Guided Ideographic Spin System Model Optimization

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Mixture Simulation

Mol to jpg conversion

Simulation: simulation_1

BMRB entry

ALATIS cross link

Gateway cross link

Download simulation data

View entry XML

Download entry NMR-STAR

Download entry NMReDATA

External links:

NMRFAM Servers

pKa (R. Williams)

1H NMR (Hans J. Reich)

2-Deoxycytidine

Simulation outputs:

InChI=1S/C9H13N3O4/c10-7-1-2-12(9(15)11-7)8-3-5(14)6(4-13)16-8/h1-2,5-6,8,13-14H,3-4H2,(H2,10,11,15)/t5-,6+,8+/m1/s1 Parameter Value
Field strength 499.84(MHz)
RMSD of the fit 0.01450
Temperature 298 K
pH 7.4
InChI InChI=1S/C9H13N3O4/c10-7-1-2-12(9(15)11-7)8-3-5(14)6(4-13)16-8/h1-2,5-6,8,13-14H,3-4H2,(H2,10,11,15)/t5-,6+,8+/m1/s1
Note 1 17?18

Sample description:

Compound Type Concentration
2'-Deoxycytidine Solute 100mM
D2O Solvent 100%
sodium phosphate Buffer 50mM
sodium azide Cytocide 500uM
DSS Reference 500uM
Show/Hide Spin System Matrix

Spin System Matrix

19 20 23 24 25 17 18 21 22
19 2.287 -13.221 6.586 0 6.516 0 0 0 0
20 0 2.422 4.083 0 6.516 0 0 0 0
23 0 0 4.431 3.949 0 0 0 0 0
24 0 0 0 4.051 0 0 0 3.43 5.165
25 0 0 0 0 6.26 0 0 0 0
17 0 0 0 0 0 7.819 7.493 0 0
18 0 0 0 0 0 0 6.038 0 0
21 0 0 0 0 0 0 0 3.833 -12.408
22 0 0 0 0 0 0 0 0 3.754

Spectra

Select field strength to view simulated spectra and peak lists (standard and GSD): Autoscale

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PPM Amplitude Peak Type
0.212333 standard
0.4145 standard
0.511115 standard
0.602983 standard
0.310178 standard
0.319431 standard
0.364615 standard
0.366052 standard
0.351711 standard
0.266223 standard
0.253041 standard
0.25012 standard
0.21826 standard
0.352895 standard
0.381272 standard
0.644578 standard
0.686725 standard
0.670652 standard
0.713068 standard
0.375086 standard
0.385651 standard
0.312878 standard
0.615588 standard
0.58233 standard
0.289419 standard
0.292726 standard
0.561687 standard
0.4314 standard
0.424442 standard
0.557503 standard
0.284956 standard
0.994432 standard
0.994454 standard
0.514392 standard
1.0 standard
0.513996 standard
0.99428 standard
0.99428 standard
0.0126871 standard
0.0231531 standard
0.212119 standard
0.227033 standard
0.523975 standard
0.395313 standard
0.0218311 standard
0.0111611 standard
0.273116 standard
0.395883 standard
1.0 standard
0.27888 standard
0.301116 standard
0.197107 standard
0.169699 standard
0.127678 standard
0.167788 standard
0.209527 standard
0.163399 standard
0.0797071 standard
0.340069 standard
0.51838 standard
0.380157 standard
0.180985 standard
0.405336 standard
0.332626 standard
0.0216763 standard
0.0383121 standard
0.213912 standard
0.243674 standard
0.456653 standard
0.294718 standard
0.305335 standard
0.293686 standard
0.0295812 standard
0.0318443 standard
0.0184041 standard
0.0208161 standard
0.031037 standard
0.35924 standard
0.445324 standard
1.0 standard
0.205215 standard
0.311359 standard
0.212 standard
0.206123 standard
0.107566 standard
0.150674 standard
0.228008 standard
0.197155 standard
0.161386 standard
0.200163 standard
0.096756 standard
0.387925 standard
0.46082 standard
0.262358 standard
0.416607 standard
0.205995 standard
0.437827 standard
0.384314 standard
0.0374451 standard
0.0666693 standard
0.256356 standard
0.53841 standard
0.359819 standard
0.379687 standard
0.373387 standard
0.2921 standard
0.0468243 standard
0.049929 standard
0.0327051 standard
0.035781 standard
0.048634 standard
0.450956 standard
0.565218 standard
1.0 standard
0.068796 standard
0.245798 standard
0.36502 standard
0.265829 standard
0.273789 standard
0.13311 standard
0.175172 standard
0.285304 standard
0.231902 standard
0.201829 standard
0.26267 standard
0.126949 standard
0.489979 standard
0.544329 standard
0.281027 standard
0.517263 standard
0.262233 standard
0.53691 standard
0.487407 standard
0.048127 standard
0.0874644 standard
0.292474 standard
0.707572 standard
0.398397 standard
0.548139 standard
0.31611 standard
0.0590336 standard
0.062626 standard
0.0428992 standard
0.047442 standard
0.062359 standard
0.512807 standard
0.664323 standard
1.0 standard
0.0711712 standard
0.242645 standard
0.414042 standard
0.320354 standard
0.15362 standard
0.196269 standard
0.327913 standard
0.262328 standard
0.23244 standard
0.306295 standard
0.149299 standard
0.566259 standard
0.617816 standard
0.311998 standard
0.593439 standard
0.305788 standard
0.612136 standard
0.563909 standard
0.0577051 standard
0.105771 standard
0.31814 standard
0.797916 standard
0.451967 standard
0.615138 standard
0.328076 standard
0.0698746 standard
0.0740801 standard
0.052447 standard
0.0587611 standard
0.0751848 standard
0.550443 standard
0.76048 standard
1.00001 standard
0.90957 standard
0.0791134 standard
0.084628 standard
0.250198 standard
0.445612 standard
0.353381 standard
0.168038 standard
0.209117 standard
0.356707 standard
0.282016 standard
0.253503 standard
0.338943 standard
0.165085 standard
0.619458 standard
0.665727 standard
0.336552 standard
0.644574 standard
0.332175 standard
0.661232 standard
0.617361 standard
0.15265 standard
0.293051 standard
0.502064 standard
0.725974 standard
0.395123 standard
0.398437 standard
0.447439 standard
0.440622 standard
0.411103 standard
0.218525 standard
0.181095 standard
0.1823 standard
0.150782 standard
0.196431 standard
0.225564 standard
0.76064 standard
0.963656 standard
0.86232 standard
0.93389 standard
0.21604 standard
0.220583 standard
0.332793 standard
0.648192 standard
0.571654 standard
0.274289 standard
0.298739 standard
0.55592 standard
0.425493 standard
0.408813 standard
0.553559 standard
0.274756 standard
0.980111 standard
1.0 standard
0.512683 standard
0.995243 standard
0.512058 standard
0.998856 standard
0.97932 standard
0.18402 standard
0.357551 standard
0.507571 standard
0.662601 standard
0.343615 standard
0.351335 standard
0.401732 standard
0.400422 standard
0.380125 standard
0.242353 standard
0.219589 standard
0.218386 standard
0.186696 standard
0.271447 standard
0.302292 standard
0.708607 standard
0.799796 standard
0.746072 standard
0.819186 standard
0.291716 standard
0.301659 standard
0.321075 standard
0.631973 standard
0.578428 standard
0.282877 standard
0.296125 standard
0.560873 standard
0.428262 standard
0.41773 standard
0.558182 standard
0.28002 standard
0.994958 standard
0.99506 standard
0.514576 standard
1.00022 standard
0.514608 standard
0.994684 standard
0.994683 standard
0.201158 standard
0.392402 standard
0.50891 standard
0.625732 standard
0.322605 standard
0.331676 standard
0.377452 standard
0.377783 standard
0.362313 standard
0.256722 standard
0.240631 standard
0.238312 standard
0.206094 standard
0.319942 standard
0.349841 standard
0.670209 standard
0.729371 standard
0.69948 standard
0.753837 standard
0.340717 standard
0.351501 standard
0.315073 standard
0.618242 standard
0.583964 standard
0.286654 standard
0.294468 standard
0.560777 standard
0.428244 standard
0.420626 standard
0.558047 standard
0.281756 standard
0.994521 standard
0.994563 standard
0.514348 standard
1.0 standard
0.514274 standard
0.994286 standard
0.994286 standard
0.212307 standard
0.414453 standard
0.511021 standard
0.602849 standard
0.310104 standard
0.319349 standard
0.364499 standard
0.365935 standard
0.351608 standard
0.266155 standard
0.252987 standard
0.250068 standard
0.21823 standard
0.352874 standard
0.381238 standard
0.644425 standard
0.68655 standard
0.670478 standard
0.712873 standard
0.37505 standard
0.385616 standard
0.312808 standard
0.615519 standard
0.581078 standard
0.289299 standard
0.292652 standard
0.561555 standard
0.431237 standard
0.424282 standard
0.557374 standard
0.284887 standard
0.994491 standard
0.994512 standard
0.51432 standard
1.0 standard
0.514258 standard
0.994338 standard
0.994338 standard
0.220006 standard
0.430096 standard
0.510728 standard
0.5872 standard
0.301818 standard
0.311057 standard
0.353235 standard
0.355461 standard
0.344131 standard
0.271901 standard
0.261939 standard
0.25887 standard
0.226604 standard
0.376717 standard
0.403177 standard
0.626033 standard
0.658208 standard
0.648669 standard
0.683717 standard
0.399142 standard
0.408627 standard
0.314285 standard
0.611735 standard
0.58412 standard
0.286213 standard
0.287427 standard
0.56109 standard
0.425234 standard
0.426113 standard
0.560044 standard
0.288026 standard
0.994604 standard
0.994616 standard
0.514413 standard
1.0 standard
0.513992 standard
0.994497 standard
0.994497 standard
0.225571 standard
0.440903 standard
0.512387 standard
0.575739 standard
0.295472 standard
0.305214 standard
0.346444 standard
0.348765 standard
0.337847 standard
0.276166 standard
0.268975 standard
0.265672 standard
0.232894 standard
0.394621 standard
0.419605 standard
0.611806 standard
0.636961 standard
0.632614 standard
0.662225 standard
0.421108 standard
0.425954 standard
0.311977 standard
0.615349 standard
0.586199 standard
0.287682 standard
0.287797 standard
0.560639 standard
0.427806 standard
0.42879 standard
0.558988 standard
0.288524 standard
0.994688 standard
0.994696 standard
0.514166 standard
1.0 standard
0.514155 standard
0.994609 standard
0.994609 standard
0.22796 standard
0.445205 standard
0.512291 standard
0.571319 standard
0.293372 standard
0.302922 standard
0.343095 standard
0.345604 standard
0.336562 standard
0.279173 standard
0.272971 standard
0.269624 standard
0.235468 standard
0.401829 standard
0.426154 standard
0.606233 standard
0.628764 standard
0.627715 standard
0.655196 standard
0.433174 standard
0.434022 standard
0.312188 standard
0.612261 standard
0.587578 standard
0.287781 standard
0.288102 standard
0.561452 standard
0.42662 standard
0.426626 standard
0.561453 standard
0.28811 standard
0.995084 standard
0.99509 standard
0.514071 standard
1.0 standard
0.514062 standard
0.994679 standard
0.994679 standard
0.229697 standard
0.448737 standard
0.50983 standard
0.567125 standard
0.291065 standard
0.300612 standard
0.34269 standard
0.34517 standard
0.334096 standard
0.280082 standard
0.274827 standard
0.271508 standard
0.237173 standard
0.406853 standard
0.42295 standard
0.60063 standard
0.620484 standard
0.632388 standard
0.648802 standard
0.439164 standard
0.435729 standard
0.3105 standard
0.597401 standard
0.586287 standard
0.29451 standard
0.287935 standard
0.56161 standard
0.430005 standard
0.429757 standard
0.562092 standard
0.288068 standard
0.994724 standard
0.994729 standard
0.514226 standard
1.0 standard
0.514218 standard
0.994663 standard
0.994663 standard
0.233074 standard
0.455984 standard
0.509121 standard
0.560351 standard
0.28757 standard
0.297334 standard
0.33798 standard
0.340728 standard
0.331855 standard
0.283853 standard
0.278223 standard
0.274705 standard
0.240798 standard
0.426236 standard
0.433667 standard
0.59182 standard
0.597527 standard
0.6201 standard
0.624875 standard
0.448073 standard
0.441855 standard
0.300099 standard
0.587376 standard
0.593033 standard
0.300226 standard
0.287898 standard
0.558604 standard
0.42919 standard
0.429181 standard
0.558602 standard
0.287883 standard
0.994606 standard
0.994609 standard
0.514171 standard
1.0 standard
0.514165 standard
0.994557 standard
0.994557 standard
0.234332 standard
0.457699 standard
0.512066 standard
0.557637 standard
0.286168 standard
0.296313 standard
0.335547 standard
0.338391 standard
0.33002 standard
0.284197 standard
0.279272 standard
0.27568 standard
0.242632 standard
0.430528 standard
0.438128 standard
0.599102 standard
0.594117 standard
0.615411 standard
0.620086 standard
0.453946 standard
0.448028 standard
0.301223 standard
0.600908 standard
0.600241 standard
0.298945 standard
0.287317 standard
0.558676 standard
0.423789 standard
0.423789 standard
0.558675 standard
0.287316 standard
0.994328 standard
0.994331 standard
0.514228 standard
1.0 standard
0.514223 standard
0.994707 standard
0.994707 standard
0.235477 standard
0.460095 standard
0.50861 standard
0.555135 standard
0.284748 standard
0.295051 standard
0.335978 standard
0.338269 standard
0.329299 standard
0.286546 standard
0.28004 standard
0.27636 standard
0.243841 standard
0.434691 standard
0.442335 standard
0.594902 standard
0.589659 standard
0.614271 standard
0.618698 standard
0.456601 standard
0.450814 standard
0.300508 standard
0.586734 standard
0.586727 standard
0.300503 standard
0.287856 standard
0.560511 standard
0.432082 standard
0.433208 standard
0.558096 standard
0.287179 standard
0.994625 standard
0.994627 standard
0.514038 standard
1.0 standard
0.514034 standard
0.995031 standard
0.995031 standard
0.237815 standard
0.465524 standard
0.511884 standard
0.552241 standard
0.282683 standard
0.292806 standard
0.32991 standard
0.332987 standard
0.327214 standard
0.287172 standard
0.283925 standard
0.280888 standard
0.246518 standard
0.441585 standard
0.449113 standard
0.588227 standard
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0.604252 standard
0.608696 standard
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0.457688 standard
0.300923 standard
0.593665 standard
0.59366 standard
0.300919 standard
0.288499 standard
0.561383 standard
0.421797 standard
0.42339 standard
0.558411 standard
0.287742 standard
0.994667 standard
0.994669 standard
0.514032 standard
1.0 standard
0.514029 standard
0.994634 standard
0.994634 standard
0.240982 standard
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0.511202 standard
0.543374 standard
0.279283 standard
0.288532 standard
0.327064 standard
0.330819 standard
0.322904 standard
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0.283204 standard
0.249248 standard
0.451836 standard
0.459689 standard
0.57762 standard
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0.593285 standard
0.597503 standard
0.476396 standard
0.471363 standard
0.298763 standard
0.599648 standard
0.599645 standard
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0.287225 standard
0.561765 standard
0.4243 standard
0.422615 standard
0.560826 standard
0.287143 standard
0.994648 standard
0.99465 standard
0.513735 standard
1.0 standard
0.514608 standard
0.994625 standard
0.994625 standard
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