four lanthanide complexes, [Dy(bipy)2Cl2(OH2)2]Cl.H2O (bipy = 2,2′-bipyridine), 1; [La2(phen)2(O2CCH3)4(NO3)2] (phen = 1,10-phenanthroline), 2; [Lu(terpy)(O2CCH3)3].NaNO3 (terpy = 2,2′;6′,2″-terpyridine) 3; and [Lu(phen)(O2CH)3(OH2)].H2O, 4. Dispersion interactions within the stacked arrays of coordinated aza-aromatic units found in all four complexes appear to be a significant structural influence in the solid state. For complex 1, there are additional interactions beyond dispersion, which suggests that it may be the means whereby the Δ and Λ forms contribute to the overall chiral nature of the crystal. These weak intermolecular interactions were investigated in detail using the Hirshfeld surface analysis.

Mononuclear nickel and copper complexes as electrocatalyst for generation of hydrogen from acetic acid

Ever increasing use of conventional energy and demand of clean renewable energy inspire many researchers to produce effective systems for hydrogen generation. Herein we report two mononuclear complexes, [NiL] (Complex 1) and [CuL] (Complex 2), where H2L is 1,1′-(1E,1′E)-(propane-1,2-diylbis(azan-1-yl-1-ylidene))bis(methan-1-yl-1-ylidene)dinaphthalen-2-ol, as electrocatalyst for hydrogen evolution reaction using acetic acid as the substrate. Both of the complexes have been synthesized under mild conditions and characterized by several methods. Single crystal X-ray structure of Complex 1 shows square planar geometry around nickel center. These complexes have effectively been used to reduce proton to generate hydrogen. Different control experiments have been carried out to understand the role of these catalysts and find their relevance in this regard. Turnover frequency (TOF) values for 1 and 2 have been determined as 653.1 and 777.5 s−1, respectively. Hydrogen is evolved via reduction of metal center followed by formation of metal hydride species.

Neutron Reflectometry and Molecular Simulations Demonstrate HIV-1 Nef Homodimer Formation on Model Lipid Bilayers

The HIV-1 Nef protein plays a critical role in viral infectivity, high-titer replication in vivo, and immune escape of HIV-infected cells. Nef lacks intrinsic biochemical activity, functioning instead through interactions with diverse host cell signaling proteins and intracellular trafficking pathways. Previous studies have established an essential role for Nef homodimer formation at the plasma membrane for most if not all its functions. Here we combined neutron reflectometry of full-length myristoylated Nef bound to model lipid bilayers with molecular simulations based on previous X-ray crystal structures of Nef homodimers. This integrated approach provides direct evidence that Nef associates with the membrane as a homodimer with its structured core region displaced from the membrane for partner protein engagement. Parallel studies of a dimerization-defective mutant, Nef-L112D, demonstrate that the helical dimerization interface present in previous crystal structures stabilizes the membrane-bound dimer. X-ray crystallography of the Nef-L112D mutant in complex with the SH3 domain of the Nef-associated host cell kinase Hck revealed a monomeric 1:1 complex instead of the 2:2 dimer complex formed with wild-type Nef. Importantly, the crystal structure of the Nef-L112D core and SH3 interface are virtually identical to the wild-type complex, indicating that this mutation does not affect the overall Nef fold. These findings support the intrinsic capacity of Nef to homodimerize at lipid bilayers using structural features present in X-ray crystal structures of dimeric complexes.

Structure-Based Optimization of Protease-Inhibitor Interactions to Enhance Specificity of Human Stefin-A against Falcipain-2 from the Plasmodium falciparum 3D7 Strain.

The emergence of resistance in Plasmodium falciparum to frontline artemisinin-based combination therapies has raised global concerns and emphasized the identification of new drug targets for malaria. Cysteine protease falcipain-2 (FP2), involved in host hemoglobin degradation and instrumental in parasite survival, has long been proposed as a promising malarial drug target. However, designing active-site-targeted small-molecule inhibitors of FP2 becomes challenging due to their off-target specificity toward highly homologous human cysteine cathepsins. The use of proteinaceous inhibitors, which have nonconserved exosite interactions and larger interface area, can effectively circumvent this problem. In this study, we report for the first time that human stefin-A (STFA) efficiently inhibits FP2 with Ki values in the nanomolar range. The FP2-STFA complex crystal structure, determined in this study, and sequence analyses identify a unique nonconserved exosite interaction, compared to human cathepsins. Designing a mutation Lys68 > Arg in STFA amplifies its selectivity garnering a 3.3-fold lower Ki value against FP2, and the crystal structure of the FP2-STFAK68R complex shows stronger electrostatic interaction between side-chains of Arg68 (STFAK68R) and Asp109 (FP2). Comparative structural analyses and molecular dynamics (MD) simulation studies of the complexes further confirm higher buried surface areas, better interaction energies for FP2-STFAK68R, and consistency of the newly developed electrostatic interaction (STFA-R68-FP2-D109) in the MD trajectory. The STFA-K68R mutant also shows higher Ki values against human cathepsin-L and stefin, a step toward eliminating off-target specificity. Hence, this work underlines the design of host-based proteinaceous inhibitors against FP2, with further optimization to render them more potent and selective.

FcγRI FG-loop functions as a pH sensitive switch for IgG binding and release.

Understanding the molecular mechanism underlying the hierarchic binding between FcγRs and IgG antibodies is critical for therapeutic antibody engineering and FcγR functions. The recent determination of crystal structures of FcγRI-Fc complexes, however, resulted in two controversial mechanisms for the high affinity receptor binding to IgG. Here, we describe high resolution structures of a bovine FG-loop variant of FcγRI in complex with the Fc fragment of IgG1 crystallized in three different conditions at neutral pH, confirming the characteristic FG loop-Fc interaction is critical to the high affinity immunoglobulin binding. We showed that the FcγRI D2-domain FG-loop functioned as a pH-sensing switch for IgG binding. Further live cell imaging of FcγRI-mediated internalization of immune complexes showed a pH sensitive temporal-spatial antibody-antigen uptake and release. Taken together, we demonstrate that the structures of FcγRI-Fc crystallized at neutral and acidic pH, respectively, represent the high and low affinity binding states of the receptor for IgG uptake and release. These results support a role for FcγRI in antigen delivery, highlight the importance of Fc glycan in antibody binding to the high affinity receptor and provide new insights to future antibody engineering.

Mechanistic Insights into the Ene-Reductase-Catalyzed Promiscuous Reduction of Oximes to Amines.

The biocatalytic reduction of the oxime moiety to the corresponding amine group has only recently been found to be a promiscuous activity of ene-reductases transforming α-oximo β-keto esters. However, the reaction pathway of this two-step reduction remained elusive. By studying the crystal structures of enzyme oxime complexes, analyzing molecular dynamics simulations, and investigating biocatalytic cascades and possible intermediates, we obtained evidence that the reaction proceeds via an imine intermediate and not via the hydroxylamine intermediate. The imine is reduced further by the ene-reductase to the amine product. Remarkably, a non-canonical tyrosine residue was found to contribute to the catalytic activity of the ene-reductase OPR3, protonating the hydroxyl group of the oxime in the first reduction step.

Electronic, Thermal, and Thermoelectric Transport Properties of ReSe2 and Re2Te5

Re-based chalcogenides have been studied in various fields such as strain engineering, photodetection, spintronics, and electromechanics, as well as in piezoelectric and photonic devices. In this study, the electrical, thermal, and thermoelectric transport properties of two representative Re-based chalcogenides, ReSe2 and Re2Te5, are investigated systematically. Furthermore, their electronic band dispersions are calculated using density functional theory and compared with the phenomenological data. The maximum power factor values for the ReSe2 and Re2Te5 were measured 0.0066 and 0.11 mW/mK2 at 880 K, respectively. Thermal conductivity of layered ReSe2 at room temperature was between 1.93 and 8.73 W/mK according to the measuring direction. For Re2Te5 with a complex orthorhombic crystal structure, the thermal conductivity was quite low in the range between 0.62 and 1.23 W/mK at room temperature. As a result, the maximum z T values of ReSe2 were quite low as 0.0016 at 880 K due to very low power factor and high thermal conductivity. Meanwhile, the relatively high z T of 0.145 in Re2Te5 is obtained at 880 K, which is originated from the acceptable power factor value and the low thermal conductivity.

Binuclear homo- and hetero-metallic complexes containing [(Me3tacn)Ru] units

Reaction of (Me3tacn)RuCl3·H2O and three equivalents of zinc acetate afforded a binuclear heterometallic species (Me3tacn)RuII(µ-Cl)(µ-CH3CO2)2ZnCl (1) (Me3tacn = 1,4,7-trimethyl-1,4,7-triazacyclononane). Treatment of (Me3tacn)RuCl3·H2O with three equivalents of silver triflate or equivalent cadmium acetate in alcohol got trichloro-bridged binuclear homometallic complexes [(Me3tacn)Ru(µ-Cl)3Ru(Me3tacn)]X2 (X = CF3SO3, 2; Cl, 3) with metal–metal Ru-Ru bonds. When three equivalents of manganese acetate and cadmium acetate was employed, such reactions led to isolations of [(Me3tacn)RuIII(µ-O)(µ-CH3CO2)2RuIII(Me3tacn)]2+ species (4/5), with [MnCl4]2− and [CdCl4]2− acting as the counter anions only. The crystal structures of complexes 1–5 have been determined. All complexes have been characterized by infrared, UV–vis spectroscopies and their electrochemical properties were also investigated. Moreover, the catalytic property of ruthenium(III) complexes 4/5 towards oxidation of isopropanol was accordingly investigated.

Band Structure, Phonon Spectrum and Thermoelectric Properties of Ag3CuS2.

Sulfides and selenides of copper and silver have been intensively studied, particularly as potentially efficient thermoelectrics. Ag3CuS2 (jalpaite) is a related material. However very little is known about its physical properties. It has been found that the compound undergoes several structural phase transitions, having the tetrahedral structural modification I41/amd at room temperature. In this work, its band structure, phonon spectrum and thermoelectric properties were studied theoretically and experimentally. Seebeck coefficient, electrical conductivity and thermal conductivity were measured in a broad temperature range from room temperature to 600 K. These are the first experimental data on transport properties of jalpaite. Ab initio calculations of the band structure and Seebeck coefficient were carried out taking into account energy dependence of the relaxation time typical for the scattering of charge carriers by phonons. The results of the calculations qualitatively agree with the experiment and yield large values of the Seebeck coefficient characteristic for lightly doped semiconductor. The influence of intrinsic defects (vacancies) on the transport properties was studied. It was shown that the formation of silver vacancies is the most probable and leads to an increase of hole concentration. Using the temperature dependent effective potential method, the phonon spectrum and thermal conductivity at room temperature were calculated. The measurements yield low lattice thermal conductivity value of 0.5 W/(m K) at 300 K, which is associated with the complex crystal structure of the material. The calculated room temperature values of the lattice thermal conductivity were also small (0.14-0.2 W/(m K)).

Structural analysis of an anthrol reductase inspires enantioselective synthesis of enantiopure hydroxycycloketones and β-halohydrins

Asymmetric reduction of prochiral ketones, particularly, reductive desymmetrization of 2,2-disubstituted prochiral 1,3-cyclodiketones to produce enantiopure chiral alcohols is challenging. Herein, an anthrol reductase CbAR with the ability to accommodate diverse bulky substrates, like emodin, for asymmetric reduction is identified. We firstly solve crystal structures of CbAR and CbAR-Emodin complex. It reveals that Tyr210 is critical for emodin recognition and binding, as it forms a hydrogen-bond interaction with His162 and π-π stacking interactions with emodin. This ensures the correct orientation for the stereoselectivity. Then, through structure-guided engineering, variant CbAR-H162F can convert various 2,2-disubstituted 1,3-cyclodiketones and α-haloacetophenones to optically pure (2S, 3S)-ketols and (R)-β-halohydrins, respectively. More importantly, their stereoselectivity mechanisms are also well explained by the respective crystal structures of CbAR-H162F-substrate complex. Therefore, this study demonstrates that an in-depth understanding of catalytic mechanism is valuable for exploiting the promiscuity of anthrol reductases to prepare diverse enantiopure chiral alcohols.

Structural insight into the hydrolase and synthase activities of an alkaline α-galactosidase from Arabidopsis from complexes with substrate/product.

The alkaline α-galactosidase AtAkαGal3 from Arabidopsis thaliana catalyzes the hydrolysis of α-D-galactose from galacto-oligosaccharides under alkaline conditions. A phylogenetic analysis based on sequence alignment classifies AtAkαGal3 as more closely related to the raffinose family of oligosaccharide (RFO) synthases than to the acidic α-galactosidases. Here, thin-layer chromatography is used to demonstrate that AtAkαGal3 exhibits a dual function and is capable of synthesizing stachyose using raffinose, instead of galactinol, as the galactose donor. Crystal structures of complexes of AtAkαGal3 and its D383A mutant with various substrates and products, including galactose, galactinol, raffinose, stachyose and sucrose, are reported as the first representative structures of an alkaline α-galactosidase. The structure ofAtAkαGal3 comprises three domains: an N-terminal domain with 13 antiparallel β-strands, a catalytic domain with an (α/β)8-barrel fold and a C-terminal domain composed of β-sheets that form two Greek-key motifs. The WW box of the N-terminal domain, which comprises the conserved residues FRSK75XW77W78 in the RFO synthases, contributes Trp77 and Trp78 to the +1 subsite to contribute to the substrate-binding ability together with the (α/β)8 barrel of the catalytic domain. The C-terminal domain is presumably involved in structural stability. Structures of the D383A mutant in complex with various substrates and products, especially the natural substrate/product stachyose, reveal four complete subsites (-1 to +3) at the catalytic site. A functional loop (residues 329-352) that exists in the alkaline α-galactosidase AtAkαGal3 and possibly in RFO synthases, but not in acidic α-galactosidases, stabilizes the stachyose at the +2 and +3 subsites and extends the catalytic pocket for the transferase mechanism. Considering the similarities in amino-acid sequence, catalytic domain and activity between alkaline α-galactosidases and RFO synthases, the structure of AtAkαGal3 might also serve a model for the study of RFO synthases, structures of which are lacking.

Small GTPase Ran: Depicting the nucleotide-specific conformational landscape of the functionally important C-terminus.

The small GTPase Ran is the main regulator of the nucleo-cytoplasmic import and export through the nuclear pore complex. It functions as a molecular switch cycling between the GDP-bound inactive and GTP-bound active state. It consists of a globular (G) domain and a C-terminal region, which is bound to the G-domain in the inactive, GDP-bound states. Crystal structures of the GTP-bound active form complexed with Ran binding proteins (RanBP) show that the C-terminus undergoes a large conformational change, embracing Ran binding domains (RanBD). Whereas in the crystal structures of macromolecular complexes not containing RanBDs the structure of the C-terminal segment remains unresolved, indicating its large conformational flexibility. This movement could not have been followed either by experimental or simulation methods. Here, starting from the crystal structure of Ran in both GDP- and GTP-bound forms we show how rigid the C-terminal region in the inactive structure is during molecular dynamics (MD) simulations. Furthermore, we show how MD simulations of the active form are incapable of mapping the open conformations of the C-terminus. By using the MDeNM (Molecular Dynamics with excited Normal Modes) method, we were able to widely map the conformational surface of the C-terminus of Ran in the active GTP-bound form, which allows us to envisage how it can embrace RanBDs.