Conformational analysis of natural products

Hydroxymethyl conformation from coupling constants - derivatives

Populations are calculated using the limiting values of Stenutz et al.[1]. The experimental 3JH,H values are taken from a variety of sources.
The θ torsion is defined here as C5-C6-O6-X, i.e. H or glycosyl/alkyl. The amount of trans can be estimated from 2JH6R,H6S if the amounts of the ω rotamers are known.
The ω rotamers are estimated to be accurate to about +-5%, but the error in θ is larger since 1) the relationship between 2JH6R,H6S is less reliable and 2) the ω rotamer populations are required. An error of at least +-10% is to be expected.
[1] R. Stenutz, I. Carmichael, G. Widmalm and A.S. Serianni, J. Org. Chem. 67 (2002) 949-958 DOI 10.1021/jo010985i
Rotamer distribution
Coupling constants Rotamers
Compound δH6R-δH6S 3JH5,H6R 3JH5,H6S 2JH6R,H6S Pgt Pgg Ptg θtrans
α-D-glucopyranose -0.095.801.00 5748-4
β-D-glucopyranose -0.186.002.10 54397
penta-O-acetyl-α-D-glucopyranose (CDCl3) 0.204.302.10 35578
methyl α-D-glucopyranoside -0.135.402.30 474410
methyl α-D-glucopyranoside (DMSO:D2O 19:1) -0.205.901.50 56431
methyl α-D-glucopyranoside (DMSO) -0.166.101.00 6044-4
methyl β-D-glucopyranoside -0.215.802.00-12.30 52416 11
methyl tetra-O-acetyl-α-D-glucopyranoside (C6D6) 0.174.602.40 375211
methyl tetra-O-benzoyl-α-D-glucopyranoside (CDCl3) -0.125.102.90 414316
methyl tetra-O-benzoyl-α-D-glucopyranoside (C6D6:CDCl3 1:1) -0.135.002.90 404416
methyl per-O-methyl-β-D-glucopyranoside -0.074.902.10-10.80 42508 60
methyl 2,3,4,6-tetra-O-trimethylsilyl-α-D-glucopyranoside -0.095.202.20-11.40 45479 40
methyl 2,3,4,6-tetra-O-trimethylsilyl-β-D-glucopyranoside -0.125.101.90-11.40 45505 41
methyl 2,3,4-tri-O-trimethylsilyl-α-D-glucopyranoside -0.114.602.50-11.60 375112 32
methyl 2-O-benzyl-α-D-glucopyranoside (CDCl3) 4.802.20-12.00 40519 20
methyl 2-O-benzyl-β-D-glucopyranoside (CDCl3) -0.084.703.30-11.80 354520 22
methyl 3,4,6-tri-O-acetyl-2-O-benzyl-α-D-glucopyranoside (CDCl3) 0.234.402.00-12.40 37577 7
methyl 3,4,6-tri-O-acetyl-2-O-benzyl-β-D-glucopyranoside (CDCl3) -0.184.802.40-12.00 405011 19
methyl 3-O-benzyl-β-D-glucopyranoside (CDCl3) -0.114.903.60-11.80 364123 21
methyl 2,4,6-tri-O-acetyl-3-O-benzyl-α-D-glucopyranoside (CDCl3) 0.134.802.40-12.40 405011 6
methyl 2,4,6-tri-O-acetyl-3-O-benzyl-β-D-glucopyranoside (CDCl3) -0.114.802.40-12.00 405011 19
methyl 2,3-di-O-benzyl-β-D-glucopyranoside (CDCl3) -0.115.003.60-11.80 374023 21
methyl 4,6-di-O-acetyl-2,3-di-O-benzyl-α-D-glucopyranoside (CDCl3) 0.215.002.20-12.30 43499 10
methyl 4,6-di-O-acetyl-2,3-di-O-benzyl-β-D-glucopyranoside (CDCl3) 0.164.902.40-12.20 414911 12
methyl 2,3,4-tri-O-benzyl-β-D-glucopyranoside (CDCl3) -0.164.602.70-12.00 365014 18
methyl 6-O-acetyl-2,3,4-tri-O-benzyl-β-D-glucopyranoside (CDCl3) -0.114.201.60-12.40 36612 9
methyl 2,3,4-tri-O-benzyl-6-O-trityl-β-D-glucopyranoside (CDCl3) -0.353.602.00-10.00 28657 87
methyl 6-O-acetyl-β-D-glucopyranoside -0.134.902.30-12.30 414910 9
methyl 4-O-acetyl-β-D-glucopyranoside -0.205.902.20-12.50 53398 3
methyl 4-O-acetyl-β-D-glucopyranoside (CDCl3) -0.163.602.10-12.50 28658 4
methyl 4,6-di-O-acetyl-β-D-glucopyranoside 0.183.802.10-12.60 30628 0
methyl tetra-O-acetyl-β-D-glucopyranoside (CDCl3) 0.144.602.50-12.30 375112 9
methyl 2,3,4-tri-O-acetyl-β-D-glucopyranoside (CDCl3) -0.094.602.00-12.00 39547 21
methyl 4-O-acetyl-6-O-trityl-β-D-glucopyranoside (CDCl3) -0.135.102.10-10.30 44487 77
methyl 4-O-acetyl-2,3-di-O-benzyl-6-O-trityl-β-D-glucopyranoside (CDCl3) -0.074.902.10-10.30 42508 77
methyl 2,3,4,6-tetra-O-benzoyl-β-D-glucopyranoside (CDCl3) -0.154.603.30-12.10 334620 12
methyl 2,3,4-tri-O-acetyl-6-O-benzoyl-β-D-glucopyranoside (CDCl3) -0.184.603.10-12.10 344718 13
methyl 6-O-acetyl-2,3,4-tri-O-benzoyl-β-D-glucopyranoside (CDCl3) 0.064.603.10-12.20 344718 9
methyl 2,3,4,6-tetra-O-o-nitrobenzoyl-β-D-glucopyranoside (CDCl3) -0.144.502.50-12.60 365212 -1
α-D-mannopyranose -0.135.802.00 52416
β-D-mannopyranose -0.176.402.30 58339
methyl α-D-mannopyranoside -0.156.002.00 55396
methyl α-D-mannopyranoside -0.165.601.70-12.00 51453 22
methyl β-D-mannopyranoside -0.216.602.30 60319
methyl tetra-O-acetyl-α-D-mannopyranoside (CDCl3) 0.165.402.20 47448
methyl tetra-O-acetyl-α-D-mannopyranoside (CDCl3) 0.184.502.40-12.20 365311 12
methyl tetra-O-benzoyl-α-D-mannopyranoside (CDCl3) -0.214.602.70 365014
methyl 2,4-di-O-benzyl-3,6-di-O-benzoyl-α-D-mannopyranoside (CDCl3) -0.034.402.00 37577
methyl 2,4-di-O-benzyl-6-O-TBDMS-α-D-mannopyranoside (CDCl3) -0.015.401.00 5252-4
methyl 3,4,6-tri-O-benzyl-β-D-mannopyranoside (CDCl3) -0.055.402.00 48466
methyl 2,3,4,6-tetra-O-trimethylsilyl-α-D-mannopyranoside -0.096.002.00-11.50 55396 38
methyl 2,3,4-tri-O-trimethylsilyl-α-D-mannopyranoside -0.085.502.90-11.50 453916 34
methyl α-D-galactopyranoside 0.007.806.00 57-648
methyl β-D-galactopyranoside 0.048.004.30-11.50 67330 28
penta-O-acetyl-α-D-galactopyranose (CDCl3) -0.056.406.40 40753
methyl tetra-O-acetyl-β-D-galactopyranoside (CDCl3) -0.067.206.50-11.50 48-254 19
methyl tetra-O-benzoyl-α-D-galactopyranoside (C6D6:CDCl3 1:1) 0.277.105.70 51445
methyl 2,3,4-tri-O-methyl-α-D-galactopyranoside 6-(dimethylphosphate) (CCl4) -0.066.725.97 45648
methyl 2,3,4-tri-O-methyl-α-D-galactopyranoside 6-(dimethylphosphate) -0.118.094.15 68329
methyl 2,3,4-tri-O-methyl-β-D-galactopyranoside 6-(dimethylphosphate) (CCl4) -0.076.126.52 36954
methyl 2,3,4-tri-O-methyl-β-D-galactopyranoside 6-(dimethylphosphate) -0.068.114.66 67-034
methyl α-D-galactopyranoside 6-(diphenylphosphate) (methanol-d4) 0.048.223.91-10.59 71326 60
methyl β-D-galactopyranoside 6-(diphenylphosphate) (methanol-d4) 0.057.834.13-10.72 66628 55
methyl 6-O-trityl-α-D-galactopyranoside (methanol-d4) 0.177.004.98-9.68 531038 86
methyl 6-O-trityl-α-D-galactopyranoside (acetone-d6) 0.126.865.13-9.33 511039 97
methyl 6-O-trityl-β-D-galactopyranoside (methanol-d4) 0.166.685.26-9.56 481141 88
methyl 6-O-trityl-β-D-galactopyranoside (acetone-d6) 0.156.705.35-9.26 481042 98
methyl 3,4-O-isopropylidene-α-D-galactopyranoside (CDCl3) 0.136.274.45-11.60 472132 24
methyl 3,4-O-isopropylidene-β-D-galactopyranoside (CDCl3) 0.176.683.90-11.40 542026 33
methyl 4-deoxy-4-fluoro-6-O-trityl-α-D-galactopyranoside -0.066.506.50-9.00 41554 102
methyl 2,3,6-tri-O-acetyl-4-deoxy-4-fluoro-α-D-galactopyranoside -0.086.507.00-11.50 39259 16
methyl 6-O-pivaloyl-α-D-galactopyranoside 0.068.005.00-12.00 64-138 8
glycerol 6.504.30-11.70 501931 21
erythritol 6.503.30-12.00 552620 15
threitol 7.204.20-11.80 581229 18
arabinitol (1,2) 7.605.00-11.60 59338 22
arabinitol (4,5) 6.503.10-12.00 552718 16
ribitol 7.303.00-12.00 651917 17
xylitol 6.804.40-11.70 531532 21
methyl α-D-arabinofuranoside 6.103.10-12.20 513118 10
methyl α-D-ribofuranoside 4.803.10-12.40 374518 3
methyl α-D-xylofuranoside 6.003.80-12.20 472825 7
methyl β-D-arabinofuranoside 7.403.20-12.10 651619 13
methyl β-D-lyxofuranoside 7.604.50-11.90 62632 14
methyl β-D-ribofuranoside 6.603.10-12.20 572618 10
methyl β-D-xylofuranoside 7.604.40-11.90 62731 14
β-D-Glc(1->3)-β-D-Glc (red) -0.165.002.00-12.00 44506 21
β-D-Glc(1->3)-β-D-Glc (nonred) -0.205.402.00-12.00 48466 21
β-D-Glc(1->3)-β-D-Glc (per OAc, red, CDCl3) 0.094.201.60-12.20 36612 16
β-D-Glc(1->3)-β-D-Glc (per OAc, nonred, CDCl3) 0.324.802.20-12.30 40519 10
α-D-Glc(1->4)-β-D-Glc (red) -0.155.002.00-12.00 44506 21
α-D-Glc(1->4)-β-D-Glc (nonred) -0.095.002.00-12.00 44506 21
α-D-Glc(1->4)-β-D-GlcOMe (red) -0.215.001.80-12.00 44514 22
α-D-Glc(1->4)-β-D-GlcOpClPh (per OAc, red, CDCl3) -0.225.102.00-12.00 45496 21
α-D-Glc(1->4)-β-D-GlcOpClPh (per OAc, nonred, CDCl3) 0.164.602.00-12.00 39547 21
β-D-Glc(1->4)-β-D-Glc (red) -0.155.602.00-12.00 50446 21
β-D-Glc(1->4)-β-D-Glc (nonred) -0.174.402.00-12.00 37577 21
β-D-Glc(1->4)-β-D-GlcOoClPh (per OAc, red, CDCl3) -0.425.601.50-12.00 52471 23
β-D-Glc(1->4)-β-D-GlcOoClPh (per OAc, nonred, CDCl3) 0.324.401.60-12.40 39592 9
α-D-Glc(1->6)-α-DGlc (red) 0.284.301.80 37594
α-D-Glc(1->6)-α-DGlc (per OAc, red, CDCl3) 0.195.802.30 51399
α-D-Glc(1->6)-α-DGlc (per OBz, red, CDCl3) 0.336.402.00 59356
α-D-Glc(1->6)-β-D-Glc (red) 0.314.002.00-11.40 32617 41
α-D-Glc(1->6)-β-D-Glc (nonred) -0.084.802.00-12.00 41526 21
α-D-Glc(1->6)-β-D-Glc (per OAc, red, CDCl3) 0.064.102.90-11.30 305416 40
α-D-Glc(1->6)-β-D-Glc (per OAc, non, CDCl3) 0.194.502.10-12.40 38558 7
β-D-Glc(1->6)-α-D-Glc (red) -0.365.702.00 51426
β-D-Glc(1->6)-α-D-Glc (per OAc, red, CDCl3) -0.267.301.80 70264
β-D-Glc(1->6)-α-D-Glc (per OBz, red, CDCl3) -0.238.201.90 79165
α-D-Glc(1->6)-β-D-GlcOMe (red) 0.224.301.80-11.00 37594 55
α-D-Man(1->6)-β-DManOMe (red) 0.145.601.90 51445
β-D-Man(1->6)-β-DManOMe (red) -0.375.801.90 53425
α-D-Gal(1->6)α-D-Gal (red) 0.177.404.90 58637
α-D-Gal(1->6)α-D-Gal (per OAc, red, CDCl3) 0.316.206.20 391151
α-D-Gal(1->6)α-D-Gal (per OBz, red, CDCl3) 0.257.703.90 65926
β-D-Gal(1->6)α-D-Gal (red) -0.208.204.30 69130
β-D-Gal(1->6)α-D-Gal (per OAc, red, CDCl3) -0.197.703.70 661024
β-D-Gal(1->6)α-D-Gal (per OBz, red, CDCl3) -0.388.203.80 71425
α-D-Glc(1->6)[α-D-Glc(1->4)]β-D-GlcOMe 0.065.201.80 47494
α-D-Glc(1->6)[α-D-Glc(1->4)]β-D-GlcOMe 0.055.802.20-11.60 52408 33
α-D-Glc(1->6)[α-D-Glc(1->4)]β-D-GlcOMe (per OAc, CDCl3) 0.044.502.10 38558
α-D-Glc(1->6)[α-D-Glc(1->4)]β-D-GlcOMe (per OBz, CDCl3) 0.005.601.80 51454
β-D-Glc(1->6)[α-D-Glc(1->4)]β-D-GlcOMe -0.355.401.80 49474
β-D-Glc(1->6)[α-D-Glc(1->4)]β-D-GlcOMe (per OAc, CDCl3) -0.256.202.00 57376
β-D-Glc(1->6)[α-D-Glc(1->4)]β-D-GlcOMe (per OBz, CDCl3) -0.366.701.60 64342
α-D-Glc(1->6)[β-D-Glc(1->4)]β-D-GlcOMe 0.114.801.80 42534
α-D-Glc(1->6)[β-D-Glc(1->4)]β-D-GlcOMe (per OAc, CDCl3) 0.212.901.60 22753
α-D-Glc(1->6)[β-D-Glc(1->4)]β-D-GlcOMe (per OBz, CDCl3) 0.083.501.50 29691
β-D-Glc(1->6)[β-D-Glc(1->4)]β-D-GlcOMe -0.353.802.10 30628
β-D-Glc(1->6)[β-D-Glc(1->4)]β-D-GlcOMe (per OAc, CDCl3) -0.235.701.80 52444
β-D-Glc(1->6)[β-D-Glc(1->4)]β-D-GlcOMe (per OBz, CDCl3) -0.294.901.70 44533
per-O-acetyl-α-Cyclodextrin (C6D6) -0.054.202.10-12.20 34588 14