C19 H25 N2 O10 P
472.383
DT
2'-O-[2-(BENZYLOXY)ETHYL] THYMIDINE-5'-MONOPHOSPHATE
T
N
0
N
2004-12-21
1YBC
Y
2011-06-04
RCSB
REL
ATOMN
BOE
RNA linking
P
0
-4.500
5.987
7.477
1
N
P
BOE
N
2.787
0.324
-4.407
1
N
P
O1P
0
-5.715
6.689
6.969
1
N
OP1
BOE
N
3.659
1.172
-5.286
2
N
O
O2P
0
-4.660
4.712
8.206
1
N
OP2
BOE
N
1.198
0.588
-4.548
3
N
O
O5*
0
-3.573
5.777
6.211
1
N
O5'
BOE
N
3.063
0.476
-2.819
4
N
O
C5*
0
-3.357
6.864
5.306
1
N
C5'
BOE
N
2.282
-0.292
-1.921
5
N
C
C4*
0
-2.328
6.487
4.282
1
N
C4'
BOE
N
2.725
0.023
-0.498
6
R
C
O4*
0
-1.039
6.300
4.928
1
N
O4'
BOE
N
2.470
1.422
-0.246
7
N
O
C1*
0
-0.318
5.272
4.258
1
N
C1'
BOE
N
1.373
1.543
0.675
8
R
C
N1
0
-0.061
4.162
5.217
1
N
N1
BOE
N
0.452
2.524
0.177
9
N
N
C6
0
-0.850
3.927
6.327
1
N
C6
BOE
N
0.309
2.663
-1.199
10
N
C
C2
0
1.021
3.366
4.929
1
N
C2
BOE
N
-0.300
3.336
1.055
11
N
C
O2
0
1.733
3.570
3.961
1
N
O2
BOE
N
-0.225
3.269
2.283
12
N
O
N3
0
1.234
2.326
5.808
1
N
N3
BOE
N
-1.159
4.248
0.431
13
N
N
C4
0
0.473
2.017
6.921
1
N
C4
BOE
N
-1.338
4.427
-0.932
14
N
C
O4
0
0.748
1.038
7.606
1
N
O4
BOE
N
-2.112
5.251
-1.413
15
N
O
C5
0
-0.643
2.906
7.176
1
N
C5
BOE
N
-0.514
3.537
-1.792
16
N
C
C5M
0
-1.512
2.626
8.357
1
N
C5M
BOE
N
-0.651
3.669
-3.275
17
N
C
C2*
0
-1.171
4.813
3.073
1
N
C2'
BOE
N
0.748
0.163
0.786
18
R
C
O2*
0
-0.948
5.711
1.973
1
N
O2'
BOE
N
0.137
-0.058
2.041
19
N
O
CB'
0
0.361
5.685
1.432
1
N
CB'
BOE
N
-0.332
-1.396
2.174
20
N
C
CC'
0
0.346
6.681
0.289
1
N
CC'
BOE
N
-0.951
-1.569
3.547
21
N
C
OD'
0
-0.793
6.285
-0.457
1
N
OD'
BOE
N
0.039
-1.320
4.537
22
N
O
CE'
0
-0.877
6.743
-1.793
1
N
CE'
BOE
N
-0.494
-1.447
5.849
23
N
C
CF'
0
-2.013
5.991
-2.454
1
Y
CF'
BOE
N
0.593
-1.175
6.847
24
N
C
CG'
0
-3.338
6.303
-2.174
1
Y
CG'
BOE
N
1.381
-2.222
7.309
25
N
C
CH'
0
-4.362
5.584
-2.793
1
Y
CH'
BOE
N
2.391
-1.969
8.237
26
N
C
CI'
0
-4.087
4.557
-3.689
1
Y
CI'
BOE
N
2.606
-0.670
8.697
27
N
C
CJ'
0
-2.759
4.250
-3.968
1
Y
CJ'
BOE
N
1.811
0.376
8.228
28
N
C
CK'
0
-1.732
4.965
-3.352
1
Y
CK'
BOE
N
0.801
0.123
7.300
29
N
C
C3*
0
-2.563
5.165
3.567
1
N
C3'
BOE
N
1.940
-0.742
0.560
30
R
C
O3*
0
-3.500
5.245
2.514
1
N
O3'
BOE
N
2.742
-0.809
1.739
31
N
O
O3P
0
1
N
OP3
BOE
Y
2.921
-1.270
-4.647
32
N
O
2HOP
0
-3.887
4.265
8.529
0
N
HOP2
BOE
N
0.799
0.616
-5.443
33
N
H
1H5*
0
-3.088
7.805
5.841
1
N
H5'
BOE
N
1.229
-0.035
-2.051
34
N
H
2H5*
0
-4.307
7.209
4.835
0
N
H5''
BOE
N
2.428
-1.352
-2.133
35
N
H
H4*
0
-2.380
7.323
3.546
1
N
H4'
BOE
N
3.804
-0.139
-0.410
36
N
H
H1*
0
0.669
5.629
3.881
1
N
H1'
BOE
N
1.754
1.910
1.633
37
N
H
H6
0
-1.698
4.596
6.549
1
N
H6
BOE
N
0.928
1.995
-1.790
38
N
H
HN3
0
2.035
1.725
5.616
1
N
HN3
BOE
N
-1.709
4.843
1.045
39
N
H
1H5M
0
-2.559
2.537
7.983
1
N
H71
BOE
N
-1.057
2.748
-3.690
40
N
H
2H5M
0
-1.340
1.779
9.061
1
N
H72
BOE
N
0.324
3.866
-3.719
41
N
H
3H5M
0
-1.552
3.559
8.966
1
N
H73
BOE
N
-1.320
4.497
-3.510
42
N
H
H2*
0
-0.984
3.757
2.768
1
N
H2'
BOE
N
-0.000
0.004
-0.000
43
N
H
1HB'
0
0.703
4.666
1.135
0
N
HB'1
BOE
N
-1.066
-1.580
1.383
44
N
H
2HB'
0
1.161
5.878
2.184
0
N
HB'2
BOE
N
0.520
-2.071
2.050
45
N
H
1HC'
0
1.293
6.733
-0.297
0
N
HC'1
BOE
N
-1.324
-2.588
3.686
46
N
H
2HC'
0
0.350
7.751
0.602
0
N
HC'2
BOE
N
-1.768
-0.855
3.691
47
N
H
1HE'
0
0.087
6.653
-2.347
0
N
HE'1
BOE
N
-0.897
-2.458
5.974
48
N
H
2HE'
0
-0.984
7.850
-1.869
0
N
HE'2
BOE
N
-1.320
-0.738
5.971
49
N
H
HG'
0
-3.575
7.115
-1.466
1
N
HG'
BOE
N
1.221
-3.238
6.957
50
N
H
HH'
0
-5.413
5.833
-2.569
1
N
HH'
BOE
N
3.011
-2.783
8.602
51
N
H
HI'
0
-4.907
3.997
-4.169
1
N
HI'
BOE
N
3.393
-0.473
9.419
52
N
H
HJ'
0
-2.520
3.440
-4.677
1
N
HJ'
BOE
N
1.979
1.388
8.586
53
N
H
HK'
0
-0.682
4.715
-3.578
1
N
HK'
BOE
N
0.187
0.944
6.941
54
N
H
H3*
0
-3.015
4.395
4.234
1
N
H3'
BOE
N
1.675
-1.764
0.277
55
N
H
H3T
0
-3.647
4.419
2.068
0
N
HO3'
BOE
Y
3.447
-0.153
1.628
56
N
H
3HOP
0
0.773
-0.447
0.323
0
N
HOP3
BOE
N
2.886
-1.617
-5.563
57
N
H
N
1
N
doub
N
2
N
sing
N
3
N
sing
N
4
N
sing
N
5
N
sing
N
6
N
sing
N
7
N
sing
N
8
N
sing
N
9
N
sing
N
10
N
sing
N
11
N
sing
N
12
N
sing
N
13
N
sing
N
14
N
sing
N
15
N
sing
N
16
N
sing
N
17
N
sing
N
18
N
sing
N
19
N
doub
N
20
N
sing
N
21
N
doub
N
22
N
sing
N
23
N
sing
N
24
N
sing
N
25
N
doub
N
26
N
sing
N
27
N
sing
N
28
N
sing
N
29
N
sing
N
30
N
sing
N
31
N
sing
N
32
N
sing
N
33
N
sing
N
34
N
sing
N
35
N
sing
N
36
N
sing
N
37
N
sing
N
38
N
sing
N
39
N
sing
N
40
N
sing
N
41
N
sing
N
42
N
sing
N
43
N
sing
N
44
N
sing
Y
45
N
doub
Y
46
N
sing
Y
47
N
sing
N
48
N
sing
Y
49
N
doub
N
50
N
sing
Y
51
N
sing
N
52
N
sing
Y
53
N
doub
N
54
N
sing
N
55
N
sing
N
56
N
sing
N
57
N
sing
N
58
N
sing
N
59
N
sing
RCSB
RCSB
RCSB
O=C1NC(=O)N(C=C1C)C3OC(C(O)C3OCCOCc2ccccc2)COP(=O)(O)O
CC1=CN([C@@H]2O[C@H](CO[P](O)(O)=O)[C@@H](O)[C@H]2OCCOCc3ccccc3)C(=O)NC1=O
CC1=CN([CH]2O[CH](CO[P](O)(O)=O)[CH](O)[CH]2OCCOCc3ccccc3)C(=O)NC1=O
CC1=CN(C(=O)NC1=O)[C@H]2[C@@H]([C@@H]([C@H](O2)COP(=O)(O)O)O)OCCOCc3ccccc3
CC1=CN(C(=O)NC1=O)C2C(C(C(O2)COP(=O)(O)O)O)OCCOCc3ccccc3
InChI=1S/C19H25N2O10P/c1-12-9-21(19(24)20-17(12)23)18-16(15(22)14(31-18)11-30-32(25,26)27)29-8-7-28-10-13-5-3-2-4-6-13/h2-6,9,14-16,18,22H,7-8,10-11H2,1H3,(H,20,23,24)(H2,25,26,27)/t14-,15-,16-,18-/m1/s1
LZEOXHFYJVFRES-YFHUEUNASA-N
2'-O-[2-(benzyloxy)ethyl]-5-methyluridine 5'-(dihydrogen phosphate)
[(2R,3R,4R,5R)-3-hydroxy-5-(5-methyl-2,4-dioxo-pyrimidin-1-yl)-4-(2-phenylmethoxyethoxy)oxolan-2-yl]methyl dihydrogen phosphate