The links below will take you to pages that list the components of the respective models, as well as the aligned listing and Delila instruction file used to generate each model.
Model
3 (Second Upgrade)
Model
2 (First Upgrade)
Model
1 (Original Model)
Note that the most recent model scan is on the left of this page, and the original scan is on the right.
Rank sorting and naming of OxyR sites for piece U00096
Model 3 Model 2 Model 1
2001Jan09.18:51:38 2000Aug15.14:08:31 2000Aug15.14:08:51
bits position name bits position name bits position name
29.319053 637851 dsbG 29.493802 637851 dsbG 26.003543 890054 grxA
27.002242 890054 grxA 27.020701 890054 grxA 23.066328 637851 dsbG
26.029183 710103 fur 25.619965 710103 fur 19.451017 638089 ahpC
22.961429 2467337 O16 24.339806 2467337 O16 19.066905 4131337 katG
21.802172 638089 ahpC 22.568299 638089 ahpC 15.994386 2467337 O16
19.124647 4603357 fhuF.2 18.044716 3666966 14.526879 710103 fur
18.257040 4603273 fhuF.1 17.702741 4603273 fhuF.1 13.937622 537879
17.994003 3666966 17.614065 4156029 oxyR 13.902829 4156029 oxyR
17.561130 4131337 katG 17.053110 2069355 flu 13.843331 2698016
17.398897 1762663 sufA 16.929778 4603357 fhuF.2 13.708360 1103699
17.334810 1475504 16.687538 4131337 katG 13.451616 77803
17.308212 2069355 flu 16.040748 3266461 13.328488 576117
16.365522 2167805 15.690341 1596260 13.188584 1524021
16.018299 3266461 15.505979 3272480 13.088919 3266461
15.815227 3272480 15.465853 1475504 12.714381 3406233
15.799885 1211333 15.121709 1118367 12.439521 1485303
15.523548 2698016 14.927323 2069377 12.358236 4071146
15.501646 1596260 14.562564 1211333 12.310838 848228 dps
15.322310 4156029 oxyR 14.315669 2698016 12.158836 502543
15.069787 1118367 14.123499 3681853 11.813813 4603357 fhuF.2
14.944591 3728709 13.764898 4515863 11.644263 3332953
14.918538 1994915 13.707019 77803 11.546151 234431
14.874270 2771647 13.577197 2167805 11.451015 3947846
14.870517 4258085 13.520089 1368411 11.416095 1596260
14.658079 2166305 13.201362 2716640 trxC 11.188313 3643862 gorA
14.318329 1635419 13.061688 3728709 10.995335 2271575
14.121559 3453098 12.993740 922026 10.907626 3593705
14.055865 4350518 12.940134 3188563 10.323916 3749675
13.943103 2069377 12.938927 645627 10.194033 2521042
13.688402 4515863 12.644024 848228 dps 10.105992 1415530
13.628378 1489550 12.603731 852932 9.918595 1994915
13.487644 3681853 12.592510 1544166 9.901853 231012
13.334752 1544166 12.447564 2271575 9.837484 1839528
13.248566 2244987 12.191195 576117 9.741871 1085734
13.246112 656380 12.093276 1994915 9.574278 922026
13.154854 576117 12.072694 3767484 9.532628 621434
13.136288 944478 11.961319 1493183 9.451618 1762663
13.123600 848228 dps 11.923692 4258577 9.421495 2069377
13.095937 578469 11.882707 2166305 9.351479 3358678
13.084356 852932 11.859866 4296460 9.333633 1489541
13.077641 4296460 11.842088 2651659 9.329336 4302097
12.982277 1368411 11.777929 502543 9.311170 4550475
12.954409 1389982 11.770875 2244987 9.222528 1408033
12.818226 77803 11.744510 656380 9.217730 656380
12.799185 611898 11.476927 343562 9.206235 1330089
12.628675 1103699 11.466545 1635419 9.059875 156283
12.529726 502543 11.449055 2771647 9.029956 297344
12.528242 3593705 11.425384 4350518 9.018056 3983883
12.450230 2772602 11.412871 2772602 8.994962 1675004
12.424173 2651659 11.377715 3453098 8.978017 931365
12.298228 479548 11.282106 2254854 8.947564 3630416
12.239617 2031613 11.202500 4258085 8.902226 3531476
12.229096 3841565 11.192274 480301 8.877880 658175
12.217008 3630416 11.161481 944478 8.870925 3225447
12.176737 4324630 11.158409 2536606 8.847587 533499
12.144058 1635963 11.095889 3630416 8.779596 535444
12.103564 1493183 10.964322 621434 8.748296 2244987
12.095688 922026 10.951789 1103699 8.638414 1771818
12.057429 3188563 10.876623 611898 8.632391 3681853
12.042572 4233311 10.824696 1489550 8.584221 3728709
12.025494 2536606 10.801436 3358360 8.579923 2823983
12.004722 480301 10.748981 1211342 8.568097 3766821
11.974133 3767484 10.743738 234101 8.556830 1847718
11.868801 702971 10.741234 3544212 8.556027 3666966
11.814642 569004 10.681068 2510819 8.555952 1182772
11.727834 2319358 10.621810 3372533 8.521031 2276485
11.694173 1168191 10.619460 2521042 8.451346 3372533
11.624717 578812 10.603208 3841565 8.426668 1307576
11.590410 3266070 10.582502 3184076 8.416798 527920
11.586658 3332953 10.512065 1762663 8.410603 1307096
11.579289 1211342 10.498940 1851197 8.283117 944478
11.504388 2890067 10.466531 4576205 8.270197 4576205
11.504320 645627 10.462414 889205 8.246169 4566311
11.453055 658175 10.374563 4045004 8.181858 2108946
11.418465 1210395 10.303032 996893 8.181629 3579767
11.411415 2271575 10.297403 702971 8.157283 3272480
11.410721 2716640 trxC 10.275869 3358678 8.100272 241909
11.404771 343562 10.254784 1790014 8.052677 1591880
11.375150 3920674 10.254443 4233311 8.047430 3235476
11.363324 3358678 10.248559 3767807 8.037384 294313
11.362327 2510819 10.236283 2890135 7.989138 2944573
11.293246 231012 10.203169 1732364 7.913346 3714616
11.234266 1790014 10.174065 2108946 7.889952 1702592
11.143020 3077235 10.165436 3497043 7.836534 1635134
11.097093 3805948 10.153613 1635963 7.832237 889205
11.057339 4258577 10.114139 4204814 7.830887 3186334
11.055667 234431 10.096078 3265630 7.761447 2479114
11.022887 3406233 10.085533 1675004 7.756201 2873890
10.954410 3544212 10.076445 3332953 7.748671 2284363
10.869346 2108946 10.049959 2784053 7.714984 2311266
10.854178 2890135 10.034711 1787617 7.702781 678935
10.794802 3983883 9.878239 2105805 7.697307 3755850
10.767777 3749675 9.853089 2983670 7.696127 4045004
10.766460 1489541 9.843705 3406233 7.667387 2069355 flu
10.720354 2041060 9.791394 3795826 7.666436 4296460
10.687077 996893 9.789598 1389982 7.607790 1118367
10.684527 234101 9.766105 578469 7.579923 3188563
10.680634 1675004 9.763261 3266070 7.578372 3901324
10.678116 1635134 9.761988 651283 7.497462 1870341
10.654151 1415530 9.742531 3694533 7.468563 3834348
10.649326 2599144 9.694401 2901839 7.467716 1648060
10.610282 2321377 9.664069 537879 7.467714 2166305
10.515684 1851197 9.658007 1524021 7.456965 1486214
10.499979 621434 9.640859 3983883 7.452192 275037
10.388804 2276485 9.634923 3579718 7.449794 3983887
10.374165 1787617 9.575429 3225447 7.434273 2597748
10.360050 3394392 9.565718 3805948 7.322065 4230807
10.354619 331061 9.550207 1485303 7.292917 1153970
10.349734 2467723 9.546147 1168191 7.281565 3351897
10.349251 3358360 9.524598 3920674 7.275071 2635787
10.323400 3767807 9.520371 2986424 7.270197 570934
10.323217 2574040 9.520137 3567368 7.228249 2492771
10.317375 4279637 9.493192 1687806 7.200656 2890067
10.316914 497211 hemH 9.451898 2467723 7.182132 570133
10.290150 656371 9.448622 3181532 7.152409 2980448
10.258967 3694533 9.432315 234431 7.112345 4558459
10.240318 527920 9.403494 1415530 7.099972 180362
10.233378 1687806 9.345075 3749675 7.099670 2599144
10.119376 1524021 9.339465 2990063 7.088777 3838088
10.073514 3497043 9.322574 331061 7.059875 2882272
10.041496 3579718 9.305967 1307576 7.024481 2288220
10.011253 1080522 9.293776 2000790 7.018285 659849
9.997503 2042880 9.268338 2389222 6.995811 3694533
9.990801 2039282 9.258290 1073304 6.995809 1199634
9.985232 2481780 9.206615 3593705 6.989488 2813894
9.965756 1732364 9.175489 2319358 6.988910 1489550
9.906627 3805690 9.172566 338208 6.941918 1475504
9.875347 2983670 9.171263 1489541 6.941314 1211333
9.863250 3666944 9.159890 1940632 6.923393 4258577
9.861488 1196867 9.129449 479548 6.884306 2321377
9.812792 4302097 9.070543 231012 6.866384 3134009
9.808349 1891871 9.040149 4477271 6.853276 3755546
9.794079 2521042 9.034496 3351897 6.839510 986246
9.765033 4045004 9.017281 396055 6.837815 535905
9.763713 733340 9.011521 1085734 6.812964 2167805
9.762615 394212 9.007007 578812 6.801139 4258085
9.725163 3081965 8.952625 4249395 6.795664 636134
9.724460 1940632 8.922210 119427 6.784769 2696427
9.705045 2032786 8.892591 2251664 6.778346 3984863
9.695151 2254854 8.874639 4554170 6.766218 656371
9.691374 2105805 8.870534 394212 6.764964 135459
9.682928 1085734 8.863621 3235476 6.744602 702971
9.682333 645837 8.833517 4324630 6.708802 4204814
9.677193 147840 8.787630 1525666 6.678208 4327825
9.664466 2694157 8.786924 569004 6.673407 3580795
9.611110 3795826 8.786790 2052219 6.661539 1248167
9.562712 2000790 8.778946 1635134 6.655487 2105805
9.562334 2550277 8.772168 2042880 6.632766 3673306
9.561279 1891889 8.768673 1870341 6.619386 3265630
9.555415 3184076 8.761961 2481780 6.613967 3723962
9.543311 3464677 8.746761 2108328 6.596997 338208
9.518858 3764021 8.745698 3656370 6.578745 651347
9.482332 1255074 8.725421 533499 6.554946 2940629
9.480571 4204814 8.650262 1631203 6.550177 526775
9.473436 1899937 8.650262 1432141 6.532525 538382
9.459780 4554170 8.640750 42002 6.519851 1901019
9.402280 4249975 8.623792 527920 6.504331 1159487
9.392179 565357 8.599980 175769 6.496757 1842428
9.388729 537879 8.596463 275037 6.457842 1226958
9.378999 1525666 8.573460 2039282 6.428293 3256516
9.374643 2901911 8.540737 3947846 6.416694 4388617
9.332326 3431234 8.512067 2032786 6.397522 1883519
9.308955 3265630 8.506697 733340 6.363883 1488732
9.304757 1266398 8.497438 2901825 6.339034 2771647
9.300866 3632049 8.469638 2890067 6.334738 4341996
9.262952 617331 8.455308 3666944 6.328386 2211927
9.239734 156283 8.453714 3766821 6.315712 1095137
9.226529 678935 8.432332 1584689 6.315638 134336
9.216367 1485303 8.427507 678935 6.298393 4238119
9.178461 1631203 8.424244 240279 6.282268 2246055
9.178461 1432141 8.424118 1901019 6.275915 601694
9.166795 240279 8.420000 1266398 6.262796 2195425
9.157665 2467674 8.400082 297344 6.240449 2738056
9.140331 2993829 8.393528 2066269 6.218129 3714638
9.125505 3947846 8.384129 1591880 6.211879 1056922
9.124882 2413033 8.349752 4407806 6.158461 852932
9.116991 238116 8.327370 294313 6.146633 258340
9.110937 3372533 8.313687 3580795 6.145786 2031635
9.086384 1168178 8.310423 2228579 6.135337 4592686
9.081712 1570348 8.295906 1570348 6.112343 4420609
9.071431 4162856 8.279131 1891871 6.075999 3981884
9.068085 2031635 8.275175 1199634 6.070524 2716640 trxC
9.046794 651283 8.273796 2284363 6.035603 1894860
9.040872 3675909 8.256152 1307096 6.030357 3309308
9.004021 841418 8.217149 2276485 6.018284 1865330
8.978728 2052219 8.157460 1095137 6.018056 1265260
8.976939 1388990 8.151632 2467674 6.012809 2066269
8.971015 2066269 8.133341 656371 6.005609 4542252
8.967254 1330089 8.124467 4302097 5.994115 4532136
8.907026 3903507 8.118565 3632049 5.982889 1270374
8.899577 558541 8.105942 2027399 5.982288 3649217
8.899433 4249395 8.091444 156283 5.965215 2057443
8.889021 4576205 8.084582 3170143 5.959163 400463
8.874224 2468257 8.072206 1255074 5.957942 175769
8.872137 1307096 8.055953 2980448 5.953141 2984900
8.867474 446910 8.037537 3266039 5.931194 4544717
8.859741 1408033 7.972907 841418 5.924573 2651659
8.846069 1307576 7.957885 1886642 5.919325 3186712
8.845476 122999 7.956251 611905 5.913348 1214126
8.820181 2993165 7.921694 234114 5.866053 4576071
8.780737 3567368 7.896515 3464677 5.837484 884986
8.769181 533499 7.879260 2890089 5.835686 991743
8.749909 3225447 7.870395 3764021 5.812362 645627
8.747958 4540215 7.862541 3186712 5.809517 1827468
8.747510 2784053 7.847677 3309308 5.802215 404578
8.736140 2040299 7.805542 2574040 5.785821 2196254
8.725447 2389222 7.773336 1416711 5.784066 569004
8.713643 42002 7.768065 1097062 5.766848 3544212
8.705140 1645906 7.764439 1229743 5.745553 3935765
8.689550 611905 7.731389 3013817 5.743092 1570348
8.684414 2487802 7.722377 2993829 5.706477 3453098
8.670978 3351897 7.720651 2053461 5.701850 1614542
8.656923 4407806 7.658873 527911 5.679054 2110312
8.647243 1161843 7.652724 3394392 5.672260 4576058
8.646505 1753212 7.601423 4162856 5.666351 1368411
8.644799 538382 7.601071 2993165 5.649136 3986699
8.636086 2980448 7.594009 3802081 5.638817 1448230
8.624519 3309308 7.591368 3937478 5.633343 229589
8.594347 582062 7.591003 2713358 5.631215 1068127
8.583437 2241798 7.586422 3805690 5.620192 3142117
8.515341 284339 7.575645 1019641 5.591420 578812
8.504095 1811309 7.575407 1645906 5.580256 3441651
8.484825 2784636 7.570962 1891862 5.579925 154418
8.474675 2901839 7.570360 2031604 5.578744 3192292
8.470331 3579767 7.556463 2468257 5.567520 2772602
8.463137 2104592 7.541214 1899937 5.567252 611905
8.458498 2108328 7.530859 2548601 5.566919 4423391
8.422325 1030654 7.521108 258340 5.561672 2991690
8.414463 4577552 7.520138 636134 5.548997 3937478
8.383616 1147464 7.507000 3791080 5.533104 3645339
8.368122 2053461 7.502707 3834348 5.514377 2481396
8.348075 3266014 7.485337 3983716 5.508282 1369724
8.342274 527911 7.475634 2267602 5.503815 2198238
8.337261 4238119 7.462604 2823983 5.503483 1802963
8.335447 1870341 7.445304 2321377 5.497464 3328652
8.333436 2228579 7.441679 1168178 5.479540 265993
8.331783 294313 7.428751 3081965 5.478665 2940379
8.330129 1847718 7.426079 122999 5.467384 582066
8.324192 3411221 7.409120 1776758 5.452193 2784347
8.318400 2882272 7.404673 3903507 5.449765 3767807
8.305224 2284363 7.400409 3898285 5.444663 569552
8.294112 1229743 7.365225 1408033 5.409399 1424669
8.272047 3030959 7.362247 1330089 5.404524 3505283
8.262000 3834348 7.361107 1092236 5.402801 1877073
8.241127 2890089 7.349564 4358682 5.397222 2570465
8.239090 1416711 7.345294 1810644 5.380957 4409248
8.232685 2257647 7.342619 1214627 5.349928 1635419
8.222042 2990063 7.342140 4272252 5.341162 4567933
8.219158 4558459 7.323890 996958 5.340458 396055
8.215389 889205 7.320480 4061869 5.328384 324393
8.214316 108290 7.300548 3795817 5.326833 3898285
8.205681 1803765 7.290018 2784636 5.293765 3579722
8.197330 3795817 7.288924 4408869 5.292286 4249395
8.190137 175769 7.285555 4544717 5.286192 2550277
8.189538 601694 7.285215 2599144 5.268644 967226
8.188229 3656370 7.258827 624069 5.262893 4118560
8.180953 2031604 7.235226 1554444 5.251343 284339
8.163651 3580795 7.216475 1195865 5.246095 2389222
8.146049 3579722 7.210244 238116 5.234097 1790014
8.138448 1886642 7.204774 645837 5.233723 4532210
8.133661 1463156 7.196443 135459 5.229556 1398976
8.121339 396055 7.188347 1463233 5.229428 4458515
8.118028 1666148 7.185413 1787611 5.222529 2703108
8.117552 3791080 7.182287 2940379 5.211002 295021
8.090501 3766821 7.163994 1542491 5.209751 778266
8.090182 4544717 7.153679 913053 5.204275 4575918
8.061058 3181532 7.147252 2901911 5.200656 4193672
8.056626 275037 7.146222 3537670 5.189159 1868819
8.049946 1901019 7.139875 3983828 5.181183 4531414
8.031444 1369724 7.136042 4638282 5.175534 1810644
8.015399 2101724 7.129800 2041060 5.171135 633504
7.994357 1092236 7.125084 3603212 5.157613 278113
7.992895 4589104 7.120792 3284706 5.152109 913053
7.953161 582466 7.119551 3675909 5.147339 2140820
7.950365 3025800 7.075353 1030654 5.141491 4077176
7.946119 986491 7.068467 4238119 5.134562 3666948
7.938654 119427 7.067607 2085013 5.119373 1458696
7.912267 1199634 7.060149 1847718 5.086894 578469
7.901991 2584135 7.057924 4473959 5.086346 2478733
7.901913 134336 7.040122 4603251 5.076245 4478090
7.872009 3235476 7.033068 324393 5.076074 394212
7.856586 3360224 7.032037 473524 5.069647 3798544
7.853398 4416071 7.030738 1486214 5.065019 2380075
7.849326 1499613 7.026641 1868828 5.064775 4097858
7.842665 2231132 7.024180 2101724 5.047201 3937111
7.840925 1584689 7.020063 2241798 5.047099 1990787
7.830890 2783498 7.016107 658175 5.041625 236526
7.828595 2027399 7.007239 1614693 5.040852 3003946
7.827300 1776758 6.971841 2589163 5.036204 2694157
7.824190 1463233 6.969040 3266014 5.029551 343562
7.819889 2986424 6.963993 2694157 5.023862 1278421
7.818789 1787611 6.957200 4302041 5.000982 2182139
7.797206 3266039 6.944062 582466
7.792533 2796963 6.936206 430229
7.765702 3694009 6.934848 617331
7.758450 2823983 6.918282 201529
7.758371 1424997 6.903784 4135429
7.733025 3292549 6.895350 2257647
7.720465 1041279 6.883530 1645924
7.716644 1630884 6.876974 3184067
7.716644 1432460 6.869723 1218156
7.716371 3186334 6.842431 3694009
7.706770 1577495 6.842430 1636803
7.704864 1636803 6.831563 558541
7.703371 338208 6.818530 3186334
7.695460 400463 6.815595 400463
7.679402 3764525 6.815253 582062
7.677146 3351827 6.812811 1068127
7.663376 3530302 6.807508 1228504
7.657803 1920844 6.789599 1216183
7.654482 2310927 6.776545 4024100
7.646940 3951029 6.774979 4503992
7.643619 1894860 6.765264 4000539
7.621836 234114 6.747339 3360224
7.619931 996958 6.740758 1210395
7.618076 2991690 6.717917 2107606
7.617793 570133 6.713752 991743
7.612476 2085013 6.690063 1184988
7.611998 4477271 6.686312 3986699
7.611810 4537664 6.684674 2940629
7.607314 624069 6.681722 3637532
7.597967 3284706 6.672506 4502486
7.594678 3796492 6.668878 1883519
7.593382 1542491 6.666744 2031613
7.592197 2589610 6.654380 2413033
7.586728 258340 6.646511 3796492
7.581309 2066621 6.642067 1891880
7.561068 522119 6.627895 403620
7.544900 3266709 6.604209 1608739
7.528763 1891880 6.597799 651347
7.519794 451083 6.588976 2584135
7.515683 1488732 6.583647 4249975
7.511653 3134583 6.565073 1894860
7.508901 1019641 6.548813 3467668
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This page is at www.lecb.ncifcrf.gov/~lewiska/projects/fur/oxyr/names.html.
Page origin: 2000 August 11
Last updated: 2001 May 24
Karen A. Lewis