HEADER TRANSCRIPTION 31-DEC-69 6VJS TITLE Escherichia coli RNA polymerase and ureidothiophene-2-carboxylic acid TITLE 2 complex COMPND MOL_ID: 5; COMPND 2 MOLECULE: RNA polymerase sigma factor RpoD; COMPND 3 CHAIN: X, Y; COMPND 4 ENGINEERED: YES; EXPDTA X-RAY DIFFRACTION REMARK 2 RESOLUTION. 4.02 ANGSTORMS DBREF 6VJS X 1 613 UNP Q0P6L9 Q0P6L9_ECOL 1 613 SEQRES 1 Y 32 ARG THR ILE ARG ILE PRO VAL HIS MET ILE GLU THR ILE SEQRES 2 Y 32 ASN LYS LEU ASN ARG ILE SER ARG GLN MET LEU GLN GLU SEQRES 3 Y 32 MET GLY ARG GLU PRO THR ATOM 1 N ARG X 448 -101.480 55.643 33.145 1.00167.76 ATOM 2 CA ARG X 448 -100.986 55.108 31.885 1.00177.59 ATOM 3 C ARG X 448 -99.467 54.961 31.931 1.00173.34 ATOM 4 O ARG X 448 -98.794 55.458 32.837 1.00174.96 ATOM 5 CB ARG X 448 -101.412 56.000 30.717 1.00172.97 ATOM 6 CG ARG X 448 -101.385 57.479 31.033 1.00174.89 ATOM 7 CD ARG X 448 -101.247 58.302 29.766 1.00179.89 ATOM 8 NE ARG X 448 -102.377 58.148 28.852 1.00184.43 ATOM 9 CZ ARG X 448 -103.550 58.758 28.998 1.00182.20 ATOM 10 NH1 ARG X 448 -103.757 59.560 30.032 1.00174.92 ATOM 11 NH2 ARG X 448 -104.517 58.562 28.111 1.00184.52 ATOM 12 N THR X 449 -98.929 54.262 30.928 1.00169.65 ATOM 13 CA THR X 449 -97.505 53.948 30.911 1.00165.38 ATOM 14 C THR X 449 -96.646 55.110 30.432 1.00163.21 ATOM 15 O THR X 449 -95.432 55.101 30.664 1.00157.11 ATOM 16 CB THR X 449 -97.242 52.725 30.031 1.00158.44 ATOM 17 OG1 THR X 449 -97.900 52.894 28.770 1.00165.97 ATOM 18 CG2 THR X 449 -97.764 51.463 30.704 1.00163.52 ATOM 19 N ILE X 450 -97.237 56.097 29.766 1.00169.56 ATOM 20 CA ILE X 450 -96.541 57.323 29.393 1.00167.86 ATOM 21 C ILE X 450 -96.972 58.425 30.349 1.00177.36 ATOM 22 O ILE X 450 -98.152 58.523 30.708 1.00196.97 ATOM 23 CB ILE X 450 -96.833 57.718 27.932 1.00156.89 ATOM 24 CG1 ILE X 450 -98.329 57.604 27.632 1.00161.22 ATOM 25 CG2 ILE X 450 -96.026 56.859 26.972 1.00149.02 ATOM 26 CD1 ILE X 450 -98.681 57.839 26.181 1.00160.22 ATOM 27 N ARG X 451 -96.017 59.245 30.779 1.00174.37 ATOM 28 CA ARG X 451 -96.365 60.423 31.559 1.00178.91 ATOM 29 C ARG X 451 -97.228 61.358 30.724 1.00179.74 ATOM 30 O ARG X 451 -97.078 61.448 29.505 1.00177.79 ATOM 31 CB ARG X 451 -95.111 61.166 32.014 1.00185.36 ATOM 32 CG ARG X 451 -94.016 60.305 32.599 1.00187.10 ATOM 33 CD ARG X 451 -92.918 61.194 33.159 1.00194.76 ATOM 34 NE ARG X 451 -93.435 62.104 34.181 1.00204.76 ATOM 35 CZ ARG X 451 -92.698 62.993 34.841 1.00204.33 ATOM 36 NH1 ARG X 451 -91.399 63.098 34.595 1.00201.03 ATOM 37 NH2 ARG X 451 -93.260 63.774 35.754 1.00203.93 ATOM 38 N ILE X 452 -98.144 62.055 31.388 1.00184.32 ATOM 39 CA ILE X 452 -98.945 63.086 30.730 1.00186.97 ATOM 40 C ILE X 452 -99.237 64.198 31.732 1.00195.81 ATOM 41 O ILE X 452 -99.633 63.919 32.873 1.00199.96 ATOM 42 CB ILE X 452 -100.240 62.505 30.134 1.00180.17 ATOM 43 CG1 ILE X 452 -99.990 61.930 28.739 1.00168.23 ATOM 44 CG2 ILE X 452 -101.325 63.549 30.054 1.00183.56 ATOM 45 CD1 ILE X 452 -101.228 61.357 28.094 1.00171.00 ATOM 46 N PRO X 453 -99.047 65.462 31.359 1.00182.91 ATOM 47 CA PRO X 453 -99.360 66.560 32.279 1.00189.36 ATOM 48 C PRO X 453 -100.864 66.715 32.453 1.00190.66 ATOM 49 O PRO X 453 -101.673 66.174 31.698 1.00187.99 ATOM 50 CB PRO X 453 -98.739 67.795 31.616 1.00197.05 ATOM 51 CG PRO X 453 -98.280 67.369 30.255 1.00186.86 ATOM 52 CD PRO X 453 -98.603 65.929 30.036 1.00181.81 ATOM 53 N VAL X 454 -101.235 67.478 33.483 1.00190.95 ATOM 54 CA VAL X 454 -102.648 67.629 33.816 1.00193.51 ATOM 55 C VAL X 454 -103.393 68.347 32.697 1.00197.70 ATOM 56 O VAL X 454 -104.493 67.937 32.306 1.00198.62 ATOM 57 CB VAL X 454 -102.806 68.355 35.164 1.00195.91 ATOM 58 CG1 VAL X 454 -104.187 68.089 35.751 1.00193.89 ATOM 59 CG2 VAL X 454 -101.717 67.921 36.131 1.00193.27 ATOM 60 N HIS X 455 -102.812 69.424 32.157 1.00217.05 ATOM 61 CA HIS X 455 -103.485 70.164 31.095 1.00214.33 ATOM 62 C HIS X 455 -103.650 69.329 29.833 1.00205.23 ATOM 63 O HIS X 455 -104.556 69.599 29.038 1.00215.49 ATOM 64 CB HIS X 455 -102.729 71.454 30.766 1.00210.33 ATOM 65 CG HIS X 455 -101.388 71.230 30.139 1.00201.58 ATOM 66 ND1 HIS X 455 -100.245 71.008 30.877 1.00198.46 ATOM 67 CD2 HIS X 455 -101.007 71.198 28.840 1.00200.11 ATOM 68 CE1 HIS X 455 -99.219 70.850 30.060 1.00197.00 ATOM 69 NE2 HIS X 455 -99.655 70.959 28.819 1.00199.27 ATOM 70 N MET X 456 -102.793 68.327 29.630 1.00199.21 ATOM 71 CA MET X 456 -102.995 67.402 28.521 1.00193.87 ATOM 72 C MET X 456 -104.171 66.472 28.791 1.00191.84 ATOM 73 O MET X 456 -104.935 66.149 27.875 1.00190.61 ATOM 74 CB MET X 456 -101.719 66.599 28.268 1.00189.13 ATOM 75 CG MET X 456 -100.738 67.257 27.310 1.00190.37 ATOM 76 SD MET X 456 -101.238 67.129 25.580 1.00192.15 ATOM 77 CE MET X 456 -101.243 65.353 25.349 1.00181.40 ATOM 78 N ILE X 457 -104.337 66.038 30.042 1.00187.64 ATOM 79 CA ILE X 457 -105.430 65.129 30.381 1.00187.88 ATOM 80 C ILE X 457 -106.776 65.794 30.124 1.00192.92 ATOM 81 O ILE X 457 -107.678 65.201 29.522 1.00199.80 ATOM 82 CB ILE X 457 -105.303 64.659 31.843 1.00187.57 ATOM 83 CG1 ILE X 457 -104.311 63.503 31.955 1.00184.44 ATOM 84 CG2 ILE X 457 -106.658 64.238 32.395 1.00191.24 ATOM 85 CD1 ILE X 457 -104.883 62.173 31.526 1.00184.64 ATOM 86 N GLU X 458 -106.928 67.042 30.566 1.00192.12 ATOM 87 CA GLU X 458 -108.233 67.687 30.502 1.00199.63 ATOM 88 C GLU X 458 -108.575 68.168 29.097 1.00200.82 ATOM 89 O GLU X 458 -109.750 68.147 28.714 1.00205.06 ATOM 90 CB GLU X 458 -108.292 68.840 31.505 1.00207.61 ATOM 91 CG GLU X 458 -108.584 68.371 32.926 1.00212.68 ATOM 92 CD GLU X 458 -108.313 69.432 33.971 1.00216.78 ATOM 93 OE1 GLU X 458 -108.358 69.100 35.175 1.00213.75 ATOM 94 OE2 GLU X 458 -108.055 70.594 33.592 1.00221.14 ATOM 95 N THR X 459 -107.580 68.599 28.316 1.00197.39 ATOM 96 CA THR X 459 -107.853 68.933 26.921 1.00198.44 ATOM 97 C THR X 459 -108.261 67.698 26.129 1.00191.07 ATOM 98 O THR X 459 -108.994 67.811 25.141 1.00193.42 ATOM 99 CB THR X 459 -106.638 69.603 26.274 1.00186.24 ATOM 100 OG1 THR X 459 -105.458 68.839 26.548 1.00188.08 ATOM 101 CG2 THR X 459 -106.461 71.022 26.799 1.00191.52 ATOM 102 N ILE X 460 -107.805 66.516 26.548 1.00190.98 ATOM 103 CA ILE X 460 -108.256 65.280 25.916 1.00191.41 ATOM 104 C ILE X 460 -109.707 64.994 26.282 1.00201.81 ATOM 105 O ILE X 460 -110.500 64.558 25.438 1.00201.46 ATOM 106 CB ILE X 460 -107.329 64.112 26.305 1.00184.62 ATOM 107 CG1 ILE X 460 -105.954 64.273 25.650 1.00175.43 ATOM 108 CG2 ILE X 460 -107.948 62.774 25.923 1.00180.18 ATOM 109 CD1 ILE X 460 -104.939 63.241 26.092 1.00169.12 ATOM 110 N ASN X 461 -110.084 65.246 27.538 1.00205.92 ATOM 111 CA ASN X 461 -111.453 64.973 27.965 1.00219.73 ATOM 112 C ASN X 461 -112.455 65.884 27.269 1.00223.88 ATOM 113 O ASN X 461 -113.590 65.468 27.010 1.00228.25 ATOM 114 CB ASN X 461 -111.569 65.115 29.482 1.00242.16 ATOM 115 CG ASN X 461 -110.765 64.070 30.227 1.00256.01 ATOM 116 OD1 ASN X 461 -111.129 62.894 30.254 1.00259.74 ATOM 117 ND2 ASN X 461 -109.666 64.494 30.840 1.00261.79 ATOM 118 N LYS X 462 -112.064 67.122 26.963 1.00222.53 ATOM 119 CA LYS X 462 -112.952 68.000 26.209 1.00222.78 ATOM 120 C LYS X 462 -113.072 67.553 24.758 1.00216.69 ATOM 121 O LYS X 462 -114.107 67.783 24.123 1.00225.28 ATOM 122 CB LYS X 462 -112.457 69.445 26.290 1.00233.52 ATOM 123 CG LYS X 462 -113.402 70.469 25.677 1.00244.05 ATOM 124 CD LYS X 462 -112.916 71.891 25.914 1.00247.07 ATOM 125 CE LYS X 462 -111.521 72.103 25.348 1.00242.82 ATOM 126 NZ LYS X 462 -110.975 73.440 25.709 1.00246.63 ATOM 127 N LEU X 463 -112.034 66.904 24.222 1.00205.25 ATOM 128 CA LEU X 463 -112.092 66.422 22.846 1.00203.66 ATOM 129 C LEU X 463 -113.046 65.243 22.695 1.00202.19 ATOM 130 O LEU X 463 -113.681 65.095 21.645 1.00197.57 ATOM 131 CB LEU X 463 -110.695 66.032 22.362 1.00196.30 ATOM 132 CG LEU X 463 -109.979 67.016 21.432 1.00191.94 ATOM 133 CD1 LEU X 463 -109.770 68.364 22.107 1.00195.97 ATOM 134 CD2 LEU X 463 -108.654 66.435 20.957 1.00178.70 ATOM 135 N ASN X 464 -113.159 64.395 23.719 1.00205.08 ATOM 136 CA ASN X 464 -114.053 63.244 23.633 1.00204.85 ATOM 137 C ASN X 464 -115.513 63.654 23.799 1.00207.16 ATOM 138 O ASN X 464 -116.371 63.248 23.008 1.00211.77 ATOM 139 CB ASN X 464 -113.668 62.194 24.677 1.00206.56 ATOM 140 CG ASN X 464 -112.578 61.257 24.189 1.00202.52 ATOM 141 OD1 ASN X 464 -111.805 61.597 23.293 1.00194.23 ATOM 142 ND2 ASN X 464 -112.514 60.068 24.777 1.00204.13 ATOM 143 N ARG X 465 -115.815 64.460 24.821 1.00211.77 ATOM 144 CA ARG X 465 -117.192 64.873 25.070 1.00212.19 ATOM 145 C ARG X 465 -117.737 65.813 24.003 1.00206.91 ATOM 146 O ARG X 465 -118.950 66.048 23.975 1.00210.09 ATOM 147 CB ARG X 465 -117.308 65.531 26.448 1.00214.49 ATOM 148 CG ARG X 465 -117.583 64.548 27.576 1.00212.60 ATOM 149 CD ARG X 465 -116.452 64.530 28.591 1.00222.70 ATOM 150 NE ARG X 465 -116.388 63.261 29.313 1.00235.67 ATOM 151 CZ ARG X 465 -115.629 63.048 30.384 1.00243.87 ATOM 152 NH1 ARG X 465 -114.869 64.022 30.863 1.00249.67 ATOM 153 NH2 ARG X 465 -115.631 61.861 30.978 1.00241.78 ATOM 154 N ILE X 466 -116.886 66.355 23.136 1.00204.36 ATOM 155 CA ILE X 466 -117.334 67.159 22.007 1.00200.23 ATOM 156 C ILE X 466 -117.414 66.332 20.730 1.00199.73 ATOM 157 O ILE X 466 -118.351 66.487 19.945 1.00200.33 ATOM 158 CB ILE X 466 -116.419 68.391 21.827 1.00196.88 ATOM 159 CG1 ILE X 466 -116.711 69.422 22.920 1.00204.39 ATOM 160 CG2 ILE X 466 -116.597 69.007 20.448 1.00195.54 ATOM 161 CD1 ILE X 466 -116.003 70.746 22.733 1.00207.39 ATOM 162 N SER X 467 -116.451 65.432 20.514 1.00199.10 ATOM 163 CA SER X 467 -116.560 64.487 19.409 1.00195.88 ATOM 164 C SER X 467 -117.700 63.498 19.614 1.00199.95 ATOM 165 O SER X 467 -118.122 62.847 18.652 1.00198.54 ATOM 166 CB SER X 467 -115.243 63.734 19.221 1.00190.58 ATOM 167 OG SER X 467 -115.349 62.781 18.178 1.00188.29 ATOM 168 N ARG X 468 -118.196 63.360 20.845 1.00206.03 ATOM 169 CA ARG X 468 -119.428 62.613 21.065 1.00208.24 ATOM 170 C ARG X 468 -120.639 63.417 20.614 1.00217.49 ATOM 171 O ARG X 468 -121.610 62.842 20.109 1.00228.25 ATOM 172 CB ARG X 468 -119.552 62.227 22.543 1.00212.31 ATOM 173 CG ARG X 468 -120.804 61.429 22.915 1.00220.24 ATOM 174 CD ARG X 468 -121.972 62.318 23.347 1.00225.74 ATOM 175 NE ARG X 468 -121.550 63.417 24.210 1.00228.30 ATOM 176 CZ ARG X 468 -121.661 63.414 25.535 1.00233.32 ATOM 177 NH1 ARG X 468 -122.188 62.365 26.154 1.00244.10 ATOM 178 NH2 ARG X 468 -121.251 64.459 26.241 1.00225.13 ATOM 179 N GLN X 469 -120.598 64.740 20.785 1.00213.24 ATOM 180 CA GLN X 469 -121.712 65.591 20.381 1.00208.02 ATOM 181 C GLN X 469 -121.745 65.793 18.872 1.00205.84 ATOM 182 O GLN X 469 -122.824 65.810 18.268 1.00208.45 ATOM 183 CB GLN X 469 -121.625 66.940 21.095 1.00214.49 ATOM 184 CG GLN X 469 -122.673 67.948 20.654 1.00217.11 ATOM 185 CD GLN X 469 -122.476 69.309 21.290 1.00217.51 ATOM 186 OE1 GLN X 469 -121.612 69.487 22.149 1.00216.96 ATOM 187 NE2 GLN X 469 -123.278 70.280 20.868 1.00215.78 ATOM 188 N MET X 470 -120.576 65.945 18.246 1.00203.04 ATOM 189 CA MET X 470 -120.535 66.130 16.800 1.00207.32 ATOM 190 C MET X 470 -120.922 64.858 16.058 1.00209.60 ATOM 191 O MET X 470 -121.436 64.931 14.936 1.00214.38 ATOM 192 CB MET X 470 -119.145 66.598 16.373 1.00205.23 ATOM 193 CG MET X 470 -118.713 67.906 17.017 1.00217.39 ATOM 194 SD MET X 470 -116.993 68.325 16.675 1.00221.28 ATOM 195 CE MET X 470 -116.960 68.184 14.891 1.00225.67 ATOM 196 N LEU X 471 -120.691 63.689 16.662 1.00212.50 ATOM 197 CA LEU X 471 -121.061 62.429 16.028 1.00212.05 ATOM 198 C LEU X 471 -122.568 62.248 15.914 1.00216.49 ATOM 199 O LEU X 471 -123.017 61.369 15.172 1.00219.05 ATOM 200 CB LEU X 471 -120.459 61.252 16.796 1.00201.66 ATOM 201 CG LEU X 471 -119.470 60.384 16.018 1.00197.12 ATOM 202 CD1 LEU X 471 -119.169 59.115 16.784 1.00195.45 ATOM 203 CD2 LEU X 471 -120.022 60.055 14.640 1.00197.42 ATOM 204 N GLN X 472 -123.355 63.045 16.633 1.00215.53 ATOM 205 CA GLN X 472 -124.807 63.036 16.506 1.00211.12 ATOM 206 C GLN X 472 -125.360 64.294 15.859 1.00216.04 ATOM 207 O GLN X 472 -126.346 64.215 15.123 1.00217.79 ATOM 208 CB GLN X 472 -125.465 62.838 17.872 1.00202.21 ATOM 209 CG GLN X 472 -125.805 61.394 18.185 1.00197.91 ATOM 210 CD GLN X 472 -124.837 60.764 19.162 1.00205.70 ATOM 211 OE1 GLN X 472 -124.025 61.449 19.783 1.00212.53 ATOM 212 NE2 GLN X 472 -124.925 59.448 19.313 1.00216.68 ATOM 213 N GLU X 473 -124.759 65.457 16.123 1.00217.01 ATOM 214 CA GLU X 473 -125.113 66.657 15.372 1.00224.41 ATOM 215 C GLU X 473 -124.855 66.441 13.887 1.00230.38 ATOM 216 O GLU X 473 -125.783 66.443 13.070 1.00230.71 ATOM 217 CB GLU X 473 -124.329 67.862 15.891 1.00225.26 ATOM 218 CG GLU X 473 -124.734 68.329 17.281 1.00225.72 ATOM 219 CD GLU X 473 -123.994 69.583 17.711 1.00214.97 ATOM 220 OE1 GLU X 473 -123.116 70.047 16.952 1.00210.98 ATOM 221 OE2 GLU X 473 -124.297 70.111 18.801 1.00211.79 ATOM 222 N MET X 474 -123.592 66.233 13.523 1.00235.26 ATOM 223 CA MET X 474 -123.255 65.755 12.187 1.00248.97 ATOM 224 C MET X 474 -123.686 64.300 12.075 1.00257.28 ATOM 225 O MET X 474 -123.140 63.428 12.758 1.00260.78 ATOM 226 CB MET X 474 -121.761 65.913 11.920 1.00249.42 ATOM 227 CG MET X 474 -121.295 67.355 11.867 1.00253.95 ATOM 228 SD MET X 474 -122.143 68.272 10.569 1.00264.95 ATOM 229 CE MET X 474 -121.563 67.401 9.115 1.00261.87 ATOM 230 N GLY X 475 -124.673 64.037 11.219 1.00250.89 ATOM 231 CA GLY X 475 -125.307 62.732 11.160 1.00236.93 ATOM 232 C GLY X 475 -124.391 61.585 10.778 1.00229.75 ATOM 233 O GLY X 475 -124.807 60.428 10.902 1.00232.00 ATOM 234 N ARG X 476 -123.174 61.858 10.308 1.00228.77 ATOM 235 CA ARG X 476 -122.299 60.783 9.851 1.00229.94 ATOM 236 C ARG X 476 -121.028 60.646 10.680 1.00227.25 ATOM 237 O ARG X 476 -120.815 59.588 11.283 1.00228.72 ATOM 238 CB ARG X 476 -121.964 60.995 8.369 1.00239.02 ATOM 239 CG ARG X 476 -123.187 60.953 7.466 1.00243.21 ATOM 240 CD ARG X 476 -123.047 61.894 6.281 1.00253.45 ATOM 241 NE ARG X 476 -124.347 62.265 5.727 1.00256.42 ATOM 242 CZ ARG X 476 -124.528 63.215 4.814 1.00254.46 ATOM 243 NH1 ARG X 476 -123.489 63.895 4.346 1.00252.81 ATOM 244 NH2 ARG X 476 -125.747 63.485 4.369 1.00254.27 ATOM 245 N GLU X 477 -120.188 61.685 10.762 1.00228.19 ATOM 246 CA GLU X 477 -118.873 61.521 11.381 1.00228.51 ATOM 247 C GLU X 477 -118.156 62.855 11.571 1.00228.32 ATOM 248 O GLU X 477 -118.298 63.764 10.743 1.00244.97 ATOM 249 CB GLU X 477 -118.010 60.574 10.541 1.00235.35 ATOM 250 CG GLU X 477 -118.035 60.857 9.046 1.00242.63 ATOM 251 CD GLU X 477 -117.630 59.651 8.220 1.00240.89 ATOM 252 OE1 GLU X 477 -117.889 59.648 6.998 1.00240.79 ATOM 253 OE2 GLU X 477 -117.053 58.703 8.793 1.00239.39 ATOM 254 N PRO X 478 -117.373 63.009 12.653 1.00215.21 ATOM 255 CA PRO X 478 -116.675 64.274 12.920 1.00208.24 ATOM 256 C PRO X 478 -115.373 64.382 12.139 1.00209.96 ATOM 257 O PRO X 478 -114.407 63.659 12.404 1.00206.85 ATOM 258 CB PRO X 478 -116.432 64.215 14.434 1.00198.22 ATOM 259 CG PRO X 478 -116.245 62.752 14.703 1.00202.56 ATOM 260 CD PRO X 478 -117.136 62.016 13.717 1.00210.37 ATOM 261 N THR X 479 -115.342 65.298 11.175 1.00220.23 ATOM 262 CA THR X 479 -114.131 65.521 10.402 1.00221.56 ATOM 263 C THR X 479 -113.050 66.152 11.283 1.00216.68 ATOM 264 O THR X 479 -113.356 66.917 12.202 1.00230.50 ATOM 265 CB THR X 479 -114.419 66.423 9.200 1.00223.11 ATOM 266 OG1 THR X 479 -114.969 67.667 9.649 1.00221.66 ATOM 267 CG2 THR X 479 -115.409 65.754 8.252 1.00220.55 TER