HEADER TRANSCRIPTION/DNA/RNA 31-DEC-69 4YLO TITLE E. coli Transcription Initiation Complex - 16-bp spacer and 4-nt RNA COMPND MOL_ID: 5; COMPND 2 MOLECULE: RNA polymerase sigma factor RpoD; COMPND 3 CHAIN: F, L, R; COMPND 4 ENGINEERED: YES; EXPDTA X-RAY DIFFRACTION REMARK 2 RESOLUTION. 6.00 ANGSTORMS DBREF 4YLO R 1 613 UNP P00579 RPOD_ECOLI 1 613 SEQRES 1 R 32 ARG THR ILE ARG ILE PRO VAL HIS MET ILE GLU THR ILE SEQRES 2 R 32 ASN LYS LEU ASN ARG ILE SER ARG GLN MET LEU GLN GLU SEQRES 3 R 32 MET GLY ARG GLU PRO THR ATOM 1 N ARG R 448 -127.295 18.976 21.190 1.00227.51 ATOM 2 CA ARG R 448 -127.770 20.357 21.168 1.00226.82 ATOM 3 C ARG R 448 -127.004 21.184 20.147 1.00224.75 ATOM 4 O ARG R 448 -125.771 21.272 20.187 1.00225.17 ATOM 5 CB ARG R 448 -127.702 21.017 22.563 1.00229.42 ATOM 6 CG ARG R 448 -128.532 20.320 23.643 1.00231.89 ATOM 7 CD ARG R 448 -128.972 21.245 24.781 1.00234.14 ATOM 8 NE ARG R 448 -129.708 20.509 25.819 1.00236.85 ATOM 9 CZ ARG R 448 -130.384 21.070 26.821 1.00239.24 ATOM 10 NH1 ARG R 448 -130.434 22.392 26.933 1.00239.26 ATOM 11 NH2 ARG R 448 -131.014 20.303 27.709 1.00241.89 ATOM 12 N THR R 449 -127.762 21.758 19.217 1.00222.77 ATOM 13 CA THR R 449 -127.251 22.758 18.297 1.00221.07 ATOM 14 C THR R 449 -126.609 23.881 19.115 1.00222.63 ATOM 15 O THR R 449 -125.502 24.327 18.823 1.00222.55 ATOM 16 CB THR R 449 -128.391 23.335 17.437 1.00219.38 ATOM 17 OG1 THR R 449 -129.565 22.524 17.575 1.00219.68 ATOM 18 CG2 THR R 449 -127.985 23.383 15.979 1.00217.08 ATOM 19 N ILE R 450 -127.310 24.302 20.160 1.00224.38 ATOM 20 CA ILE R 450 -126.795 25.261 21.107 1.00226.43 ATOM 21 C ILE R 450 -126.088 24.477 22.185 1.00228.69 ATOM 22 O ILE R 450 -126.755 23.890 23.017 1.00230.18 ATOM 23 CB ILE R 450 -127.956 25.991 21.785 1.00227.70 ATOM 24 CG1 ILE R 450 -128.955 24.977 22.352 1.00228.63 ATOM 25 CG2 ILE R 450 -128.662 26.878 20.780 1.00225.88 ATOM 26 CD1 ILE R 450 -129.814 25.527 23.467 1.00231.17 ATOM 27 N ARG R 451 -124.758 24.441 22.164 1.00229.21 ATOM 28 CA ARG R 451 -124.007 23.725 23.188 1.00231.68 ATOM 29 C ARG R 451 -124.168 24.443 24.531 1.00234.51 ATOM 30 O ARG R 451 -124.156 25.665 24.584 1.00234.85 ATOM 31 CB ARG R 451 -122.512 23.651 22.843 1.00231.99 ATOM 32 CG ARG R 451 -121.661 24.753 23.480 1.00234.12 ATOM 33 CD ARG R 451 -120.350 24.230 24.068 1.00236.56 ATOM 34 NE ARG R 451 -119.548 25.284 24.699 1.00238.98 ATOM 35 CZ ARG R 451 -118.360 25.089 25.266 1.00241.62 ATOM 36 NH1 ARG R 451 -117.830 23.878 25.289 1.00242.17 ATOM 37 NH2 ARG R 451 -117.702 26.103 25.810 1.00243.99 ATOM 38 N ILE R 452 -124.313 23.697 25.618 1.00236.81 ATOM 39 CA ILE R 452 -124.550 24.327 26.921 1.00239.78 ATOM 40 C ILE R 452 -123.661 23.726 28.016 1.00242.86 ATOM 41 O ILE R 452 -123.817 22.572 28.360 1.00243.62 ATOM 42 CB ILE R 452 -126.046 24.243 27.309 1.00240.14 ATOM 43 CG1 ILE R 452 -126.961 24.451 26.085 1.00237.01 ATOM 44 CG2 ILE R 452 -126.373 25.244 28.404 1.00242.93 ATOM 45 CD1 ILE R 452 -127.260 25.895 25.737 1.00236.40 ATOM 46 N PRO R 453 -122.702 24.508 28.534 1.00244.84 ATOM 47 CA PRO R 453 -121.776 24.013 29.553 1.00248.05 ATOM 48 C PRO R 453 -122.326 23.390 30.838 1.00250.95 ATOM 49 O PRO R 453 -123.447 23.644 31.304 1.00251.51 ATOM 50 CB PRO R 453 -120.910 25.232 29.850 1.00249.77 ATOM 51 CG PRO R 453 -120.818 25.886 28.515 1.00246.66 ATOM 52 CD PRO R 453 -122.207 25.760 27.936 1.00243.99 ATOM 53 N VAL R 454 -121.427 22.596 31.394 1.00253.11 ATOM 54 CA VAL R 454 -121.705 21.517 32.314 1.00255.50 ATOM 55 C VAL R 454 -122.617 21.929 33.466 1.00258.08 ATOM 56 O VAL R 454 -123.705 21.358 33.707 1.00258.25 ATOM 57 CB VAL R 454 -120.353 21.008 32.888 1.00258.31 ATOM 58 CG1 VAL R 454 -120.274 19.480 32.861 1.00258.70 ATOM 59 CG2 VAL R 454 -119.186 21.600 32.092 1.00257.20 ATOM 60 N HIS R 455 -122.144 22.913 34.208 1.00260.52 ATOM 61 CA HIS R 455 -122.839 23.260 35.430 1.00263.75 ATOM 62 C HIS R 455 -124.116 24.091 35.151 1.00262.32 ATOM 63 O HIS R 455 -125.083 24.079 35.941 1.00264.40 ATOM 64 CB HIS R 455 -121.867 23.859 36.491 1.00267.70 ATOM 65 CG HIS R 455 -120.954 22.846 37.166 1.00270.42 ATOM 66 ND1 HIS R 455 -121.046 22.526 38.510 1.00274.67 ATOM 67 CD2 HIS R 455 -119.913 22.112 36.688 1.00269.83 ATOM 68 CE1 HIS R 455 -120.117 21.636 38.824 1.00276.50 ATOM 69 NE2 HIS R 455 -119.417 21.366 37.737 1.00273.66 ATOM 70 N MET R 456 -124.142 24.751 33.997 1.00258.95 ATOM 71 CA MET R 456 -125.359 25.375 33.504 1.00257.18 ATOM 72 C MET R 456 -126.456 24.314 33.401 1.00256.43 ATOM 73 O MET R 456 -127.615 24.495 33.835 1.00257.64 ATOM 74 CB MET R 456 -125.060 25.941 32.120 1.00253.45 ATOM 75 CG MET R 456 -126.255 26.502 31.370 1.00251.18 ATOM 76 SD MET R 456 -126.399 28.311 31.477 1.00252.24 ATOM 77 CE MET R 456 -124.661 28.797 31.436 1.00252.98 ATOM 78 N ILE R 457 -126.081 23.196 32.800 1.00254.67 ATOM 79 CA ILE R 457 -126.999 22.094 32.675 1.00254.24 ATOM 80 C ILE R 457 -127.447 21.584 34.034 1.00258.27 ATOM 81 O ILE R 457 -128.626 21.313 34.226 1.00258.98 ATOM 82 CB ILE R 457 -126.396 20.958 31.862 1.00252.20 ATOM 83 CG1 ILE R 457 -126.077 21.464 30.465 1.00248.33 ATOM 84 CG2 ILE R 457 -127.391 19.817 31.757 1.00252.15 ATOM 85 CD1 ILE R 457 -127.320 21.815 29.681 1.00246.01 ATOM 86 N GLU R 458 -126.521 21.466 34.980 1.00261.19 ATOM 87 CA GLU R 458 -126.897 21.081 36.348 1.00265.48 ATOM 88 C GLU R 458 -128.014 21.958 36.935 1.00267.25 ATOM 89 O GLU R 458 -128.971 21.472 37.570 1.00269.55 ATOM 90 CB GLU R 458 -125.692 21.104 37.291 1.00268.62 ATOM 91 CG GLU R 458 -125.165 19.723 37.690 1.00270.36 ATOM 92 CD GLU R 458 -124.246 19.777 38.903 1.00274.59 ATOM 93 OE1 GLU R 458 -124.487 20.608 39.812 1.00277.36 ATOM 94 OE2 GLU R 458 -123.284 18.979 38.959 1.00275.43 ATOM 95 N THR R 459 -127.884 23.259 36.723 1.00266.50 ATOM 96 CA THR R 459 -128.894 24.186 37.211 1.00268.28 ATOM 97 C THR R 459 -130.260 23.929 36.549 1.00266.50 ATOM 98 O THR R 459 -131.306 23.892 37.209 1.00269.11 ATOM 99 CB THR R 459 -128.438 25.631 36.985 1.00267.74 ATOM 100 OG1 THR R 459 -127.595 25.667 35.819 1.00263.97 ATOM 101 CG2 THR R 459 -127.629 26.123 38.194 1.00271.81 ATOM 102 N ILE R 460 -130.242 23.724 35.240 1.00262.32 ATOM 103 CA ILE R 460 -131.464 23.382 34.529 1.00260.63 ATOM 104 C ILE R 460 -132.124 22.120 35.093 1.00262.83 ATOM 105 O ILE R 460 -133.347 22.040 35.198 1.00264.01 ATOM 106 CB ILE R 460 -131.174 23.176 33.043 1.00256.01 ATOM 107 CG1 ILE R 460 -130.303 24.320 32.537 1.00254.22 ATOM 108 CG2 ILE R 460 -132.473 23.087 32.261 1.00254.40 ATOM 109 CD1 ILE R 460 -129.489 23.961 31.318 1.00250.50 ATOM 110 N ASN R 461 -131.289 21.146 35.457 1.00263.69 ATOM 111 CA ASN R 461 -131.735 19.882 36.055 1.00266.19 ATOM 112 C ASN R 461 -132.577 20.104 37.283 1.00270.64 ATOM 113 O ASN R 461 -133.614 19.464 37.468 1.00272.30 ATOM 114 CB ASN R 461 -130.548 19.033 36.535 1.00267.46 ATOM 115 CG ASN R 461 -129.374 19.034 35.575 1.00264.00 ATOM 116 OD1 ASN R 461 -129.338 19.795 34.595 1.00260.67 ATOM 117 ND2 ASN R 461 -128.385 18.182 35.866 1.00265.09 ATOM 118 N LYS R 462 -132.068 20.983 38.145 1.00272.92 ATOM 119 CA LYS R 462 -132.736 21.374 39.372 1.00277.49 ATOM 120 C LYS R 462 -134.176 21.774 39.082 1.00277.60 ATOM 121 O LYS R 462 -135.115 21.318 39.736 1.00280.91 ATOM 122 CB LYS R 462 -132.045 22.596 40.004 1.00279.06 ATOM 123 CG LYS R 462 -130.557 22.486 40.334 1.00279.41 ATOM 124 CD LYS R 462 -130.073 23.762 41.036 1.00281.71 ATOM 125 CE LYS R 462 -128.599 23.725 41.444 1.00282.71 ATOM 126 NZ LYS R 462 -128.147 24.974 42.135 1.00285.33 ATOM 127 N LEU R 463 -134.303 22.626 38.067 1.00274.13 ATOM 128 CA LEU R 463 -135.556 23.241 37.677 1.00274.01 ATOM 129 C LEU R 463 -136.648 22.220 37.551 1.00274.92 ATOM 130 O LEU R 463 -137.740 22.288 38.166 1.00278.41 ATOM 131 CB LEU R 463 -135.403 23.833 36.277 1.00269.19 ATOM 132 CG LEU R 463 -134.829 25.223 36.035 1.00267.98 ATOM 133 CD1 LEU R 463 -134.166 25.272 34.668 1.00263.03 ATOM 134 CD2 LEU R 463 -135.938 26.261 36.131 1.00269.63 ATOM 135 N ASN R 464 -136.361 21.260 36.704 1.00271.94 ATOM 136 CA ASN R 464 -137.445 20.419 36.316 1.00272.26 ATOM 137 C ASN R 464 -137.752 19.390 37.352 1.00276.52 ATOM 138 O ASN R 464 -138.915 19.019 37.522 1.00278.95 ATOM 139 CB ASN R 464 -137.241 19.838 34.936 1.00267.76 ATOM 140 CG ASN R 464 -137.510 20.862 33.863 1.00264.38 ATOM 141 OD1 ASN R 464 -138.503 20.774 33.142 1.00263.53 ATOM 142 ND2 ASN R 464 -136.647 21.869 33.780 1.00262.80 ATOM 143 N ARG R 465 -136.715 18.974 38.078 1.00277.81 ATOM 144 CA ARG R 465 -136.921 17.962 39.107 1.00282.17 ATOM 145 C ARG R 465 -137.869 18.507 40.180 1.00286.95 ATOM 146 O ARG R 465 -138.786 17.810 40.654 1.00290.42 ATOM 147 CB ARG R 465 -135.593 17.408 39.669 1.00282.85 ATOM 148 CG ARG R 465 -134.941 16.376 38.748 1.00279.65 ATOM 149 CD ARG R 465 -133.830 15.590 39.423 1.00281.48 ATOM 150 NE ARG R 465 -132.693 16.440 39.754 1.00281.03 ATOM 151 CZ ARG R 465 -131.423 16.074 39.603 1.00279.88 ATOM 152 NH1 ARG R 465 -131.130 14.882 39.110 1.00278.97 ATOM 153 NH2 ARG R 465 -130.446 16.905 39.927 1.00279.89 ATOM 154 N ILE R 466 -137.717 19.791 40.489 1.00287.25 ATOM 155 CA ILE R 466 -138.556 20.387 41.533 1.00292.09 ATOM 156 C ILE R 466 -139.941 20.745 40.984 1.00292.16 ATOM 157 O ILE R 466 -140.938 20.699 41.725 1.00296.68 ATOM 158 CB ILE R 466 -137.873 21.589 42.253 1.00293.46 ATOM 159 CG1 ILE R 466 -136.723 21.105 43.153 1.00295.41 ATOM 160 CG2 ILE R 466 -138.873 22.364 43.098 1.00298.05 ATOM 161 CD1 ILE R 466 -136.214 22.142 44.138 1.00298.39 ATOM 162 N SER R 467 -139.978 21.055 39.678 1.00287.38 ATOM 163 CA SER R 467 -141.201 21.429 38.966 1.00286.87 ATOM 164 C SER R 467 -142.311 20.440 39.226 1.00290.20 ATOM 165 O SER R 467 -143.448 20.848 39.480 1.00293.29 ATOM 166 CB SER R 467 -140.965 21.494 37.454 1.00281.16 ATOM 167 OG SER R 467 -140.045 22.507 37.107 1.00278.21 ATOM 168 N ARG R 468 -141.970 19.147 39.165 1.00289.88 ATOM 169 CA ARG R 468 -142.969 18.066 39.283 1.00292.91 ATOM 170 C ARG R 468 -143.676 18.075 40.663 1.00299.42 ATOM 171 O ARG R 468 -144.939 18.029 40.797 1.00302.80 ATOM 172 CB ARG R 468 -142.323 16.675 39.053 1.00291.73 ATOM 173 CG ARG R 468 -141.296 16.544 37.917 1.00285.89 ATOM 174 CD ARG R 468 -140.649 15.147 37.888 1.00285.79 ATOM 175 NE ARG R 468 -139.266 15.154 37.386 1.00281.75 ATOM 176 CZ ARG R 468 -138.389 14.165 37.568 1.00281.95 ATOM 177 NH1 ARG R 468 -138.744 13.074 38.236 1.00285.91 ATOM 178 NH2 ARG R 468 -137.155 14.268 37.082 1.00278.48 ATOM 179 N GLN R 469 -142.828 18.124 41.688 1.00301.41 ATOM 180 CA GLN R 469 -143.339 18.121 43.039 1.00307.66 ATOM 181 C GLN R 469 -144.201 19.346 43.239 1.00309.69 ATOM 182 O GLN R 469 -145.352 19.233 43.683 1.00314.19 ATOM 183 CB GLN R 469 -142.227 18.061 44.081 1.00309.45 ATOM 184 CG GLN R 469 -142.756 17.924 45.501 1.00316.32 ATOM 185 CD GLN R 469 -141.651 17.716 46.516 1.00318.35 ATOM 186 OE1 GLN R 469 -140.484 17.556 46.154 1.00314.72 ATOM 187 NE2 GLN R 469 -142.012 17.715 47.798 1.00324.45 ATOM 188 N MET R 470 -143.656 20.503 42.864 1.00306.54 ATOM 189 CA MET R 470 -144.346 21.766 43.087 1.00308.58 ATOM 190 C MET R 470 -145.703 21.823 42.394 1.00309.05 ATOM 191 O MET R 470 -146.671 22.336 42.992 1.00313.69 ATOM 192 CB MET R 470 -143.458 22.977 42.744 1.00305.09 ATOM 193 CG MET R 470 -142.447 23.326 43.836 1.00307.25 ATOM 194 SD MET R 470 -141.611 24.922 43.659 1.00304.98 ATOM 195 CE MET R 470 -142.942 26.052 44.054 1.00309.39 ATOM 196 N LEU R 471 -145.758 21.275 41.169 1.00304.64 ATOM 197 CA LEU R 471 -146.970 21.160 40.355 1.00304.65 ATOM 198 C LEU R 471 -147.994 20.375 41.138 1.00310.59 ATOM 199 O LEU R 471 -149.174 20.750 41.170 1.00313.86 ATOM 200 CB LEU R 471 -146.628 20.393 39.063 1.00299.32 ATOM 201 CG LEU R 471 -147.622 20.079 37.932 1.00297.97 ATOM 202 CD1 LEU R 471 -146.871 19.418 36.784 1.00292.35 ATOM 203 CD2 LEU R 471 -148.769 19.184 38.382 1.00303.12 ATOM 204 N GLN R 472 -147.535 19.307 41.789 1.00312.33 ATOM 205 CA GLN R 472 -148.512 18.439 42.448 1.00318.05 ATOM 206 C GLN R 472 -149.022 19.000 43.775 1.00324.43 ATOM 207 O GLN R 472 -150.217 18.895 44.123 1.00329.44 ATOM 208 CB GLN R 472 -148.013 17.007 42.603 1.00318.23 ATOM 209 CG GLN R 472 -146.949 16.823 43.674 1.00319.71 ATOM 210 CD GLN R 472 -146.718 15.361 43.946 1.00321.39 ATOM 211 OE1 GLN R 472 -145.574 14.894 43.968 1.00318.99 ATOM 212 NE2 GLN R 472 -147.809 14.622 44.143 1.00325.83 ATOM 213 N GLU R 473 -148.106 19.626 44.497 1.00324.43 ATOM 214 CA GLU R 473 -148.422 20.232 45.777 1.00330.32 ATOM 215 C GLU R 473 -149.376 21.378 45.599 1.00331.93 ATOM 216 O GLU R 473 -150.437 21.418 46.242 1.00337.82 ATOM 217 CB GLU R 473 -147.155 20.758 46.450 1.00329.47 ATOM 218 CG GLU R 473 -146.196 19.687 46.940 1.00329.44 ATOM 219 CD GLU R 473 -145.295 20.194 48.051 1.00331.73 ATOM 220 OE1 GLU R 473 -144.778 19.362 48.833 1.00334.21 ATOM 221 OE2 GLU R 473 -145.115 21.430 48.151 1.00331.34 ATOM 222 N MET R 474 -149.001 22.316 44.734 1.00327.03 ATOM 223 CA MET R 474 -149.797 23.517 44.626 1.00328.75 ATOM 224 C MET R 474 -151.097 23.267 43.857 1.00329.59 ATOM 225 O MET R 474 -152.133 23.877 44.157 1.00334.06 ATOM 226 CB MET R 474 -148.988 24.716 44.098 1.00324.22 ATOM 227 CG MET R 474 -147.865 25.180 45.033 1.00324.97 ATOM 228 SD MET R 474 -148.252 25.324 46.802 1.00333.49 ATOM 229 CE MET R 474 -149.008 26.947 46.898 1.00336.39 ATOM 230 N GLY R 475 -151.052 22.351 42.890 1.00325.71 ATOM 231 CA GLY R 475 -152.218 22.084 42.065 1.00326.22 ATOM 232 C GLY R 475 -152.050 22.590 40.632 1.00320.00 ATOM 233 O GLY R 475 -152.732 22.141 39.734 1.00318.93 ATOM 234 N ARG R 476 -151.131 23.520 40.408 1.00316.11 ATOM 235 CA ARG R 476 -150.872 24.007 39.060 1.00310.24 ATOM 236 C ARG R 476 -149.393 24.360 38.912 1.00305.34 ATOM 237 O ARG R 476 -148.550 23.483 38.933 1.00303.11 ATOM 238 CB ARG R 476 -151.785 25.201 38.698 1.00311.72 ATOM 239 CG ARG R 476 -151.630 25.742 37.268 1.00306.11 ATOM 240 CD ARG R 476 -152.751 25.331 36.312 1.00306.25 ATOM 241 NE ARG R 476 -152.388 25.504 34.897 1.00300.25 ATOM 242 CZ ARG R 476 -152.801 26.502 34.114 1.00299.05 ATOM 243 NH1 ARG R 476 -153.606 27.442 34.590 1.00303.46 ATOM 244 NH2 ARG R 476 -152.410 26.558 32.845 1.00293.67 ATOM 245 N GLU R 477 -149.087 25.653 38.792 1.00304.11 ATOM 246 CA GLU R 477 -147.751 26.119 38.365 1.00299.03 ATOM 247 C GLU R 477 -146.926 26.784 39.474 1.00301.10 ATOM 248 O GLU R 477 -147.456 27.157 40.518 1.00306.45 ATOM 249 CB GLU R 477 -147.878 27.090 37.169 1.00295.33 ATOM 250 CG GLU R 477 -147.984 26.454 35.780 1.00290.66 ATOM 251 CD GLU R 477 -146.752 26.717 34.902 1.00284.66 ATOM 252 OE1 GLU R 477 -146.912 27.322 33.815 1.00281.65 ATOM 253 OE2 GLU R 477 -145.616 26.333 35.292 1.00283.19 ATOM 254 N PRO R 478 -145.608 26.908 39.249 1.00297.11 ATOM 255 CA PRO R 478 -144.749 27.726 40.092 1.00298.51 ATOM 256 C PRO R 478 -144.320 29.005 39.369 1.00295.48 ATOM 257 O PRO R 478 -143.527 28.948 38.425 1.00290.37 ATOM 258 CB PRO R 478 -143.531 26.823 40.303 1.00296.36 ATOM 259 CG PRO R 478 -143.467 25.974 39.064 1.00291.49 ATOM 260 CD PRO R 478 -144.805 26.043 38.365 1.00291.88 ATOM 261 N THR R 479 -144.840 30.149 39.805 1.00298.87 ATOM 262 CA THR R 479 -144.450 31.430 39.232 1.00296.80 ATOM 263 C THR R 479 -143.017 31.743 39.655 1.00295.63 ATOM 264 O THR R 479 -142.560 31.218 40.663 1.00298.06 ATOM 265 CB THR R 479 -145.394 32.568 39.677 1.00301.46 ATOM 266 OG1 THR R 479 -145.650 32.468 41.084 1.00307.26 ATOM 267 CG2 THR R 479 -146.715 32.490 38.930 1.00301.75 TER