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The title compounds, C12H12ClN5OS, (I), and C12H12ClN5OS, (II), are 2-[(diaminopyrimidin-2-yl)sulfanyl]acetamides. Compound (II), crystallizes with two independent molecules (A and B) in the asymmetric unit. In each of the molecules, in both (I) and (II), an intramolecular N--H...N hydrogen bond forms an S(7) ring motif. The pyrimidine ring is inclined to the benzene ring by 42.25 (14)° in (I), and by 59.70 (16) and 62.18 (15)° in molecules A and B, respectively, of compound (II). In the crystal of (I), molecules are linked by pairs of N--H...N hydrogen bonds, forming inversion dimers with an R2(8) ring motif. The dimers are linked via bifurcated N--H...O and C--H...O hydrogen bonds, forming corrugated layers parallel to the ac plane. In the crystal of (II), the A molecules are linked through N--H...O and N--H...Cl hydrogen bonds, forming layers parallel to (100). The B molecules are also linked by N--H...O and N--H...Cl hydrogen bonds, also forming layers parallel to (100). The parallel layers of A and B molecules are linked via N--H...N hydrogen bonds, forming a three-dimensional structure. [ABSTRACT FROM AUTHOR]

In the title compounds, C11H13N3O2S, (I), and C16H15N3O2S, (II), the thiosemicarbazone group adopts an extended conformation. The acetate ester (I) crystallizes with two independent molecules in the asymmetric unit. In the benzoate ester (II), the planes of the two aryl rings are inclined to one another by 46.70 (7)°. In both compounds, there is a short intramolecular N-H…N contact present, forming an S(5) ring motif. In the crystals of both compounds, molecules are linked via pairs of N-H…S hydrogen bonds, forming dimers with R22(8) ring motifs. The dimers are linked by N-H…S and N-H…O hydrogen bonds, forming slabs parallel to (011). In (I), there are N-H…π and C-H…π interactions present within the slabs, while in (II), there are only N-H…π interactions present. [ABSTRACT FROM AUTHOR]

The title compound, C 12 H 15 N 3 O 2 S, adopts an E configuration with respect to the C=N bond. The propionate group adopts an anti-periplanar ( ap ) conformation. There are short intra-molecular N-H⋯N and C-H⋯O contacts, forming S (5) and S (6) ring motifs, respectively. In the crystal, mol-ecules are connected into ribbons extending parallel to [010] by pairs of N-H⋯S inter-actions, forming rings with R 2 2 (8) graph-set motifs, and by pairs of C-H⋯S inter-actions, where rings with the graph-set motif R 2 1 (7) are observed. The O atom of the carbonyl group is disordered over two positions, with a refined occupancy ratio of 0.27 (2):0.73 (2). The studied crystal consisted of two domains., (© Sundarasamy et al. 2024.)

Peptidoglycan recognition proteins (PGRPs) are important components of the innate immune system which provide the first line of defense against invading microbes. There are four members in the family of PGRPs in animals of which PGRP-S is a common domain. It is responsible for the binding to microbial cell wall molecules. In order to understand the mode of binding of PGRP-S to the components of the bacterial cell wall, the structure of the complex of camel PGRP-S (CPGRP-S) with heptanoic acid has been determined at 2.15 Å resolution. The structure determination showed the presence of four crystallographically independent protein molecules which are designated as A, B, C, and D. These four protein molecules associate in the form of two homodimers which are represented as A-B and C-D dimers. The association between molecules A and B gives rise to a shallow cleft on the surface at one end of the dimeric interface. One molecule of heptanoic acid is observed at this binding site in the A-B dimer. The association of C and D molecules results in the formation of a long zig-zag tunnel along with the C-D interface. In the cleft at the C-D interface, three molecules of hydrogen peroxide along with other non-water solvent molecules have been observed. The analysis of the several complexes of CPGRP-S with fatty acids and non-fatty acids such as peptidoglycan, lipopolysaccharide, and lipoteichoic acid shows that the fatty acids bind at the A-B site while non-fatty acids interact through C-D interface., Competing Interests: None., (IJBMB Copyright © 2022.)

In the title compounds, C 14 H 17 N 5 OS (I) and C 13 H 15 N 5 O 2 S (II), the dihedral angle between the pyrimidine and benzene rings is 58.64 (8)° in (I) and 78.33 (9)° in (II). In both compounds, there is an intra-molecular C-H⋯O hydrogen bond, and in (II) there is also an intra-molecular N-H⋯N hydrogen bond present. In the crystals of both compounds, a pair of N-H⋯N hydrogen bonds links the individual mol-ecules to form inversion dimers with R 2 2 (8) ring motifs. In (I), the dimers are linked by N-H⋯O and C-H⋯O hydrogen bonds, enclosing R 2 1 (14), R 2 1 (11) and R 2 1 (7) ring motifs, forming layers parallel to the (100) plane. There is also an N-H⋯π inter-action present within the layer. In (II), the inversion dimers are linked by N-H⋯O hydrogen bonds enclosing an R 4 4 (18) ring motif. The presence of N-H⋯O and C-H⋯O hydrogen bonds generate an R 2 1 (6) ring motif. The combination of these various hydrogen bonds results in the formation of layers parallel to the (1-11) plane.

The title compounds, C 12 H 12 ClN 5 OS, (I), and C 12 H 12 ClN 5 OS, (II), are 2-[(di-amino-pyrimidin-2-yl)sulfan-yl]acetamides. Compound (II), crystallizes with two independent mol-ecules ( A and B ) in the asymmetric unit. In each of the mol-ecules, in both (I) and (II), an intra-molecular N-H⋯N hydrogen bond forms an S (7) ring motif. The pyrimidine ring is inclined to the benzene ring by 42.25 (14)° in (I), and by 59.70 (16) and 62.18 (15)° in mol-ecules A and B , respectively, of compound (II). In the crystal of (I), mol-ecules are linked by pairs of N-H⋯N hydrogen bonds, forming inversion dimers with an R 2 2 (8) ring motif. The dimers are linked via bifurcated N-H⋯O and C-H⋯O hydrogen bonds, forming corrugated layers parallel to the ac plane. In the crystal of (II), the A mol-ecules are linked through N-H⋯O and N-H⋯Cl hydrogen bonds, forming layers parallel to (100). The B mol-ecules are also linked by N-H⋯O and N-H⋯Cl hydrogen bonds, also forming layers parallel to (100). The parallel layers of A and B mol-ecules are linked via N-H⋯N hydrogen bonds, forming a three-dimensional structure.

The title compounds, C 16 H 15 N 5 OS, (I), and C 12 H 12 FN 5 OS, (II), are [(di-amino-pyrimidine)-sulfan-yl]acetamide derivatives. In (I), the pyrimidine ring is inclined to the naphthalene ring system by 55.5 (1)°, while in (II), the pyrimidine ring is inclined to the benzene ring by 58.93 (8)°. In (II), there is an intra-molecular N-H⋯N hydrogen bond and a short C-H⋯O contact. In the crystals of (I) and (II), mol-ecules are linked by pairs of N-H⋯N hydrogen bonds, forming inversion dimers with R 2 2 (8) ring motifs. In the crystal of (I), the dimers are linked by bifurcated N-H⋯(O,O) and C-H⋯O hydrogen bonds, forming layers parallel to (100). In the crystal of (II), the dimers are linked by N-H⋯O hydrogen bonds, also forming layers parallel to (100). The layers are linked by C-H⋯F hydrogen bonds, forming a three-dimensional architecture.

In the first of the compounds reported herein, namely 6'-ferrocenyl-6a'-nitro-6',6a',6b',7',9',11a'-hexa-hydro-2H-spiro-[ace-naphthyl-ene-1,11'-chromeno[3',4':3,4]pyrrolo-[1,2-c]thia-zol]-2-one, [Fe(C5H5)(C29H21N2O4S)], (I), the thia-zolidine ring adopts a twist conformation on the methine N-C atoms. In the second compound, viz. 6'-(4-methoxy-phen-yl)-6a'-nitro-6',6a',6b',7',9',11a'-hexa-hydro-2H-spiro-[ace-naphthyl-ene-1,11'-chromeno[3',4':3,4]pyrrolo-[1,2-c]thia-zol]-2-one, [Fe(C5H5)(C26H19N2O5S)], (II), the thia-zolidine ring adopts an envelope conformation with a methine C atom as the flap. In both compounds, the pyrrolidine ring adopts a twist conformation on the thia-zolidine and tetra-hydro-pyran C atoms. The mean planes of the thia-zolidine and pyrrolidine rings subtend angles of 67.30 (1) and 62.95 (7)° in (I) and (II), respectively, while the mean plane of the pyrrolidine ring makes dihedral angles of 76.53 (1) and 87.74 (7)° with the ace-naphthyl-ene ring system in (I) and (II), respectively. In both compounds, an intra-molecular C-H⋯O hydrogen bond forms an S(7) ring motif. In the crystal of (I), mol-ecules are linked via two different C-H⋯O hydrogen bonds, forming chains along [001] and [100]. In (II), they are linked through C-H⋯O hydrogen bonds, forming dimers with an R 2 (2)(10) ring motif while C-H⋯π inter-actions link the mol-ecules in a head-to-tail fashion, forming chains along the a-axis direction.

In the title compound, C34H25ClN2O2, the fused pyrrolidine ring adopts an envelope conformation with the N atom as the flap. The two adjacent cyclo-pentane rings also adopt envelope conformations. The mean plane of the pyrrolidine ring makes dihedral angles of 40.53 (10) and 80.23 (10)° with the mean planes of the cyclo-pentane rings. The dihedral angle between the mean planes of the cyclo-pentane rings is 46.71 (9)°. An intra-molecular O-H⋯N hydrogen bond is observed. In the crystal, mol-ecules are linked by C-H⋯O, C-H⋯N and C-H⋯π inter-actions, forming a layer parallel to (10-2).

In the title compound, C30H23N3O4, the central 1-methyl-pyrrolidine ring adopts a twist conformation on the N-CH2 bond. The pyrrolidin-2-one ring of the indolin-2-one ring system also has a twist conformation on the C-C bond involving the spiro C atom and the carbonyl C atom. The five-membered ring of the indene-1,3-dione moiety has an envelope conformation with the spiro C atom as the flap. The quinoline ring system adopts an almost planar conformation (r.m.s. deviation = 0.04 Å). The mean planes of the indolin-2-one ring system, the indene-1,3-dione ring system and the the quinoline ring system are inclined to the mean plane of the central 1-methyl-pyrrolidine ring by 77.97 (7), 86.98 (7) and 46.58 (6)°, respectively. In the crystal, mol-ecules are linked via N-H⋯N hydrogen bonds, forming chains along the b axis. The chains are linked via a number of C-H⋯O hydrogen bonds, and C-H⋯π and π-π inter-actions [inter-centroid distance = 3.7404 (9) Å], forming a three-dimensional network.

In the title compounds 4,11-dihy-droxy-13-methyl-1,8-di-p-tolyl-2,9-di-thia-13- aza-dispiro-[4.1.4(7).3(5)]tetra-decan-6-one, C26H31NO3S2, (I), and 13-benzyl-4,11-dihy-droxy-1,8-bis-(4-methyl-phen-yl)-2,9-di-thia-13-aza-dispiro-[4.1.4(7).3(5)]tetradecan-6-one, C32H35NO3S2, (II), the piperidine rings adopt distorted chair conformations. The thio-phene rings in (I) have envelope conformations, with the spiro C atoms as the flaps. In (II), one thio-phene ring (D) has an envelope conformation, with the hy-droxy-substituted C atom as the flap, while the other thio-phene ring (E) has a twisted conformation on the C-C bond involving the spiro C atom and the toluyl-substituted C atom. In (I), the mean plane of the piperidine ring makes dihedral angles of 75.16 (9) and 73.33 (8)° with the mean planes of the thio-phene rings (D and E), respectively. In (II), the corresponding dihedral angles are 70.95 (11) and 77.43 (12)°. In both compounds, there is an intra-molecular O-H⋯O hydrogen bond forming an S(6) ring motif. In the crystal of (I), mol-ecules are linked via O-H⋯N and C-H⋯O hydrogen bonds, forming chains along [010]. There are also π-π inter-actions present involving inversion-related benzene rings, linking the chains to form slabs parallel to (100). In the crystal of (II), mol-ecules are linked via O-H⋯O hydrogen bonds, forming inversion dimers with an R 4 (4)(8) ring motif. The dimers are linked by C-H⋯π inter-actions, forming slabs parallel to (001).

In the title compound, C17H21ClN2O6, the di-hydro-pyrimidine ring adopts a flattened envelope conformation, with the sp (3)-hybridized C atom forming the flap. The dihedral angle between the least-squares planes of the benzene and di-hydro-pyrimidine rings is 88.09 (6)°. An intra-molecular C-H⋯O hydrogen bond generates an S(6) ring. In the crystal, mol-ecules are linked via pairs of N-H⋯O hydrogen bonds, forming inversion dimers with an R 2 (2)(8) ring motif, and the dimers are linked via further pairs of N-H⋯O hydrogen bonds, forming R 2 (2)(14) rings and chains of mol-ecules along [111]. Pairs of inversion-related chains are linked via weak C-H⋯π inter-actions.

The title compound, C20H15FN2O2, adopts an almost planar conformation. The oxa-diazole ring makes dihedral angles of 13.90 (1) and 7.93 (1)° with the naphthalene ring system and benzene ring, respectively, while the naphthalene ring system and benzene ring are inclined to one another by 6.35 (1)°. In the crystal, adjacent mol-ecules are linked via C-H⋯N hydrogen bonds, forming chains propagating along [100]. There are also π-π inter-actions present [inter-centroid distances = 3.5754 (9) and 3.7191 (12) Å], linking the chains to form ribbons lying parallel to (011).

In the title compound C19H11F3N2O2, the oxa-diazole ring and the naphthalene ring system are approximately planar (r.m.s. deviations of 0.001 and 0.020 Å, respectively) and the oxa-diazole ring makes dihedral angles of 13.11 (1) and 7.59 (1)° with the naphthalene ring system and the tri-fluoro-phenyl ring, respectively. In the crystal, C-H⋯N hydrogen bonds link mol-ecules into chains along the a-axis direction, while C-H⋯F contacts form additional chains along the ac diagonal. These contacts generate sheets of mol-ecules approximately parallel to the (011) plane.

In the title compound, C12H14N2O2S2, the di-hydro-pyrimidine ring adopts a sofa conformation, with the C atom bearing the thienyl ring lying above the plane of the five remaining approximately coplanar (r.m.s. deviation = 0.0405 Å) atoms of the ring. The dihedral angle between the five near coplanar atoms of the ring and the thienyl ring is 89.78 (11)°. In the crystal, mol-ecules are linked into a supra-molecular chain along [100] via N-H⋯O(carbon-yl) hydrogen bonds. Inversion-related chains are linked into double chains via N-H⋯S(thione) hydrogen bonds. The three-dimensional architecture also features meth-yl-thienyl C-H⋯π inter-actions.

The asymmetric unit of the title compound, C17H17N3O2S, consists of two independent mol-ecules, A and B, with different conformations: in mol-ecule A, the dihedral angles between the central benzene ring and the pendant tolyl and carbamo-thio-ylhydrazono groups are 71.12 (9) and 5.95 (8)°, respectively. The corresponding angles in mol-ecule B are 50.56 (12) and 26.43 (11)°, respectively. Both mol-ecules feature an intra-molecular N-H⋯N hydrogen bond, which closes an S(5) ring. In the crystal, mol-ecules are linked by N-H⋯O, N-H⋯S and C-H⋯O hydrogen bonds, generating a three-dimensional network.

In the title compound, C33H23ClN4O3S·CHCl3, the thia-zole ring adopts an envelope conformation with the N atom as the flap, and the pyrrolidine ring adopts a half-chair conformation. The thia-zole ring mean plane makes a dihedral angle of 59.31 (1)° with the pyrrolidine ring mean plane, 71.67 (1)° with the chromene ring and 82.59 (1)° with the chloro-benzene ring. An intra-molecular C-H⋯N hydrogen bond occurs. In the crystal, a second C-H⋯N hydrogen bond links the main and solvent mol-ecules. The solvent chloroform molecule is disordered about two positions with an occupancy ratio of 0.508 (14):0.492 (14).

The planes of the aromatic rings of the title compound, C16H14O3, make a dihedral angle of 82.52 (8)°. The acetyl group and the phenyl ring make a dihedral angle of 1.65 (1)°. In the crystal, the molecules are linked by C-H⋯O interactions, generating C(7) chains along the a-axis direction.

The title compound, 8,18-dithia-2,6-diaza-13(1,4)-piperidina-1(1,2),4(1,3),7(1,2)-tribenzenaoctadecaphane-10,15-diyne-3,6-dione, C32H30N4O2S2, is composed of a relatively planar bis-(2-mercaptophen-yl)isophthalamide unit linked to a bridging 1,4-di(but-2-yn-1-yl)piperazine unit, forming a macrocycle. The isophthalamide ring is inclined to the outer mercaptophenyl rings by 8.18 (11) and 5.59 (10)°, while these two rings are inclined to one another by 9.10 (12)°. The piperazine ring adopts a chair conformation. There are two intra-molecular N-H⋯S hydrogen bonds generating S(5) ring motifs. In the crystal, mol-ecules are linked via C-H⋯S and C-H⋯O hydrogen bonds, forming slabs lying parallel to (001). An O atom in the isophthalamide group is disordered over two positions with an occupancy ratio of 0.41 (6):0.59 (6).

In the title compound, C(16)H(15)IO(4)S, the dihedral angle between the thio-phene and benzene rings is 11.50 (2)°. The methoxy O atoms deviate by 0.0060 (2), -0.1319 (2) and 0.0426 (2) Å from the phenyl ring plane. The crystal packing features C-H⋯O hydrogen bonds, which link the molecules into C(11) chains propagating in [100xxx].