HEADER BLOOD CLOTTING 06-MAR-09 3GIS TITLE Crystal Structure of Na-free Thrombin in Complex with Thrombomodulin COMPND MOL_ID: 3; COMPND 2 MOLECULE: Thrombomodulin; COMPND 3 CHAIN: X, Y, Z; COMPND 4 MUTATION: YES; COMPND 5 FRAGMENT: Thrombomodulin EGF domains 4-5-6, UNP residues ; COMPND 6 ENGINEERED: YES; EXPDTA X-RAY DIFFRACTION REMARK 2 RESOLUTION. 2.40 ANGSTORMS REMARK 465 MISSING RESIDUES REMARK 465 THE FOLLOWING RESIDUES WERE NOT LOCATED IN THE REMARK 465 EXPERIMENT. (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 465 IDENTIFIER; SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 465 REMARK 465 M RES C SSSEQI REMARK 465 THR X 59 REMARK 465 GLN X 60 DBREF 3GIS X 345 465 UNP P07204 TRBM_HUMAN 363 483 SEQRES 1 X 35 LEU PHE CYS ASN GLN THR ALA CYS PRO ALA ASP CYS ASP SEQRES 2 X 35 PRO ASN THR GLN ALA SER CYS GLU CYS PRO GLU GLY TYR SEQRES 3 X 35 ILE LEU ASP ASP GLY PHE ILE CYS THR ATOM 1 N LEU X 388 -37.146 -20.431 31.395 1.00 35.08 ATOM 2 CA LEU X 388 -36.332 -19.224 31.478 1.00 33.03 ATOM 3 C LEU X 388 -35.744 -18.899 30.116 1.00 31.99 ATOM 4 O LEU X 388 -35.265 -19.783 29.404 1.00 31.08 ATOM 5 CB LEU X 388 -35.202 -19.392 32.490 1.00 35.00 ATOM 6 CG LEU X 388 -35.523 -19.157 33.965 1.00 34.36 ATOM 7 CD1 LEU X 388 -34.229 -19.221 34.768 1.00 33.95 ATOM 8 CD2 LEU X 388 -36.180 -17.798 34.137 1.00 33.39 ATOM 9 N PHE X 389 -35.775 -17.623 29.758 1.00 30.68 ATOM 10 CA PHE X 389 -35.264 -17.206 28.468 1.00 30.18 ATOM 11 C PHE X 389 -34.255 -16.078 28.568 1.00 30.03 ATOM 12 O PHE X 389 -34.290 -15.275 29.498 1.00 29.50 ATOM 13 CB PHE X 389 -36.421 -16.768 27.574 1.00 30.46 ATOM 14 CG PHE X 389 -35.982 -16.228 26.253 1.00 31.11 ATOM 15 CD1 PHE X 389 -35.534 -17.083 25.252 1.00 32.61 ATOM 16 CD2 PHE X 389 -35.975 -14.858 26.021 1.00 30.48 ATOM 17 CE1 PHE X 389 -35.081 -16.581 24.035 1.00 33.42 ATOM 18 CE2 PHE X 389 -35.527 -14.343 24.816 1.00 32.09 ATOM 19 CZ PHE X 389 -35.077 -15.204 23.815 1.00 33.14 ATOM 20 N CYS X 390 -33.354 -16.033 27.593 1.00 30.12 ATOM 21 CA CYS X 390 -32.334 -15.002 27.526 1.00 31.39 ATOM 22 C CYS X 390 -31.577 -15.066 26.205 1.00 32.58 ATOM 23 O CYS X 390 -31.114 -16.128 25.781 1.00 33.43 ATOM 24 CB CYS X 390 -31.353 -15.143 28.684 1.00 31.34 ATOM 25 SG CYS X 390 -30.140 -13.789 28.786 1.00 30.74 ATOM 26 N ASN X 391 -31.471 -13.917 25.551 1.00 33.83 ATOM 27 CA ASN X 391 -30.763 -13.811 24.289 1.00 34.89 ATOM 28 C ASN X 391 -29.759 -12.692 24.477 1.00 34.60 ATOM 29 O ASN X 391 -29.317 -12.054 23.521 1.00 35.66 ATOM 30 CB ASN X 391 -31.734 -13.476 23.156 1.00 38.78 ATOM 31 CG ASN X 391 -32.707 -12.374 23.532 1.00 42.59 ATOM 32 OD1 ASN X 391 -32.327 -11.390 24.169 1.00 45.16 ATOM 33 ND2 ASN X 391 -33.967 -12.528 23.133 1.00 44.34 ATOM 34 N GLN X 392 -29.417 -12.458 25.737 1.00 33.58 ATOM 35 CA GLN X 392 -28.460 -11.431 26.109 1.00 33.91 ATOM 36 C GLN X 392 -27.266 -12.149 26.704 1.00 32.83 ATOM 37 O GLN X 392 -27.382 -13.302 27.106 1.00 33.23 ATOM 38 CB GLN X 392 -29.080 -10.508 27.155 1.00 35.24 ATOM 39 CG GLN X 392 -30.324 -9.781 26.680 1.00 39.31 ATOM 40 CD GLN X 392 -29.996 -8.548 25.859 1.00 42.92 ATOM 41 OE1 GLN X 392 -29.091 -8.567 25.020 1.00 43.39 ATOM 42 NE2 GLN X 392 -30.739 -7.466 26.091 1.00 45.55 ATOM 43 N THR X 393 -26.118 -11.488 26.760 1.00 31.14 ATOM 44 CA THR X 393 -24.946 -12.119 27.345 1.00 30.83 ATOM 45 C THR X 393 -25.209 -12.402 28.823 1.00 30.56 ATOM 46 O THR X 393 -24.681 -13.360 29.393 1.00 31.96 ATOM 47 CB THR X 393 -23.702 -11.223 27.218 1.00 31.39 ATOM 48 OG1 THR X 393 -23.302 -11.164 25.846 1.00 34.07 ATOM 49 CG2 THR X 393 -22.553 -11.781 28.032 1.00 32.34 ATOM 50 N ALA X 394 -26.041 -11.573 29.442 1.00 29.66 ATOM 51 CA ALA X 394 -26.355 -11.750 30.852 1.00 28.23 ATOM 52 C ALA X 394 -27.795 -11.377 31.160 1.00 28.08 ATOM 53 O ALA X 394 -28.319 -10.400 30.635 1.00 28.19 ATOM 54 CB ALA X 394 -25.410 -10.919 31.698 1.00 27.03 ATOM 55 N CYS X 395 -28.429 -12.176 32.008 1.00 28.87 ATOM 56 CA CYS X 395 -29.807 -11.946 32.415 1.00 30.79 ATOM 57 C CYS X 395 -29.957 -12.225 33.912 1.00 31.47 ATOM 58 O CYS X 395 -29.243 -13.058 34.472 1.00 30.43 ATOM 59 CB CYS X 395 -30.762 -12.856 31.630 1.00 31.27 ATOM 60 SG CYS X 395 -31.102 -12.384 29.892 1.00 36.70 ATOM 61 N PRO X 396 -30.876 -11.513 34.584 1.00 31.57 ATOM 62 CA PRO X 396 -31.102 -11.714 36.018 1.00 31.64 ATOM 63 C PRO X 396 -31.437 -13.176 36.276 1.00 31.53 ATOM 64 O PRO X 396 -32.147 -13.797 35.490 1.00 31.57 ATOM 65 CB PRO X 396 -32.292 -10.809 36.308 1.00 31.32 ATOM 66 CG PRO X 396 -32.103 -9.697 35.341 1.00 33.21 ATOM 67 CD PRO X 396 -31.706 -10.410 34.072 1.00 32.08 ATOM 68 N ALA X 397 -30.916 -13.731 37.362 1.00 32.82 ATOM 69 CA ALA X 397 -31.197 -15.120 37.704 1.00 33.82 ATOM 70 C ALA X 397 -32.591 -15.174 38.308 1.00 34.22 ATOM 71 O ALA X 397 -33.043 -14.203 38.910 1.00 34.39 ATOM 72 CB ALA X 397 -30.176 -15.632 38.710 1.00 33.70 ATOM 73 N ASP X 398 -33.278 -16.296 38.131 1.00 35.92 ATOM 74 CA ASP X 398 -34.618 -16.465 38.688 1.00 37.47 ATOM 75 C ASP X 398 -34.477 -17.184 40.028 1.00 38.49 ATOM 76 O ASP X 398 -34.628 -18.402 40.118 1.00 37.55 ATOM 77 CB ASP X 398 -35.492 -17.270 37.720 1.00 37.98 ATOM 78 CG ASP X 398 -36.902 -17.507 38.249 1.00 38.98 ATOM 79 OD1 ASP X 398 -37.474 -16.588 38.870 1.00 40.23 ATOM 80 OD2 ASP X 398 -37.445 -18.613 38.029 1.00 38.56 ATOM 81 N CYS X 399 -34.176 -16.412 41.066 1.00 40.58 ATOM 82 CA CYS X 399 -33.978 -16.960 42.399 1.00 44.50 ATOM 83 C CYS X 399 -35.259 -16.967 43.220 1.00 48.39 ATOM 84 O CYS X 399 -36.224 -16.275 42.897 1.00 49.06 ATOM 85 CB CYS X 399 -32.919 -16.150 43.155 1.00 43.17 ATOM 86 SG CYS X 399 -31.394 -15.731 42.244 1.00 40.85 ATOM 87 N ASP X 400 -35.251 -17.748 44.294 1.00 52.42 ATOM 88 CA ASP X 400 -36.401 -17.845 45.177 1.00 56.37 ATOM 89 C ASP X 400 -36.520 -16.567 46.004 1.00 58.53 ATOM 90 O ASP X 400 -35.541 -16.103 46.597 1.00 59.03 ATOM 91 CB ASP X 400 -36.250 -19.053 46.097 1.00 58.66 ATOM 92 CG ASP X 400 -37.424 -19.219 47.030 1.00 61.44 ATOM 93 OD1 ASP X 400 -38.565 -19.321 46.532 1.00 63.34 ATOM 94 OD2 ASP X 400 -37.205 -19.248 48.261 1.00 63.55 ATOM 95 N PRO X 401 -37.730 -15.983 46.055 1.00 60.34 ATOM 96 CA PRO X 401 -38.026 -14.750 46.797 1.00 60.93 ATOM 97 C PRO X 401 -37.892 -14.862 48.317 1.00 61.75 ATOM 98 O PRO X 401 -37.500 -13.907 48.986 1.00 61.13 ATOM 99 CB PRO X 401 -39.456 -14.435 46.373 1.00 60.69 ATOM 100 CG PRO X 401 -40.049 -15.806 46.199 1.00 60.87 ATOM 101 CD PRO X 401 -38.956 -16.520 45.432 1.00 60.59 ATOM 102 N ASN X 402 -38.229 -16.028 48.856 1.00 62.52 ATOM 103 CA ASN X 402 -38.148 -16.250 50.295 1.00 63.19 ATOM 104 C ASN X 402 -37.501 -17.596 50.594 1.00 62.84 ATOM 105 O ASN X 402 -36.328 -17.765 50.208 1.00 62.65 ATOM 106 CB ASN X 402 -39.550 -16.203 50.913 1.00 63.80 ATOM 107 N ALA X 405 -32.478 -17.779 48.833 1.00 45.37 ATOM 108 CA ALA X 405 -32.438 -17.538 47.361 1.00 44.55 ATOM 109 C ALA X 405 -31.667 -18.636 46.631 1.00 43.71 ATOM 110 O ALA X 405 -30.435 -18.617 46.590 1.00 44.70 ATOM 111 CB ALA X 405 -31.804 -16.185 47.070 1.00 44.63 ATOM 112 N SER X 406 -32.394 -19.611 46.088 1.00 41.75 ATOM 113 CA SER X 406 -31.783 -20.696 45.327 1.00 39.59 ATOM 114 C SER X 406 -32.112 -20.369 43.870 1.00 39.33 ATOM 115 O SER X 406 -33.248 -20.546 43.419 1.00 39.83 ATOM 116 CB SER X 406 -32.394 -22.041 45.711 1.00 38.04 ATOM 117 OG SER X 406 -33.653 -22.210 45.092 1.00 38.61 ATOM 118 N CYS X 407 -31.108 -19.903 43.136 1.00 37.21 ATOM 119 CA CYS X 407 -31.285 -19.485 41.752 1.00 34.65 ATOM 120 C CYS X 407 -31.278 -20.525 40.648 1.00 31.64 ATOM 121 O CYS X 407 -30.683 -21.589 40.767 1.00 30.50 ATOM 122 CB CYS X 407 -30.244 -18.430 41.420 1.00 35.98 ATOM 123 SG CYS X 407 -30.058 -17.192 42.732 1.00 38.95 ATOM 124 N GLU X 408 -31.947 -20.159 39.560 1.00 30.51 ATOM 125 CA GLU X 408 -32.074 -20.967 38.354 1.00 28.17 ATOM 126 C GLU X 408 -31.585 -20.130 37.167 1.00 26.98 ATOM 127 O GLU X 408 -31.714 -18.905 37.160 1.00 26.53 ATOM 128 CB GLU X 408 -33.539 -21.342 38.129 1.00 29.03 ATOM 129 CG GLU X 408 -34.152 -22.163 39.242 1.00 31.57 ATOM 130 CD GLU X 408 -33.754 -23.625 39.183 1.00 34.58 ATOM 131 OE1 GLU X 408 -33.969 -24.335 40.188 1.00 36.19 ATOM 132 OE2 GLU X 408 -33.237 -24.073 38.134 1.00 36.58 ATOM 133 N CYS X 409 -31.012 -20.795 36.174 1.00 25.09 ATOM 134 CA CYS X 409 -30.527 -20.127 34.976 1.00 23.59 ATOM 135 C CYS X 409 -30.969 -20.933 33.769 1.00 24.17 ATOM 136 O CYS X 409 -31.161 -22.144 33.857 1.00 24.97 ATOM 137 CB CYS X 409 -29.002 -20.027 34.970 1.00 20.06 ATOM 138 SG CYS X 409 -28.322 -18.740 36.052 1.00 23.51 ATOM 139 N PRO X 410 -31.154 -20.268 32.627 1.00 23.95 ATOM 140 CA PRO X 410 -31.573 -21.014 31.444 1.00 25.16 ATOM 141 C PRO X 410 -30.381 -21.801 30.906 1.00 25.85 ATOM 142 O PRO X 410 -29.231 -21.501 31.237 1.00 24.57 ATOM 143 CB PRO X 410 -32.051 -19.917 30.497 1.00 25.45 ATOM 144 CG PRO X 410 -31.174 -18.761 30.856 1.00 26.61 ATOM 145 CD PRO X 410 -31.108 -18.820 32.366 1.00 24.84 ATOM 146 N GLU X 411 -30.658 -22.816 30.094 1.00 26.69 ATOM 147 CA GLU X 411 -29.599 -23.642 29.531 1.00 26.88 ATOM 148 C GLU X 411 -28.574 -22.774 28.823 1.00 24.20 ATOM 149 O GLU X 411 -28.925 -21.795 28.166 1.00 23.36 ATOM 150 CB GLU X 411 -30.186 -24.665 28.544 1.00 32.17 ATOM 151 CG GLU X 411 -31.137 -25.696 29.180 1.00 39.32 ATOM 152 CD GLU X 411 -30.438 -26.648 30.163 1.00 44.72 ATOM 153 OE1 GLU X 411 -29.585 -27.452 29.720 1.00 46.77 ATOM 154 OE2 GLU X 411 -30.740 -26.594 31.380 1.00 46.32 ATOM 155 N GLY X 412 -27.303 -23.128 28.965 1.00 22.49 ATOM 156 CA GLY X 412 -26.260 -22.370 28.306 1.00 21.60 ATOM 157 C GLY X 412 -25.731 -21.210 29.119 1.00 21.07 ATOM 158 O GLY X 412 -24.766 -20.558 28.713 1.00 23.96 ATOM 159 N TYR X 413 -26.366 -20.941 30.255 1.00 18.83 ATOM 160 CA TYR X 413 -25.935 -19.866 31.135 1.00 17.47 ATOM 161 C TYR X 413 -25.477 -20.443 32.469 1.00 18.12 ATOM 162 O TYR X 413 -25.817 -21.570 32.830 1.00 17.13 ATOM 163 CB TYR X 413 -27.068 -18.874 31.389 1.00 17.66 ATOM 164 CG TYR X 413 -27.447 -18.035 30.197 1.00 19.41 ATOM 165 CD1 TYR X 413 -28.263 -18.546 29.188 1.00 20.31 ATOM 166 CD2 TYR X 413 -26.964 -16.737 30.062 1.00 19.50 ATOM 167 CE1 TYR X 413 -28.585 -17.781 28.070 1.00 20.40 ATOM 168 CE2 TYR X 413 -27.274 -15.964 28.950 1.00 18.64 ATOM 169 CZ TYR X 413 -28.083 -16.487 27.955 1.00 19.92 ATOM 170 OH TYR X 413 -28.381 -15.724 26.841 1.00 15.15 ATOM 171 N ILE X 414 -24.724 -19.656 33.220 1.00 17.79 ATOM 172 CA ILE X 414 -24.231 -20.125 34.498 1.00 17.97 ATOM 173 C ILE X 414 -24.348 -19.030 35.542 1.00 18.10 ATOM 174 O ILE X 414 -24.123 -17.854 35.242 1.00 18.76 ATOM 175 CB ILE X 414 -22.768 -20.570 34.349 1.00 18.54 ATOM 176 CG1 ILE X 414 -22.336 -21.379 35.564 1.00 17.87 ATOM 177 CG2 ILE X 414 -21.884 -19.363 34.133 1.00 17.10 ATOM 178 CD1 ILE X 414 -21.122 -22.225 35.284 1.00 16.25 ATOM 179 N LEU X 415 -24.714 -19.415 36.762 1.00 17.51 ATOM 180 CA LEU X 415 -24.857 -18.452 37.845 1.00 16.99 ATOM 181 C LEU X 415 -23.524 -17.759 38.039 1.00 16.58 ATOM 182 O LEU X 415 -22.492 -18.403 38.177 1.00 16.06 ATOM 183 CB LEU X 415 -25.285 -19.143 39.140 1.00 18.57 ATOM 184 CG LEU X 415 -25.698 -18.185 40.265 1.00 18.36 ATOM 185 CD1 LEU X 415 -26.864 -17.336 39.790 1.00 19.11 ATOM 186 CD2 LEU X 415 -26.080 -18.964 41.515 1.00 16.24 ATOM 187 N ASP X 416 -23.565 -16.436 38.045 1.00 18.23 ATOM 188 CA ASP X 416 -22.376 -15.608 38.178 1.00 19.97 ATOM 189 C ASP X 416 -22.608 -14.653 39.355 1.00 22.04 ATOM 190 O ASP X 416 -23.661 -14.679 39.983 1.00 21.49 ATOM 191 CB ASP X 416 -22.200 -14.831 36.866 1.00 20.55 ATOM 192 CG ASP X 416 -20.831 -14.206 36.718 1.00 24.59 ATOM 193 OD1 ASP X 416 -20.624 -13.531 35.687 1.00 22.82 ATOM 194 OD2 ASP X 416 -19.965 -14.383 37.610 1.00 28.73 ATOM 195 N ASP X 417 -21.631 -13.811 39.659 1.00 25.05 ATOM 196 CA ASP X 417 -21.773 -12.860 40.757 1.00 28.18 ATOM 197 C ASP X 417 -22.956 -11.916 40.567 1.00 28.88 ATOM 198 O ASP X 417 -23.317 -11.570 39.440 1.00 30.54 ATOM 199 CB ASP X 417 -20.490 -12.039 40.908 1.00 31.29 ATOM 200 CG ASP X 417 -19.441 -12.750 41.745 1.00 33.73 ATOM 201 OD1 ASP X 417 -18.270 -12.323 41.733 1.00 35.91 ATOM 202 OD2 ASP X 417 -19.792 -13.732 42.430 1.00 34.96 ATOM 203 N GLY X 418 -23.555 -11.509 41.682 1.00 28.92 ATOM 204 CA GLY X 418 -24.679 -10.592 41.641 1.00 27.70 ATOM 205 C GLY X 418 -25.984 -11.249 41.254 1.00 28.32 ATOM 206 O GLY X 418 -26.917 -10.578 40.812 1.00 27.88 ATOM 207 N PHE X 419 -26.058 -12.562 41.434 1.00 29.36 ATOM 208 CA PHE X 419 -27.252 -13.315 41.083 1.00 30.30 ATOM 209 C PHE X 419 -27.657 -12.995 39.651 1.00 29.32 ATOM 210 O PHE X 419 -28.758 -12.523 39.377 1.00 28.48 ATOM 211 CB PHE X 419 -28.383 -13.002 42.065 1.00 33.23 ATOM 212 CG PHE X 419 -28.119 -13.507 43.451 1.00 37.23 ATOM 213 CD1 PHE X 419 -27.931 -14.872 43.678 1.00 39.12 ATOM 214 CD2 PHE X 419 -28.029 -12.626 44.528 1.00 39.91 ATOM 215 CE1 PHE X 419 -27.656 -15.359 44.957 1.00 40.18 ATOM 216 CE2 PHE X 419 -27.754 -13.099 45.816 1.00 41.43 ATOM 217 CZ PHE X 419 -27.567 -14.470 46.030 1.00 41.37 ATOM 218 N ILE X 420 -26.726 -13.260 38.743 1.00 28.56 ATOM 219 CA ILE X 420 -26.926 -13.042 37.323 1.00 26.97 ATOM 220 C ILE X 420 -26.498 -14.273 36.548 1.00 25.20 ATOM 221 O ILE X 420 -25.513 -14.918 36.891 1.00 26.26 ATOM 222 CB ILE X 420 -26.086 -11.868 36.815 1.00 26.98 ATOM 223 CG1 ILE X 420 -26.545 -10.582 37.474 1.00 25.76 ATOM 224 CG2 ILE X 420 -26.231 -11.737 35.314 1.00 28.33 ATOM 225 CD1 ILE X 420 -25.838 -9.405 36.938 1.00 30.12 ATOM 226 N CYS X 421 -27.249 -14.596 35.504 1.00 23.67 ATOM 227 CA CYS X 421 -26.919 -15.729 34.657 1.00 22.23 ATOM 228 C CYS X 421 -26.089 -15.206 33.496 1.00 21.49 ATOM 229 O CYS X 421 -26.577 -14.435 32.677 1.00 21.21 ATOM 230 CB CYS X 421 -28.186 -16.386 34.131 1.00 21.02 ATOM 231 SG CYS X 421 -29.254 -17.031 35.448 1.00 25.74 ATOM 232 N THR X 422 -24.828 -15.615 33.442 1.00 20.91 ATOM 233 CA THR X 422 -23.927 -15.186 32.385 1.00 21.11 ATOM 234 C THR X 422 -23.838 -16.261 31.317 1.00 20.80 ATOM 235 O THR X 422 -23.764 -17.445 31.632 1.00 22.60 ATOM 236 CB THR X 422 -22.523 -14.919 32.947 1.00 20.59 ATOM 237 OG1 THR X 422 -22.584 -13.803 33.840 1.00 23.23 ATOM 238 CG2 THR X 422 -21.530 -14.622 31.826 1.00 21.88 TER