The structure of tetramethyl μ-monothiopyrophosphate

The compound tetramethyl μ-monothiopyrophosphate (C₄H₁₂O₆P₂S) crystallizes in the monoclinic space group C 2/c, with (at -130°C) a = 10.322 Å, b = 8.229 Å, c = 12.062 Å, β = 98.44°, and D_calc = 1.639 g/mL³ and Z = 4. The crystal structure has been determined by single crystal X-ray diffraction to give a final R value of 0.0329 for 614 independent observed reflections [F_˚ > 2.5σ(F_˚)]. The sulfur atom resides on a crystallographic two-fold axis. The P S P bond angle is 105.4° and the P S bond lengths are 2.093 Å. The bond angles around phosphorus range from 99.1° to 118.2°. The terminal PO bond is 1.465 Å, and the methoxyl P O bond is about 1.556 Å. The H₃C O P bond angle is about 119.5°. Many structural features are interpreted in terms of π-bonding to phosphorus. Comparisons with the structures of pyrophosphate and related compounds indicate that the combined effects of increased acuteness of the P S P bond and the increased length of the P—S bonds lead to an increase of about 0.4 Å in the separation of phosphorus atoms in the sulfur-bridging compound. These facts, together with the weakness of the P S bond, must be taken into account in the interpretation of kinetic data for enzymatic reactions of phosphorothiolates as substrates in place of phosphates.     

Structural properties of D‐mannopyranosyl rings containing O‐acetyl side‐chains

The crystal structures of 1,2,3,4,6‐penta‐O‐acetyl‐α‐d ‐mannopyranose, C₁₆H₂₂O₁₁, and 2,3,4,6‐tetra‐O‐acetyl‐α‐d ‐mannopyranosyl‐(1→2)‐3,4,6‐tri‐O‐acetyl‐α‐d ‐mannopyranosyl‐(1→3)‐1,2,4,6‐tetra‐O‐acetyl‐α‐d ‐mannopyranose, C₄₀H₅₄O₂₇, were determined and compared to those of methyl 2,3,4,6‐tetra‐O‐acetyl‐α‐d ‐mannopyranoside, methyl α‐d ‐mannopyranoside and methyl α‐d ‐mannopyranosyl‐(1→2)‐α‐d ‐mannopyranoside to evaluate the effects of O‐acetylation on bond lengths, bond angles and torsion angles. In general, O‐acetylation exerts little effect on the exo‐ and endocyclic C—C and endocyclic C—O bond lengths, but the exocyclic C—O bonds involved in O‐acetylation are lengthened by ～0.02 Å. The conformation of the O‐acetyl side‐chains is highly conserved, with the carbonyl O atom either eclipsing the H atom attached to a 2°‐alcoholic C atom or bisecting the H—C—H bond angle of a 1°‐alcoholic C atom. Of the two C—O bonds that determine O‐acetyl side‐chain conformation, that involving the alcoholic C atom exhibits greater rotational variability than that involving the carbonyl C atom. These findings are in good agreement with recent solution NMR studies of O‐acetyl side‐chain conformations in saccharides. Experimental evidence was also obtained to confirm density functional theory (DFT) predictions of C—O and O—H bond‐length behavior in a C—O—H fragment involved in hydrogen bonding.     

The reaction of diphenyltin (IV) or triphenyltin (IV) chloride with 3,4,5-trimethoxybenzoyl salicylahydrazone. The crystal structure of Ph2[(MeO)3C6H2C(O)N2CHC6H4O]Sn

The title complex has been synthesized by the reaction of diphenyltin(IV) or triphenyltin(IV) chloride with 3,4,5-trimethoxybenzoyl salicylahydrazone and characterized by ¹H, ¹³C, ¹¹⁹Sn NMR, and IR spectral studies. An X-ray analysis shows that the ligand is tridentate and approximately planar and the central tin atom is in a distorted five-coordinate trigonal bipyramidal geometry. The complex crystallizes in the monoclinic space group C2/c with a = 29.194(4), b = 10.117(1), c = 22.524(3) Å, β = 124.44(2)°, V = 5486.5(8) ų, Z = 8. The Sn C bond lengths are 2.123(9) and 2.116(7) Å, and the bond length between the tin atom and the coordinating nitrogen atom (Sn–N bond) is 2.152(6) Å. The C Sn C bond angle and the bond angle between the tin atom and the two axially positioned oxygen atoms are 129.1(1) and 156.17(9)°, respectively. The structure was refined to final R = 0.056 and R_w = 0.074 for 4145 observed reflections with I > 3σ(I). © John Wiley & Sons, Inc.     

1‐(1H‐Indol‐3‐ylcarbonyl)‐N‐(4‐methoxy­benzyl)formamide

In the title compound, C₁₈H₁₆N₂O₃, the indole ring is planar and the two adjacent carbonyl groups are mutually trans oriented with a torsion angle of 144.8 (3)°. The single C—C bond linking the two carbonyl functionalities is 1.539 (4) Å. Mol­ecules are linked into a two‐dimensional network by inter­molecular N—H⋯O hydrogen bonds.     

The application of molecular mechanics to the structures of carbohydrates

A study is reported of the accuracy with which the geometries of pyranose and methyl pyranoside molecules are predicted by molecular mechanics. Calculations of the conformational energies of the model compounds dihydroxymethane, methoxymethanol, and dimethoxymethane, made with the program MMI, produced results that compare well with previous ab initio molecular orbital calculations. This indicates that MMI gives a satisfactory account of the energetic and conformational aspects of the anomeric effect, a conclusion further supported by calculations on 2-methoxytetrahydropyran. The prediction of the observed preferred conformations of the primary alcohol group in aldohexopyranoses appears to be less satisfactory. MMI-CARB, a version of MMI with changes in some of the equilibrium C? O bond lengths of the program, has been used to calculate the geometries of 13 pyranose and methyl pyranoside molecules, the crystal structures of which have been studied by neutron diffraction. When the C? C? O? H torsion angles are constrained to approximately the values observed in the crystal structures, good agreement is obtained between the theoretical and experimental molecular geometries. The rms deviation for C? C and C? O bonds, excluding those significantly affected by thermal motion in the crystal structure determinations, is 0.005 Å. Corresponding figures for the valence angles that do not involve hydrogen atoms and for the ring torsion angles are 1.2° and 2.0°, respectively. The Cremer and Pople puckering parameters for the pyranose rings are reproduced within 0.026 Å in Q and 5.4° in θ.     

Glycosidic linkage,N‐acetyl side‐chain,and other structural properties of methyl 2‐acetamido‐2‐deoxy‐β‐d‐glucopyranosyl‐(1→4)‐β‐d‐mannopyranoside monohydrate and related compounds

The crystal structure of methyl 2‐acetamido‐2‐deoxy‐β‐d ‐glycopyranosyl‐(1→4)‐β‐d ‐mannopyranoside monohydrate, C₁₅H₂₇NO₁₁·H₂O, was determined and its structural properties compared to those in a set of mono‐ and disaccharides bearing N‐acetyl side‐chains in βGlcNAc aldohexopyranosyl rings. Valence bond angles and torsion angles in these side chains are relatively uniform, but C—N (amide) and C—O (carbonyl) bond lengths depend on the state of hydrogen bonding to the carbonyl O atom and N—H hydrogen. Relative to N‐acetyl side chains devoid of hydrogen bonding, those in which the carbonyl O atom serves as a hydrogen‐bond acceptor display elongated C—O and shortened C—N bonds. This behavior is reproduced by density functional theory (DFT) calculations, indicating that the relative contributions of amide resonance forms to experimental C—N and C—O bond lengths depend on the solvation state, leading to expectations that activation barriers to amide cis–trans isomerization will depend on the polarity of the environment. DFT calculations also revealed useful predictive information on the dependencies of inter‐residue hydrogen bonding and some bond angles in or proximal to β‐(1→4) O‐glycosidic linkages on linkage torsion angles ? and ψ. Hypersurfaces correlating ? and ψ with the linkage C—O—C bond angle and total energy are sufficiently similar to render the former a proxy of the latter.     

A low‐temperature modification of hexa‐tert‐butyldisilane and a new polymorph of 1,1,2,2‐tetra‐tert‐butyl‐1,2‐diphenyldisilane

Crystals of hexa‐tert‐butyldisilane, C₂₄H₅₄Si₂, undergo a reversible phase transition at 179 (2) K. The space group changes from Ibca (high temperature) to Pbca (low temperature), but the lattice constants a, b and c do not change significantly during the phase transition. The crystallographic twofold axis of the molecule in the high‐temperature phase is replaced by a noncrystallographic twofold axis in the low‐temperature phase. The angle between the two axes is 2.36 (4)°. The centre of the molecule undergoes a translation of 0.123 (1) Å during the phase transition, but the conformation angles of the molecule remain unchanged. Between the two tri‐tert‐butylsilyl subunits there are six short repulsive intramolecular C—H...H—C contacts, with H...H distances between 2.02 and 2.04 Å, resulting in a significant lengthening of the Si—Si and Si—C bonds. The Si—Si bond length is 2.6863 (5) Å and the Si—C bond lengths are between 1.9860 (14) and 1.9933 (14) Å. Torsion angles about the Si—Si and Si—C bonds deviate by approximately 15° from the values expected for staggered conformations due to intramolecular steric H...H repulsions. A new polymorph is reported for the crystal structure of 1,1,2,2‐tetra‐tert‐butyl‐1,2‐diphenyldisilane, C₂₈H₄₆Si₂. It has two independent molecules with rather similar conformations. The Si—Si bond lengths are 2.4869 (8) and 2.4944 (8) Å. The C—Si—Si—C torsion angles deviate by between −3.4 (1) and −18.5 (1)° from the values expected for a staggered conformation. These deviations result from steric interactions. Four Si—C(t‐Bu) bonds are almost staggered, while the other four Si—C(t‐Bu) bonds are intermediate between a staggered and an eclipsed conformation. The latter Si—C(t‐Bu) bonds are about 0.019 (2) Å longer than the staggered Si—C(t‐Bu) bonds.     

4‐Fluoro‐2‐(phospho­no­methyl)­benzene­sulfonic acid monohydrate

The title compound, C₇H₈FO₆PS·H₂O, contains both phospho­nic and sulfonic acid functionalities. An extensive network of O—H?O hydrogen bonds is present in the crystal structure. The three acidic protons are associated with the phospho­nate group. Two protons experience typical hydrogen‐bond contacts with the sulfonate‐O atoms, while the third has a longer covalent bond of 1.05 (3) Å to the phospho­nate‐O atom and a short hydrogen‐bond contact of 1.38 (3) Å to the water O atom (all O—H?O angles are in the range 162–175°). The sulfonate group is positioned so that one S—O bond is nearly coplanar with the phenyl ring [torsion angle O—S—C—C ?8.6 (2)°]. The phospho­nate group is oriented approximately perpendicular to the ring [torsion angle P—C—C—C 99.2 (2)°] with one P—O bond anti to the benzyl C—C bond. The mol­ecules pack in layers in the b–c plane with the water mol­ecules in between adjacent pairs of inverted layers.     

Crystal and molecular structures of atropisomeric N‐aryl‐1,2,3,4‐tetrahydro‐3,3‐dimethyl‐2,4‐quinolinediones

The crystal structures of N‐aryl‐1,2,3,4‐tetrahydro‐3,3‐dimethyl‐2,4‐quinolinediones bearing methoxy‐ ( 1 ), methyl‐ ( 2 ), and chloro‐ ( 3 ) substituents in 2′‐position of the phenyl ring have been determined by X‐ray crystal structure analysis. The heterocyclic ring in 1–3 adopts an envelope conformation, with the smallest ring puckering in the ortho‐chloro derivative 3 . The N‐aryl ring is almost perpendicular with respect to the quinoline‐2,4‐dione ring. The corresponding dihedral angle values are 83.2(1)°, 80.0(9)°, and 83.4(2)° in 1, 2 and 3 , respectively. The hydrogen bond of C H⋅⋅⋅O type joins the molecules of the ortho‐methoxy derivative 1 into dimers. The supramolecular structure also contains two C H⋅⋅⋅π interactions that link the hydrogen‐bonded dimers into sheets. In ortho‐methyl derivative 2 , one C H⋅⋅⋅π interaction generates infinite chains, whereas two C H⋅⋅⋅O hydrogen bonds and three C H⋅⋅⋅π interactions in the ortho‐chloro derivative 3 form three‐dimensional framework. © 2008 Wiley Periodicals, Inc. Heteroatom Chem 19:325–331, 2008; Published online in Wiley InterScience ( www.interscience.wiley.com ). DOI 10.1002/hc.20436     

Phototriggered atmospheric degradation of poly[methyl(phenyl)silanediyl] in the presence of ultraviolet absorbers

Oxidative changes in poly[methyl(phenyl)silanediyl] (PMPSi) films exposed in a Weather-O-Meter ATLAS Ci 3000+ were monitored by Fourier transform infrared spectroscopy. Increases in absorption in the siloxane, carbonyl, and hydroxyl regions, decreases in absorption in the Si Si region, and changes in the aromatic C H bond region were monitored. Experiments in argon and air indicated the key role of oxygen in the process. The photooxidation of PMPSi was retarded by triazine- and oxalanilide-based ultraviolet absorbers [2-(4,6-diphenyl-1,3,5-triazin-2-yl)-5-(hexyloxy)phenol and N-(4-tert-butyl-2-ethoxyphenyl)-N′-(2-ethylphenyl)oxalanilide] protecting the polymer by the excited-state intramolecular proton-transfer mechanism. © 2003 Wiley Periodicals, Inc. J Polym Sci Part A: Polym Chem 42: 714–721, 2004     

Ruthenium–Porphyrin‐Catalyzed Diastereoselective Intramolecular Alkyl Carbene Insertion into C?H Bonds of Alkyl Diazomethanes Generated In Situ from N‐Tosylhydrazones

With a ruthenium–porphyrin catalyst, alkyl diazomethanes generated in situ from N‐tosylhydrazones efficiently underwent intramolecular C(sp³) H insertion of an alkyl carbene to give substituted tetrahydrofurans and pyrrolidines in up to 99 % yield and with up to 99:1 cis selectivity. The reaction displays good tolerance of many functionalities, and the procedure is simple without the need for slow addition with a syringe pump. From a synthetic point of view, the C H insertion of N‐tosylhydrazones can be viewed as reductive coupling between a CO bond and a C H bond to form a new C C bond, since N‐tosylhydrazones can be readily prepared from carbonyl compounds. This reaction was successfully applied in a concise synthesis of (±)‐pseudoheliotridane.     

4‐Amino‐3‐methyl‐6‐phenyl‐1,2,4‐triazin‐5(4H)‐one (metamitron) and 4‐amino‐6‐methyl‐3‐phenyl‐1,2,4‐triazin‐5(4H)‐one (isometamitron)

The title structures, both C₁₀H₁₀N₄O, are substitutional isomers. The N—N bond lengths are longer and the C=N bond lengths are shorter by ca 0.025 Å than the respective average values in the C=N—N=C group of asymmetric triazines; the assessed respective bond orders are 1.3 and 1.7. There are N—H⋯O and N—H⋯N hydrogen bonds in both structures, with 4‐­amino‐3‐methyl‐6‐phenyl‐1,2,4‐triazin‐5(4H)‐one containing a rare bifurcated N—H⋯N,N hydrogen bond. The structures differ in their mol­ecular stacking and the hydrogen‐bonding patterns.     

Simple isotopic product rules valid for absolute and integrated infrared intensities

Microwave spectra of CH¹⁸ OCOOH, CHOC¹⁸ OOH, CHOCO¹⁸ OH, ¹³ CHOCOOH and CHO¹³ COOH are reported and have been used in combination with data on CHOCOOH and CHOCOOD to determine the molecular structure as r(C=O)_ald. = 1.174 ± 0.006 Å, r(C=O)_acid = 1.203 ±0.006 Å, r(C—O) = 1.313 ± 0.010 Å, r(C—C) = 1.535 ± 0.005 Å, r(O—H) = 0.948 ± 0.004 Å, r(C—H) = 1.104 ±0.010 Å, ald. = 123.7 ± 0.4<, 相似文献   

(E)‐2‐[2‐(1‐Naphthyl)­vinyl]‐3‐tosyl‐2,3‐di­hydro‐1,3‐benzo­thia­zole

The title compound, C₂₆H₂₁NO₂S₂, which consists of a benzo­thia­zole skeleton with α‐naphthyl­vinyl and tosyl groups at positions 2 and 3, respectively, was prepared by palladium–copper‐catalyzed heteroannulation. The E configuration of the mol­ecule about the vinyl C=C bond is established by the benzothiazole–naphthyl C—C—C—C torsion angle of 177.5 (4)°. The five‐membered heterocyclic ring adopts an envelope conformation with the Csp³ atom 0.380 (6) Å from the C₂NS plane. The two S—C [1.751 (4) and 1.838 (4) Å] and two N—C [1.426 (5) and 1.482 (5) Å] bond lengths in the thia­zole ring differ significantly.     

Ab initio studies of structural features not easily amenable to experiment. 22. Structural aspects of a long-chain hydrocarbon (n-nonane) and a study of the transferability of electronic effects through C?C single bonds

The molecular structure of the stretched form of n-nonane, as a typical long-chain hydrocarbon, was refined by geometrically unconstrained ab initio force relaxation on the 4-21G level. The C? C bonds and C? H bond distances in the interior of the hydrocarbon chain are found to be longer (by about 0.001 Å and 0.002 Å, respectively) than those near the end of the chain. Similarly, interior C? C? C bond angles are 0.4° larger than the terminal angles. The variation of structural parameters with distance from the molecular ends levels off after the second carbon atom, and the geometry of methylene is practically constant from C₃ on. However, if one end of the system is perturbed by moving the inplane methyl hydrogen away from equilibrium, the resulting destabilizing electronic effects are transmitted through the C? C bond distance chain in such a way that significant perturbations are still experienced at C₅. Molecular mechanics (MM 2) gives a structure in which the small changes in bond lengths and angles with chain location are well reproduced.     

The effect of methyl group on the cooperativity between three types of hydrogen bond: O?H···O,C?H···O,and O?H···π

The effect of the methyl group on the cooperativity between three types of hydrogen bond (O H···O, C H···O, and O H···π) in cyclic complex involving an acetylene and two waters has been studied on the basis of high-level ab initio calculations. The total interaction energy of three hydrogen bonds increases as the number of methyl group in the complex increases. The binding distances of O H···π and O H···O hydrogen bonds shorten, while that of C H···O hydrogen bond elongates with increasing methyl group. This indicates that addition of methyl group leads to enhancement of O H···π and O H···O hydrogen bonds, and weakening of C H···O hydrogen bond, as also shown in frequency shift, chemical shifts, charge populations, and stabilization energies of orbital interactions. Although the presence of methyl group has a complicated effect on different type of hydrogen bond, the cooperativity of three hydrogen bonds increases in general with the addition of methyl group. © 2007 Wiley Periodicals, Inc. Int J Quantum Chem, 2008     

Intra‐ and intermolecular Se...X (X = Se,O) interactions in selenium‐containing heterocycles: 3‐benzoylimino‐5‐(morpholin‐4‐yl)‐1,2,4‐diselenazole

In the selenium‐containing heterocyclic title compound {systematic name: N‐[5‐(morpholin‐4‐yl)‐3H‐1,2,4‐diselenazol‐3‐ylidene]benzamide}, C₁₃H₁₃N₃O₂Se₂, the five‐membered 1,2,4‐diselenazole ring and the amide group form a planar unit, but the phenyl ring plane is twisted by 22.12 (19)° relative to this plane. The five consecutive N—C bond lengths are all of similar lengths [1.316 (6)–1.358 (6) Å], indicating substantial delocalization along these bonds. The Se...O distance of 2.302 (3) Å, combined with a longer than usual amide C=O bond of 2.252 (5) Å, suggest a significant interaction between the amide O atom and its adjacent Se atom. An analysis of related structures containing an Se—Se...X unit (X = Se, S, O) shows a strong correlation between the Se—Se bond length and the strength of the Se...X interaction. When X = O, the strength of the Se...O interaction also correlates with the carbonyl C=O bond length. Weak intermolecular Se...Se, Se...O, C—H...O, C—H...π and π–π interactions each serve to link the molecules into ribbons or chains, with the C—H...O motif being a double helix, while the combination of all interactions generates the overall three‐dimensional supramolecular framework.     

Cocrystals of 1,4‐diethynylbenzene with 1,3‐diacetylbenzene and benzene‐1,4‐dicarbaldehyde exhibiting strong nonconventional alkyne–carbonyl C—H…O hydrogen bonds between the components

Weak interactions between organic molecules are important in solid‐state structures where the sum of the weaker interactions support the overall three‐dimensional crystal structure. The sp‐C—H…N hydrogen‐bonding interaction is strong enough to promote the deliberate cocrystallization of a series of diynes with a series of dipyridines. It is also possible that a similar series of cocrystals could be formed between molecules containing a terminal alkyne and molecules which contain carbonyl O atoms as the potential hydrogen‐bond acceptor. I now report the crystal structure of two cocrystals that support this hypothesis. The 1:1 cocrystal of 1,4‐diethynylbenzene with 1,3‐diacetylbenzene, C₁₀H₆·C₁₀H₁₀O₂, (1), and the 1:1 cocrystal of 1,4‐diethynylbenzene with benzene‐1,4‐dicarbaldehyde, C₁₀H₆·C₈H₆O₂, (2), are presented. In both cocrystals, a strong nonconventional ethynyl–carbonyl sp‐C—H…O hydrogen bond is observed between the components. In cocrystal (1), the C—H…O hydrogen‐bond angle is 171.8 (16)° and the H…O and C…O hydrogen‐bond distances are 2.200 (19) and 3.139 (2) Å, respectively. In cocrystal (2), the C—H…O hydrogen‐bond angle is 172.5 (16)° and the H…O and C…O hydrogen‐bond distances are 2.25 (2) and 3.203 (2) Å, respectively.     

The reaction of 2′ 2′ 3′ 3′-tetrafluoropropyl-5-iodo-3-oxaoctafluoropentane sulfonate with dimethylsulfoxide and determination of the crystal structure of one of the products

The title reaction gave three known compounds (2, 3 and 4) and two new compounds, CH₃SCH₂(CF₂)₂H (5) and I(CF₂)₂O(CF₂)₂SO₃⁻S+(CH₃)₃ (6). The structure of 6 was confirmed by X-ray diffraction analysis. The crystals of 6 belong to monoclinic space group P2₁/C with a = 9.399, b = 15.651, c=10.934Å, β = 94.80° and z = 4. The structure was solved by heavy-atom method and refined by block-diagonal matrix least-squares procedure to a final R of 0.054 for 1999 independent observed reflexions. The S C bonds around the sulphur atom in trimethylsulphonium are pyramidal with the bond lengths of 1.814 Å, 1.800Å and 1.818 Å and the bond angles C-S-C of 101.06°, 101.52° and 102.53°. The distances of the sulphur atom in trimethylsulphonium to three oxygen atoms in the sulphonate radical are 3.79 Å, 3.64 Å and 3.34 Å respectively. These distances are out of the range of the normal S-O bond length. The structure consists of trimethylsulphonium cations and 5-iodo-3-oxaoctafluoropentane-sulphonate anions.