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. Author manuscript; available in PMC: 2016 Jan 1.
Published in final edited form as: Front Biosci. 2004 Sep 1;9:2807–2818. doi: 10.2741/1438

Table A2.

Partial Charges, Topology, and Atom Type Assignments

Charges
Atom Type Topology 1R(+)-B[c]Ph 1S(–)-B[c]Ph
dA: HO5 HO M 0.369402 0.384554
O5′ OH M −0.597676 −0.640506
C5′ CT M 0.063023 0.215272
H5′1 H1 E 0.077803 0.032584
H5′2 H1 E 0.121727 0.075972
C4′ CT M 0.032341 0.003844
H4′ H1 E 0.115023 0.093768
O1′ OS S −0.356514 −0.350765
C1′ CT B 0.054737 −0.002370
H1′ H2 E 0.127963 0.199964
N9 N* S 0.039077 −0.029234
C8P CK B −0.016961 0.051096
H8P H5 E 0.173580 0.192984
N7 NB S −0.427606 −0.485960
C5P CB S 0.024748 0.071670
C4P CB S 0.375799 0.411124
N3 NC S −0.688109 −0.737523
C2P CQ B 0.591722 0.627065
H2P H5 E 0.046343 0.040777
N1 NC S −0.644863 −0.654923
C6P CA S 0.483293 0.463303
N6 N2 B −0.562482 −0.546219
HN6 H E 0.333586 0.329206
C3′ CT M 0.205377 0.337776
H3′ H1 E 0.126271 0.093759
C2′ CT B −0.130653 −0.267874
H2′1 HC E 0.083002 0.118957
H2′2 HC E 0.067844 0.075082
O3′ OH M −0.651333 −0.673750
HO3 HO M 0.408315 0.413234
B[c]Ph: C1Z CT B −0.012501 0.009626
H1Z H1 E 0.148079 0.128628
C2Z CT 3 0.009910 0.067960
H2Z H1 E 0.156274 0.147212
O2Z OH S −0.600130 −0.610844
HO2Z HO E 0.373496 0.372272
C3Z CT 3 0.201143 0.200388
H3Z H1 E 0.111411 0.094092
O3Z OH S −0.657781 −0.659476
HO3Z HO E 0.426531 0.419514
C4Z CT 3 0.156935 0.226752
H4Z H1 E 0.037687 0.015203
O4Z OH S −0.631642 −0.644431
HO4Z HO E 0.411246 0.411158
C4A CA S 0.020305 0.002818
C5Z CA B −0.126848 −0.150585
H5Z HA E 0.145944 0.149816
C6Z CA B −0.234776 −0.201667
H6Z HA E 0.161741 0.155844
C6A CA S 0.064061 0.065413
C7Z CA B −0.125625 −0.164495
H7Z HA E 0.130481 0.137207
C8Z CA B −0.267977 −0.215210
H8Z HA E 0.155668 0.144279
C8A CA S 0.179590 0.148056
C9Z CA B −0.209005 −0.214245
H9Z HA E 0.147059 0.152141
C10 CA B −0.136028 −0.150137
H10 HA E 0.136226 0.138240
C11 CA B −0.110064 −0.060934
H11 HA E 0.138868 0.108273
C12 CA B −0.236757 −0.301061
H12 HA E 0.167586 0.194036
C8B CA S 0.065726 0.089404
C6B CA S −0.011029 0.010791
C4B CA E −0.030583 −0.058906