Browse
Submit Data
Databases
API
Help

Dataset Information

10 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

1-De-oxy-d-arabinitol.

ABSTRACT: Addition of methyl lithium to d-erythrono-1,4-lactone followed by acid deprotection was shown, by X-ray crystallography, to give 1-de-oxy-d-arabinitol, C(5)H(12)O(4), rather than 1-de-oxy-d-ribitol as the major product. The crystal structure exists as hydrogen-bonded chains of mol-ecules running parallel to the c axis which are further linked together by hydrogen bonds. Each mol-ecule is a donor and an acceptor for four hydrogen bonds.

SUBMITTER: Jenkinson SF

PROVIDER: S-EPMC2961547 | biostudies-literature | 2008 May

REPOSITORIES: biostudies-literature

ACCESS DATA

Json Xml

Publications

1-De-oxy-d-arabinitol.

Jenkinson Sarah F SF Cruz Filipa P FP Booth Kathrine V KV Fleet George W J GW Izumori Ken K Yu Chu-Yi CY Watkin David J DJ

Acta crystallographica. Section E, Structure reports online 20080507 Pt 6

Addition of methyl lithium to d-erythrono-1,4-lactone followed by acid deprotection was shown, by X-ray crystallography, to give 1-de-oxy-d-arabinitol, C(5)H(12)O(4), rather than 1-de-oxy-d-ribitol as the major product. The crystal structure exists as hydrogen-bonded chains of mol-ecules running parallel to the c axis which are further linked together by hydrogen bonds. Each mol-ecule is a donor and an acceptor for four hydrogen bonds. ...[more]

PMID: 21202536

Similar Datasets

1-De-oxy-l-mannitol (6-de-oxy-l-mannitol or l-rhamnitol).

Project description:The crystalline form of 1-de-oxy-l-mannitol, C(6)H(14)O(5), exists as an extensively hydrogen-bonded structure with each mol-ecule acting as a donor and acceptor for five hydrogen bonds. There are no unusual crystal-packing features; the absolute configuration was determined from the use of 6-de-oxy-l-mannose (l-rhamnose) as the starting material.

| S-EPMC2960544 | biostudies-other

6-De-oxy-?-l-talopyran-ose.

Project description:X-ray crystallography showed that the title compound, C(6)H(12)O(5), crystallizes in the ?-pyran-ose form with the six-membered ring in a chair conformation. The crystal structure exists as a three-dimensional hydrogen-bonded network of mol-ecules with each mol-ecule acting as a donor and aceptor for four hydrogen bonds. The absolute configuration was determined by the use of l-fucose as starting material.

| S-EPMC2962018 | biostudies-literature

1-De-oxy-d-galactitol (l-fucitol).

Project description:1-De-oxy-d-galactitol, C(6)H(14)O(5), exists in the crystalline form as hydrogen-bonded layers of mol-ecules running parallel to the ac plane, with each mol-ecule acting as a donor and acceptor of five hydrogen bonds.

| S-EPMC2962223 | biostudies-literature

40-De-oxy-40(S)-iodo-rapamycin.

Project description:The title compound, C(51)H(78)INO(12), contains a 29-membered ring incorporating amide, lactone and ester groups. It contains a total of 15 stereogenic centres. In the crystal, mol-ecules are linked by O-H?O hydrogen bonds, forming C(8) chains propagating in [100]. A weak intra-molecular O-H?O inter-action also occurs.

| S-EPMC3414270 | biostudies-literature

3'-O-Acetyl-2'-de-oxy-uridine.

Project description:In the two independent but very similar mol-ecules of the title compound, C(11)H(14)N(2)O(6), both nucleobase fragments are nearly planar (both within 0.01?Å) while the furan-ose rings exhibit (2)E-endo envelope conformations. In the crystal, the two 3'-O-acetyl-2'-de-oxy-uridine mol-ecules form a pseudosymmetric dimer of two bases connected via two nearly identical resonance-assisted N-H?O hydrogen bonds. The resulting pair is further connected with neighboring pairs via two similar O-H?O bonds involving the only hydroxyl group of the 2'-de-oxy-furan-ose fragment and the remaining carbonyl oxygen of the nucleobase. These inter-actions result in the formation of an infinite 'double band' along the b axis that can be considered as a self-assembled analogue of a polynucleotide mol-ecule with non-canonical Watson-Crick base pairs. The infinite chains of 3'-O-acetyl-2'-de-oxy-uridine pairs are additionally held together by C-H?O inter-actions involving C atoms of the uracyl base and O atoms of carbonyl groups. Only weak C-H?O contacts exist between neighboring chains.

| S-EPMC3050423 | biostudies-literature

1-De-oxy-1-fluoro-l-galactitol.

Project description:The crystal structure unequivocally confirms the relative stereochemistry of the title compound, C(6)H(13)FO(5) [6-de-oxy-6-fluoro-d-galactitol or (2S,3R,4R,5S)-6-fluoro-hexane-1,2,3,4,5-penta-ol]. The absolute stereochemistry was determined from the use of d-galactose as the starting material. In the crystal, the molecules are linked by O-H?O and O-H?F hydrogen bonds, forming a three-dimensional network with each mol-ecule acting as a donor and acceptor for five hydrogen bonds.

| S-EPMC2979521 | biostudies-literature

2-De-oxy-?-d-arabino-hexopyran-ose.

Project description:The title compound, C(6)H(12)O(5), is the ?-pyran-ose form of the reducing aldose 2-de-oxy-d-arabino-hexose. The six-membered pyran-ose ring adopts a (4)C(1) conformation, with the anomeric hy-droxy group in axial and the other substituents in equatorial positions. In the crystal, each of the four hy-droxy groups acts as an inter-molecular hydrogen-bond donor function, resulting in a three-dimensional hydrogen-bonded network.

| S-EPMC3201514 | biostudies-literature

6-De-oxy-6-fluoro-d-galactose.

Project description:The crystal structure unequivocally confirms the relative stereochemistry of the title compound, C(6)H(11)FO(5). The absolute stereochemistry was determined by the use of d-galactose as the starting material. The compound exists as a three-dimensional O-H?O hydrogen-bonded network with each mol-ecule acting as a donor and acceptor for four hydrogen bonds.

| S-EPMC2979621 | biostudies-literature

41-Azido-41-de-oxy-rapamycin.

Project description:The title compound, C(51)H(78)N(4)O(12), is a derivative of rapamycin, a triene macrolide anti-biotic mol-ecule isolated from Streptomyces hygroscopicus. The macrocyclic ring structure has 15 chiral centres, with one of the substituent hy-droxy groups giving an intra-molecular hydrogen bond to a ketone O-atom acceptor. The mol-ecules also form inter-molecular hy-droxy-ketone O-H?O hydrogen-bonding associations, giving one-dimensional chains extending along (010). The crystal has 108?Å(3) solvent-accessible voids.

| S-EPMC3344143 | biostudies-other

(1S,5R,7R,30S)-14-De-oxy-isogarcinol.

Project description:The title compound, C(38)H(50)O(5) {systematic name: 10-(3-hy-droxy-benzo-yl)-2,2,7,7-tetra-methyl-3,6,8-tris-(3-methyl-but-2-en-yl)-3,4,4a,5,6,7-hexa-hydro-4a,8-methano-2H-cyclo-octa-[b]pyran-9,11(8H)-dione}, is a polyisoprenylated benzophenone, isolated for the first time from the fruits of Garcinia indica during our investigation of bioactive compounds from this plant and their large-scale extraction. The relative configuration of the title compound was chosen based on comparison of its spectroscopic and optical rotation data with that of the isomorphous and isostructural compound isogarcinol, whose absolute configuration is known. The crystal packing features O-H?O hydrogen bonds. A Cambridge Structural Database analysis revealed that the crystal structure reported here is isomorphous and isostructural with that of isogarcinol.

| S-EPMC3379428 | biostudies-literature

OmicsDI is part of the ELIXIR infrastructure

OmicsDI is an Elixir interoperability service. Learn more ›

OmicsDI Databases

PRIDE
PeptideAtlas
MassIVE
JPOST Repository
Physiome Model Repository

EGA
EVA
ENA
LINCS
PAXDB
Cell Collective

MetaboLights
Metabolomics Workbench
MetabolomeExpress
GNPS
BioModels
FAIRDOMHub

ArrayExpress
dbGaP
ExpressionAtlas
GEO
NODE

Information

Databases
Help
API
Contact us
Code on GitHub
Terms of use
Submit Data