Bond lengths in organic and metal-organic compounds revisited: X—H bond lengths from neutron diffraction data

2010 ◽  
Vol 66 (3) ◽  
pp. 380-386 ◽  
Author(s):  
Frank H. Allen ◽  
Ian J. Bruno

The number of structures in the Cambridge Structural Database (CSD) has increased by an order of magnitude since the preparation of two major compilations of standard bond lengths in mid-1985. It is now of interest to examine whether this huge increase in data availability has implications for the mean bond-length values published in the late 1980s. Those compilations reported mean X—H bond lengths derived from rather sparse information and for rather few chemical environments. During the intervening years, the number of neutron studies has also increased, although only by a factor of around 2.25, permitting a new analysis of X—H bond-length distributions for (a) organic X = C, N, O, B, and (b) a variety of terminal and homometallic bridging transition metal hydrides. New mean values are reported here and are compared with earlier results. These new overall means are also complemented by an analysis of X—H distances at lower temperatures (T ≤ 140 K), which indicates the general level of librational effects in X—H systems. The study also extends the range of chemical environments for which statistically acceptable mean X—H bond lengths can be obtained, although values from individual structures are also collated to further extend the chemical range of this compilation. Updated default `neutron-normalization' distances for use in hydrogen-bond and deformation-density studies are also proposed for C—H, N—H and O—H, and the low-temperature analysis provides specific values for certain chemical environments and hybridization states of X.

2015 ◽  
Vol 51 (56) ◽  
pp. 11248-11251 ◽  
Author(s):  
T. D. Humphries ◽  
D. A. Sheppard ◽  
C. E. Buckley

For homoleptic 18-electron complex hydrides, an inverse linear correlation has been established between the T–deuterium bond length and the average electronegativity of the metal countercations.


1997 ◽  
Vol 52 (7) ◽  
pp. 847-850 ◽  
Author(s):  
Joachim Pickardt ◽  
Sven Wiese

The reactions of diaza-15-crown-5 (“2.1”), and diaza-18-crown-6 (“2.2”), resp., with HgI2 in methanol afford the compounds [Hg(2.1)I][Hg2I6] (1) and [Hg(2.2)I][Hg2I6] (2), the crystal structures of which were determined. 1 consists of isolated cations [Hg(2.1)I]+ and anions [Hg2I6]2-. In the cations Hg is coordinated by one iodine atom, the two N atoms and the three O atoms of the ligand; the Hg-I distance is 262.1(3) pm, the Hg-N bond lengths are 221(2) and 238(2) pm; they are significantly shorter than the Hg-O distances, which are in the range between 262 and 271 pm. 2 consists of cations [Hg(2.2)I]+, which are bridged by the anions. In the cations of 2 Hg is coordinated by an iodine atom and by the two N atoms of the ligand, but by only three of the four O atoms. The Hg-I distance is 275.8(5) pm, the mean Hg-N bond length 234(4) pm, and the Hg-O distances vary between 285 and 304 pm. The Hg-I distance to the bridging I atom of the anion is 388.6(6) pm. The Hg-I bond lengths within the anions are slightly widened by this coordination.


1987 ◽  
Vol 42 (1) ◽  
pp. 47-51 ◽  
Author(s):  
Roger Blachnik ◽  
Willi Buchmeier ◽  
Claudia Schneider ◽  
Ulrike Wickel

P3Se4I is formed by the reaction of molten P4Se3 and I2. P3Se4I is monoclinic, space group P21/c with the lattice parameters of a = 1130.3(3) pm, b = 654.5(2) pm, c =1420.5(4) pm, β - 117.64(2)°. d = 3.87 g cm-3 and dx = 3.82 g cm-3 for Z = 4. The structure of the molecule is derived from the structure of α-or β-P4Se3I2 by the substitution of a P−I group by a Se-atom. The P−I, P−P and Se−Se bond lengths are 249.9, 219.2 and 236.9 pm. resp. The mean P−Se bond length is 225.0 pm. The molecule is stabilized by two weak intramolecular P−Se and P−I bonds, comparable to the bonding situation in α-P4Se3I2 . The 31P NMR spectra reveal a coalescence effect, due to equilibrium between two isomeric forms of the molecules.


Author(s):  
Olivier Charles Gagné ◽  
Frank Christopher Hawthorne

Bond-length distributions have been examined for 55 configurations of alkali-metal ions and 29 configurations of alkaline-earth-metal ions bonded to oxygen, for 4859 coordination polyhedra and 38 594 bond distances (alkali metals), and for 3038 coordination polyhedra and 24 487 bond distances (alkaline-earth metals). Bond lengths generally show a positively skewed Gaussian distribution that originates from the variation in Born repulsion and Coulomb attraction as a function of interatomic distance. The skewness and kurtosis of these distributions generally decrease with increasing coordination number of the central cation, a result of decreasing Born repulsion with increasing coordination number. We confirm the following minimum coordination numbers:[3]Li+,[3]Na+,[4]K+,[4]Rb+,[6]Cs+,[3]Be2+,[4]Mg2+,[6]Ca2+,[6]Sr2+and[6]Ba2+, but note that some reported examples are the result of extensive dynamic and/or positional short-range disorder and are not ordered arrangements. Some distributions of bond lengths are distinctly multi-modal. This is commonly due to the occurrence of large numbers of structure refinements of a particular structure type in which a particular cation is always present, leading to an over-representation of a specific range of bond lengths. Outliers in the distributions of mean bond lengths are often associated with anomalous values of atomic displacement of the constituent cations and/or anions. For a sample of[6]Na+, the ratioUeq(Na)/Ueq(bonded anions)is partially correlated with 〈[6]Na+—O2−〉 (R2= 0.57), suggesting that the mean bond length is correlated with vibrational/displacement characteristics of the constituent ions for a fixed coordination number. Mean bond lengths also show a weak correlation with bond-length distortion from the mean value in general, although some coordination numbers show the widest variation in mean bond length for zero distortion,e.g.Li+in [4]- and [6]-coordination, Na+in [4]- and [6]-coordination. For alkali-metal and alkaline-earth-metal ions, there is a positive correlation between cation coordination number and the grand mean incident bond-valence sum at the central cation, the values varying from 0.84 v.u. for[5]K+to 1.06 v.u. for[8]Li+, and from 1.76 v.u. for[7]Ba2+to 2.10 v.u. for[12]Sr2+. Bond-valence arguments suggest coordination numbers higher than [12] for K+, Rb+, Cs+and Ba2+.


Author(s):  
Kevin Yurkerwich ◽  
Yi Rong ◽  
Gerard Parkin

The tris(pyrazolyl)hydroborate compounds [tris(3,5-dimethyl-1H-pyrazol-1-yl-κN2)hydroborato]indium(I), [In(C15H22BN6)], abbreviated as [TpMe2]In, and [tris(3-tert-butyl-5-methyl-1H-pyrazol-1-yl-κN2)hydroborato]indium(I), [In(C24H40BN6)], abbreviated as [TpBut,Me]In, represent well defined examples of three-coordinate monovalent indium. In both compounds, the geometry at indium is pyramidal and natural bond orbital (NBO) calculations indicate that the indium lone pair occupies an orbital that is primarily 5sin character. The trivalent gallium hydride compound hydrido[tris(3-tert-butyl-5-methyl-1H-pyrazol-1-yl-κN2)hydroborato]gallium(III) tetrachloridogallium(III), [Ga(C24H40BN6)H][GaCl4], abbreviated as {[TpBut,Me]GaH}[GaCl4], is obtainedviareaction of [TpBut,Me]Tl with [HGaCl2]2, and the Ga—H bond length of 1.49 (6) Å compares favorably with the mean value of 1.50 Å for structurally characterized gallium hydride compounds that are listed in the Cambridge Structural Database.


1973 ◽  
Vol 51 (16) ◽  
pp. 2613-2620 ◽  
Author(s):  
Hok Nam Ng ◽  
Crispin Calvo

KAlP2O7 crystallizes as monoclinic crystals with a = 7.308(8), b = 9.662(6), c = 8.025(4) Å, β = 106.69(7)°, z = 4 and space group P21/c. The structure was refined from 1394 observed reflections by full-matrix least-squares method to a final R value of 0.032. The P2O74− anion consists of a pair of corner-sharing PO4 groups in a nearly staggered configuration. The mean bridging and terminal P—O bond lengths are 1.607 and 1.509 Å, respectively, and the P—O—P angle is 123.2°. The anions lie in planes parallel to (001). The Al ions are bonded to six oxygen atoms contributed by anions in three layers of P2O7 groups. The average Al—O bond length is 1.889 Å. The potassium ion is coordinated to ten oxygen atoms lying within a spherical shell with inner and outer radii of 2.739 and 3.185 Å.


1979 ◽  
Vol 34 (6) ◽  
pp. 755-760 ◽  
Author(s):  
Istvàn Hargittai

Abstract The S=O bond lengths and the S=O bond stretching frequencies characteristically change with changing ligand electronegativities in the XSO2Y sulphone series. Empirical relationships have been established between the S=0 bond length and the sum of the ligand electronegativities (χX+ χY) and also between the mean stretching frequency and (χX + χY)-These relationships may be used for estimating group electronegativities from geometrical and vibrational data or to predict bond lengths, bond angles and stretching frequencies from ligand electro-negativities.


1963 ◽  
Vol 41 (2) ◽  
pp. 460-464 ◽  
Author(s):  
N. Camerman ◽  
J. Trotter

Crystals of cyanodimethylarsine, (CH3)2AsCN, are triclinic with two molecules in a unit cell of dimensions a = 6.31, b = 8.02, c = 6.27 Å, α = 110°00′, β = 119°45′, γ = 81°47′, space group [Formula: see text]. The structure has been determined from projections along the three crystallographic axes, and the mean values of the bond lengths and valency angles (with estimated standard deviations) are: As—C = 1.96±0.03 Å, C—N = 1.16 ± 0.07 Å, [Formula: see text], [Formula: see text], [Formula: see text]. There is an unusually short As … N intermolecular separation, which is indicative of charge-transfer bonding involving donation of nitrogen lone pair electrons to vacant arsenic 4d orbitals; the other intermolecular approaches correspond to normal van der Waals interactions.


1975 ◽  
Vol 53 (16) ◽  
pp. 2413-2418 ◽  
Author(s):  
Harry P. Calhoun ◽  
Richard T. Oakley ◽  
Norman L. Paddock ◽  
James Trotter

Octamethylcyclotetraphosphazene is deprotonated by methyllithium to form carbanions, which react with methyl iodide to give ethyl derivatives N4P4Me8−nEtn, [Formula: see text] the structure of the dihydrochloride of the diethyl derivative, N4P4Me6Et2•2HCl has been determined. Its crystals are monoclinic, a = 9.928(5), b = 15.482(6), c = 6.329(2) Å, β = 103.29(2)°, space group P21/n. The structure was determined from diffractometer X-ray data and refined by full-matrix least squares methods to R 0.079 for 715 observed reflections. The N4P4Me6Et2H22+ ion lies on a crystallographic center of symmetry and the eight-membered phosphazene ring has the "chair" conformation. There are two significantly different P—N bond lengths, 1.665(6) and 1.572(7) Å, and two significantly different P—N—P angles, 126.7(6) and 139.8(6)°. The mean P—C bond length is 1.801(7) Å, and the mean N—P—N and C—P—C angles are 112.2(4) and 107.6° respectively. Bond lengths and angles in the phosphazene ring show the characteristic effects of π-electron localization found in other protonated phosphazene derivatives. The two ethyl groups are in tran-antipodal positions, corresponding to the least intramolecular electrostatic repulsion in the carbanion.


1962 ◽  
Vol 40 (8) ◽  
pp. 1590-1593 ◽  
Author(s):  
J. Trotter

Crystals of chlorodiphenylarsine, (C6H5)2AsCl, are monoclinic with four molecules in a unit cell of dimensions a = 11.09, b = 8.55, c = 11.93 Å, β = 95.0°. The crystals are isomorphous with crystals of the corresponding bromo derivative, and the structure has been determined by the isomorphous replacement method. The mean values of the bond lengths and valency angles (with standard deviations) are: As—Cl = 2.26 ± 0.02 Å, As—C = 1.97 ± 0.04 Å, C—C = 1.39 ± 0.02 Å, [Formula: see text] [Formula: see text] [Formula: see text] [Formula: see text] The general molecular configuration and the intermolecular separations are very similar to those in bromodiphenylarsine.


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