HEADER PROTEIN BINDING 31-DEC-69 6C16 TITLE Ubiquitin variant (UbV.Fbl10.1) bound to a human Skp1-Fbl11 fragment TITLE 2 complex. COMPND MOL_ID: 2; COMPND 2 MOLECULE: Lysine-specific demethylase 2A; COMPND 3 CHAIN: C, F; COMPND 4 EC: 1.14.11.27; COMPND 5 ENGINEERED: YES; EXPDTA X-RAY DIFFRACTION REMARK 2 RESOLUTION. 3.27 ANGSTORMS DBREF 6C16 C 888 932 UNP Q9Y2K7 KDM2A_HUMAN 888 932 SEQRES 1 C 35 TRP MET GLN ARG GLU VAL TRP MET SER VAL PHE ARG TYR SEQRES 2 C 35 LEU SER ARG ARG GLU LEU CYS GLU CYS MET ARG VAL CYS SEQRES 3 C 35 LYS THR TRP TYR LYS TRP CYS CYS ASP ATOM 1 N TRP C 892 2.291 -13.595 29.162 1.00104.25 ATOM 2 CA TRP C 892 2.780 -13.361 27.808 1.00108.51 ATOM 3 C TRP C 892 4.298 -13.467 27.757 1.00104.55 ATOM 4 O TRP C 892 4.872 -14.492 28.127 1.00101.82 ATOM 5 CB TRP C 892 2.325 -12.000 27.306 1.00101.90 ATOM 6 N MET C 893 4.947 -12.405 27.279 1.00110.21 ATOM 7 CA MET C 893 6.405 -12.364 27.236 1.00108.03 ATOM 8 C MET C 893 7.016 -11.037 27.662 1.00105.11 ATOM 9 O MET C 893 8.217 -11.007 27.946 1.00102.09 ATOM 10 CB MET C 893 6.907 -12.704 25.826 1.00 93.39 ATOM 11 N GLN C 894 6.253 -9.946 27.729 1.00102.52 ATOM 12 CA GLN C 894 6.797 -8.618 27.986 1.00 94.70 ATOM 13 C GLN C 894 6.955 -8.265 29.463 1.00 92.92 ATOM 14 O GLN C 894 7.644 -7.286 29.768 1.00 91.69 ATOM 15 CB GLN C 894 5.915 -7.558 27.316 1.00 94.88 ATOM 16 CG GLN C 894 6.037 -7.512 25.800 1.00 97.66 ATOM 17 CD GLN C 894 7.339 -6.885 25.337 1.00 93.74 ATOM 18 OE1 GLN C 894 7.431 -5.668 25.175 1.00 88.56 ATOM 19 NE2 GLN C 894 8.353 -7.716 25.118 1.00 85.14 ATOM 20 N ARG C 895 6.354 -9.015 30.387 1.00100.45 ATOM 21 CA ARG C 895 6.398 -8.603 31.789 1.00102.73 ATOM 22 C ARG C 895 7.775 -8.830 32.405 1.00 97.69 ATOM 23 O ARG C 895 8.403 -7.893 32.911 1.00 96.77 ATOM 24 CB ARG C 895 5.319 -9.342 32.588 1.00101.17 ATOM 25 CG ARG C 895 5.569 -9.410 34.097 1.00 97.19 ATOM 26 CD ARG C 895 5.627 -8.030 34.745 1.00 95.52 ATOM 27 NE ARG C 895 6.131 -8.094 36.114 1.00 97.07 ATOM 28 CZ ARG C 895 6.700 -7.075 36.751 1.00100.38 ATOM 29 NH1 ARG C 895 7.128 -7.224 37.997 1.00107.08 ATOM 30 NH2 ARG C 895 6.843 -5.907 36.142 1.00 94.95 ATOM 31 N GLU C 896 8.263 -10.071 32.377 1.00 98.06 ATOM 32 CA GLU C 896 9.490 -10.380 33.102 1.00 96.88 ATOM 33 C GLU C 896 10.722 -9.762 32.449 1.00 98.14 ATOM 34 O GLU C 896 11.700 -9.463 33.143 1.00 99.06 ATOM 35 CB GLU C 896 9.647 -11.894 33.245 1.00 95.79 ATOM 36 CG GLU C 896 8.553 -12.558 34.083 1.00 96.30 ATOM 37 CD GLU C 896 7.275 -12.835 33.308 1.00108.75 ATOM 38 OE1 GLU C 896 6.963 -12.084 32.360 1.00108.11 ATOM 39 OE2 GLU C 896 6.581 -13.817 33.648 1.00115.53 ATOM 40 N VAL C 897 10.703 -9.559 31.130 1.00 91.27 ATOM 41 CA VAL C 897 11.865 -8.967 30.472 1.00 90.80 ATOM 42 C VAL C 897 11.949 -7.475 30.774 1.00 94.13 ATOM 43 O VAL C 897 13.030 -6.947 31.062 1.00 93.97 ATOM 44 CB VAL C 897 11.831 -9.243 28.956 1.00 89.48 ATOM 45 CG1 VAL C 897 10.471 -8.910 28.377 1.00 99.98 ATOM 46 CG2 VAL C 897 12.925 -8.461 28.245 1.00 84.70 ATOM 47 N TRP C 898 10.815 -6.772 30.720 1.00 93.73 ATOM 48 CA TRP C 898 10.827 -5.336 30.980 1.00 88.25 ATOM 49 C TRP C 898 11.066 -5.036 32.454 1.00 94.39 ATOM 50 O TRP C 898 11.711 -4.035 32.786 1.00 99.04 ATOM 51 CB TRP C 898 9.518 -4.704 30.508 1.00 84.67 ATOM 52 CG TRP C 898 9.485 -4.431 29.036 1.00 90.34 ATOM 53 CD1 TRP C 898 8.740 -5.081 28.095 1.00 93.01 ATOM 54 CD2 TRP C 898 10.249 -3.447 28.331 1.00 94.90 ATOM 55 NE1 TRP C 898 8.983 -4.554 26.850 1.00 89.29 ATOM 56 CE2 TRP C 898 9.907 -3.549 26.968 1.00 90.79 ATOM 57 CE3 TRP C 898 11.185 -2.484 28.722 1.00 88.76 ATOM 58 CZ2 TRP C 898 10.467 -2.727 25.995 1.00 91.07 ATOM 59 CZ3 TRP C 898 11.742 -1.671 27.754 1.00 85.64 ATOM 60 CH2 TRP C 898 11.381 -1.796 26.407 1.00 96.44 ATOM 61 N MET C 899 10.550 -5.881 33.349 1.00 90.64 ATOM 62 CA MET C 899 10.827 -5.702 34.769 1.00 91.14 ATOM 63 C MET C 899 12.308 -5.879 35.076 1.00 91.60 ATOM 64 O MET C 899 12.818 -5.290 36.036 1.00 94.76 ATOM 65 CB MET C 899 9.995 -6.683 35.595 1.00 93.59 ATOM 66 N SER C 900 13.011 -6.683 34.277 1.00 86.57 ATOM 67 CA SER C 900 14.432 -6.914 34.505 1.00 88.31 ATOM 68 C SER C 900 15.277 -5.721 34.074 1.00 84.96 ATOM 69 O SER C 900 16.277 -5.400 34.726 1.00 79.82 ATOM 70 CB SER C 900 14.880 -8.179 33.775 1.00 86.38 ATOM 71 OG SER C 900 13.942 -9.224 33.962 1.00 87.69 ATOM 72 N VAL C 901 14.900 -5.054 32.979 1.00 90.02 ATOM 73 CA VAL C 901 15.626 -3.858 32.571 1.00 90.11 ATOM 74 C VAL C 901 15.312 -2.680 33.481 1.00 88.05 ATOM 75 O VAL C 901 16.051 -1.689 33.482 1.00 91.65 ATOM 76 CB VAL C 901 15.324 -3.504 31.101 1.00 82.26 ATOM 77 CG1 VAL C 901 15.331 -4.756 30.239 1.00 74.22 ATOM 78 CG2 VAL C 901 13.998 -2.769 30.982 1.00 86.82 ATOM 79 N PHE C 902 14.232 -2.760 34.261 1.00 81.56 ATOM 80 CA PHE C 902 13.927 -1.701 35.214 1.00 83.79 ATOM 81 C PHE C 902 14.857 -1.728 36.420 1.00 85.51 ATOM 82 O PHE C 902 15.039 -0.692 37.069 1.00 78.41 ATOM 83 CB PHE C 902 12.472 -1.811 35.673 1.00 89.03 ATOM 84 N ARG C 903 15.442 -2.886 36.734 1.00 88.62 ATOM 85 CA ARG C 903 16.354 -2.974 37.870 1.00 87.89 ATOM 86 C ARG C 903 17.627 -2.172 37.626 1.00 91.63 ATOM 87 O ARG C 903 18.183 -1.581 38.559 1.00 95.20 ATOM 88 CB ARG C 903 16.689 -4.437 38.160 1.00 82.68 ATOM 89 N TYR C 904 18.102 -2.136 36.380 1.00 94.94 ATOM 90 CA TYR C 904 19.324 -1.403 36.069 1.00 89.67 ATOM 91 C TYR C 904 19.089 0.099 36.011 1.00 92.29 ATOM 92 O TYR C 904 19.987 0.877 36.353 1.00 90.84 ATOM 93 CB TYR C 904 19.908 -1.891 34.743 1.00 84.36 ATOM 94 CG TYR C 904 20.365 -3.331 34.769 1.00 84.78 ATOM 95 CD1 TYR C 904 20.850 -3.906 35.937 1.00 87.86 ATOM 96 CD2 TYR C 904 20.312 -4.115 33.626 1.00 81.11 ATOM 97 CE1 TYR C 904 21.268 -5.223 35.963 1.00 84.15 ATOM 98 CE2 TYR C 904 20.730 -5.430 33.642 1.00 80.26 ATOM 99 CZ TYR C 904 21.206 -5.980 34.812 1.00 74.56 ATOM 100 OH TYR C 904 21.621 -7.292 34.829 1.00 62.66 ATOM 101 N LEU C 905 17.903 0.521 35.582 1.00 96.70 ATOM 102 CA LEU C 905 17.562 1.936 35.583 1.00 94.77 ATOM 103 C LEU C 905 17.444 2.452 37.011 1.00100.39 ATOM 104 O LEU C 905 16.873 1.791 37.883 1.00100.12 ATOM 105 CB LEU C 905 16.254 2.170 34.827 1.00 87.78 ATOM 106 N SER C 906 17.990 3.642 37.245 1.00106.93 ATOM 107 CA SER C 906 17.987 4.228 38.575 1.00110.03 ATOM 108 C SER C 906 16.564 4.591 38.997 1.00111.83 ATOM 109 O SER C 906 15.605 4.484 38.226 1.00107.29 ATOM 110 CB SER C 906 18.888 5.463 38.618 1.00107.15 ATOM 111 N ARG C 907 16.436 5.031 40.252 1.00115.15 ATOM 112 CA ARG C 907 15.122 5.372 40.789 1.00110.06 ATOM 113 C ARG C 907 14.482 6.521 40.023 1.00108.33 ATOM 114 O ARG C 907 13.251 6.604 39.942 1.00109.06 ATOM 115 CB ARG C 907 15.238 5.723 42.273 1.00103.90 ATOM 116 N ARG C 908 15.294 7.414 39.456 1.00105.15 ATOM 117 CA ARG C 908 14.748 8.530 38.691 1.00112.04 ATOM 118 C ARG C 908 14.141 8.058 37.374 1.00114.96 ATOM 119 O ARG C 908 13.099 8.568 36.948 1.00114.96 ATOM 120 CB ARG C 908 15.835 9.574 38.438 1.00113.51 ATOM 121 N GLU C 909 14.779 7.086 36.716 1.00112.76 ATOM 122 CA GLU C 909 14.280 6.610 35.429 1.00105.95 ATOM 123 C GLU C 909 12.957 5.865 35.562 1.00107.21 ATOM 124 O GLU C 909 12.119 5.936 34.655 1.00106.71 ATOM 125 CB GLU C 909 15.324 5.716 34.760 1.00102.63 ATOM 126 N LEU C 910 12.744 5.149 36.669 1.00109.29 ATOM 127 CA LEU C 910 11.470 4.462 36.856 1.00104.37 ATOM 128 C LEU C 910 10.321 5.433 37.085 1.00107.01 ATOM 129 O LEU C 910 9.166 5.077 36.829 1.00106.03 ATOM 130 CB LEU C 910 11.553 3.477 38.024 1.00100.92 ATOM 131 CG LEU C 910 12.814 2.623 38.158 1.00 98.51 ATOM 132 CD1 LEU C 910 12.644 1.614 39.281 1.00 94.77 ATOM 133 CD2 LEU C 910 13.123 1.915 36.851 1.00 96.92 ATOM 134 N CYS C 911 10.609 6.643 37.570 1.00108.14 ATOM 135 CA CYS C 911 9.560 7.641 37.744 1.00108.23 ATOM 136 C CYS C 911 8.942 8.020 36.404 1.00108.85 ATOM 137 O CYS C 911 7.716 8.046 36.255 1.00108.84 ATOM 138 CB CYS C 911 10.122 8.876 38.450 1.00105.76 ATOM 139 N GLU C 912 9.785 8.314 35.411 1.00107.95 ATOM 140 CA GLU C 912 9.293 8.630 34.076 1.00109.30 ATOM 141 C GLU C 912 8.740 7.408 33.354 1.00111.82 ATOM 142 O GLU C 912 7.927 7.562 32.437 1.00113.90 ATOM 143 CB GLU C 912 10.410 9.259 33.242 1.00107.01 ATOM 144 CG GLU C 912 11.116 10.421 33.923 1.00110.77 ATOM 145 CD GLU C 912 10.639 11.771 33.425 1.00113.81 ATOM 146 OE1 GLU C 912 9.832 11.806 32.474 1.00114.16 ATOM 147 OE2 GLU C 912 11.074 12.800 33.984 1.00112.82 ATOM 148 N CYS C 913 9.154 6.202 33.748 1.00110.35 ATOM 149 CA CYS C 913 8.699 4.995 33.068 1.00112.60 ATOM 150 C CYS C 913 7.206 4.747 33.244 1.00113.19 ATOM 151 O CYS C 913 6.614 4.020 32.440 1.00110.21 ATOM 152 CB CYS C 913 9.486 3.782 33.568 1.00108.99 ATOM 153 N MET C 914 6.587 5.324 34.276 1.00117.14 ATOM 154 CA MET C 914 5.162 5.101 34.493 1.00116.97 ATOM 155 C MET C 914 4.303 5.867 33.494 1.00114.56 ATOM 156 O MET C 914 3.209 5.410 33.144 1.00111.06 ATOM 157 CB MET C 914 4.785 5.494 35.921 1.00110.31 ATOM 158 CG MET C 914 5.596 4.786 36.993 1.00109.00 ATOM 159 SD MET C 914 4.747 4.767 38.583 1.00143.15 ATOM 160 CE MET C 914 6.001 4.036 39.633 1.00121.93 ATOM 161 N ARG C 915 4.774 7.020 33.023 1.00112.16 ATOM 162 CA ARG C 915 4.004 7.835 32.091 1.00113.51 ATOM 163 C ARG C 915 4.075 7.329 30.657 1.00118.42 ATOM 164 O ARG C 915 3.486 7.955 29.769 1.00121.17 ATOM 165 CB ARG C 915 4.476 9.295 32.139 1.00111.59 ATOM 166 CG ARG C 915 4.478 9.933 33.528 1.00112.75 ATOM 167 CD ARG C 915 5.787 9.682 34.263 1.00107.62 ATOM 168 NE ARG C 915 5.816 10.293 35.588 1.00103.15 ATOM 169 CZ ARG C 915 6.290 11.509 35.839 1.00108.58 ATOM 170 NH1 ARG C 915 6.783 12.247 34.854 1.00114.79 ATOM 171 NH2 ARG C 915 6.278 11.985 37.077 1.00107.29 ATOM 172 N VAL C 916 4.776 6.225 30.407 1.00114.24 ATOM 173 CA VAL C 916 4.879 5.697 29.049 1.00110.78 ATOM 174 C VAL C 916 3.608 4.953 28.660 1.00114.15 ATOM 175 O VAL C 916 2.920 5.321 27.701 1.00121.78 ATOM 176 CB VAL C 916 6.120 4.796 28.917 1.00108.76 ATOM 177 CG1 VAL C 916 6.464 4.583 27.456 1.00108.72 ATOM 178 CG2 VAL C 916 7.296 5.411 29.652 1.00112.51 ATOM 179 N CYS C 917 3.279 3.895 29.398 1.00111.82 ATOM 180 CA CYS C 917 2.113 3.077 29.099 1.00112.59 ATOM 181 C CYS C 917 1.458 2.621 30.394 1.00114.66 ATOM 182 O CYS C 917 2.051 2.683 31.474 1.00113.31 ATOM 183 CB CYS C 917 2.482 1.860 28.240 1.00110.07 ATOM 184 N LYS C 918 0.210 2.161 30.269 1.00116.80 ATOM 185 CA LYS C 918 -0.510 1.653 31.432 1.00116.59 ATOM 186 C LYS C 918 0.032 0.296 31.857 1.00115.71 ATOM 187 O LYS C 918 0.155 0.018 33.056 1.00112.60 ATOM 188 CB LYS C 918 -2.005 1.562 31.128 1.00117.53 ATOM 189 N THR C 919 0.352 -0.564 30.886 1.00114.73 ATOM 190 CA THR C 919 0.966 -1.846 31.210 1.00113.39 ATOM 191 C THR C 919 2.293 -1.654 31.932 1.00111.79 ATOM 192 O THR C 919 2.646 -2.454 32.806 1.00110.42 ATOM 193 CB THR C 919 1.163 -2.669 29.937 1.00109.84 ATOM 194 OG1 THR C 919 1.524 -1.799 28.856 1.00110.50 ATOM 195 CG2 THR C 919 -0.119 -3.405 29.577 1.00103.18 ATOM 196 N TRP C 920 3.037 -0.601 31.585 1.00112.28 ATOM 197 CA TRP C 920 4.247 -0.262 32.324 1.00110.39 ATOM 198 C TRP C 920 3.922 0.386 33.664 1.00111.59 ATOM 199 O TRP C 920 4.648 0.177 34.642 1.00109.51 ATOM 200 CB TRP C 920 5.137 0.665 31.493 1.00106.74 ATOM 201 CG TRP C 920 5.830 -0.012 30.344 1.00105.85 ATOM 202 CD1 TRP C 920 5.432 -1.146 29.695 1.00107.37 ATOM 203 CD2 TRP C 920 7.043 0.408 29.707 1.00 99.41 ATOM 204 NE1 TRP C 920 6.322 -1.458 28.696 1.00101.70 ATOM 205 CE2 TRP C 920 7.320 -0.519 28.683 1.00 98.94 ATOM 206 CE3 TRP C 920 7.921 1.478 29.904 1.00 96.53 ATOM 207 CZ2 TRP C 920 8.438 -0.408 27.859 1.00 93.39 ATOM 208 CZ3 TRP C 920 9.030 1.586 29.085 1.00 90.31 ATOM 209 CH2 TRP C 920 9.278 0.649 28.075 1.00 88.74 ATOM 210 N TYR C 921 2.844 1.173 33.721 1.00114.37 ATOM 211 CA TYR C 921 2.435 1.799 34.975 1.00112.65 ATOM 212 C TYR C 921 2.045 0.752 36.011 1.00112.01 ATOM 213 O TYR C 921 2.314 0.918 37.206 1.00107.87 ATOM 214 CB TYR C 921 1.281 2.769 34.708 1.00110.18 ATOM 215 CG TYR C 921 0.460 3.148 35.921 1.00108.34 ATOM 216 CD1 TYR C 921 -0.730 2.492 36.211 1.00112.39 ATOM 217 CD2 TYR C 921 0.864 4.174 36.764 1.00106.52 ATOM 218 CE1 TYR C 921 -1.488 2.839 37.312 1.00110.60 ATOM 219 CE2 TYR C 921 0.112 4.529 37.868 1.00107.54 ATOM 220 CZ TYR C 921 -1.062 3.858 38.137 1.00107.03 ATOM 221 OH TYR C 921 -1.816 4.207 39.234 1.00105.04 ATOM 222 N LYS C 922 1.407 -0.334 35.570 1.00108.04 ATOM 223 CA LYS C 922 1.053 -1.416 36.480 1.00112.17 ATOM 224 C LYS C 922 2.264 -2.241 36.896 1.00113.08 ATOM 225 O LYS C 922 2.207 -2.927 37.922 1.00116.57 ATOM 226 CB LYS C 922 0.005 -2.324 35.833 1.00109.02 ATOM 227 N TRP C 923 3.352 -2.188 36.128 1.00109.38 ATOM 228 CA TRP C 923 4.536 -2.994 36.398 1.00105.07 ATOM 229 C TRP C 923 5.491 -2.327 37.382 1.00104.05 ATOM 230 O TRP C 923 6.054 -3.003 38.250 1.00103.38 ATOM 231 CB TRP C 923 5.267 -3.287 35.085 1.00109.55 ATOM 232 CG TRP C 923 4.592 -4.336 34.262 1.00107.39 ATOM 233 CD1 TRP C 923 3.618 -5.198 34.674 1.00105.62 ATOM 234 CD2 TRP C 923 4.816 -4.616 32.875 1.00104.37 ATOM 235 NE1 TRP C 923 3.232 -6.007 33.634 1.00108.53 ATOM 236 CE2 TRP C 923 3.951 -5.669 32.518 1.00105.73 ATOM 237 CE3 TRP C 923 5.668 -4.082 31.903 1.00100.16 ATOM 238 CZ2 TRP C 923 3.912 -6.199 31.230 1.00 99.62 ATOM 239 CZ3 TRP C 923 5.628 -4.610 30.625 1.00 99.59 ATOM 240 CH2 TRP C 923 4.757 -5.658 30.301 1.00 97.66 ATOM 241 N CYS C 924 5.684 -1.012 37.263 1.00106.66 ATOM 242 CA CYS C 924 6.565 -0.292 38.176 1.00107.08 ATOM 243 C CYS C 924 6.012 -0.224 39.594 1.00111.99 ATOM 244 O CYS C 924 6.785 -0.027 40.537 1.00106.29 ATOM 245 CB CYS C 924 6.830 1.122 37.656 1.00109.51 ATOM 246 SG CYS C 924 7.573 1.199 36.010 1.00109.06 ATOM 247 N CYS C 925 4.700 -0.380 39.767 1.00113.46 ATOM 248 CA CYS C 925 4.076 -0.341 41.082 1.00111.60 ATOM 249 C CYS C 925 3.967 -1.720 41.721 1.00107.42 ATOM 250 O CYS C 925 3.160 -1.908 42.638 1.00113.00 ATOM 251 CB CYS C 925 2.692 0.306 40.990 1.00114.09 ATOM 252 N ASP C 926 4.757 -2.683 41.258 1.00104.40 ATOM 253 CA ASP C 926 4.744 -4.027 41.821 1.00101.86 ATOM 254 C ASP C 926 6.151 -4.443 42.235 1.00 97.44 ATOM 255 O ASP C 926 7.129 -4.093 41.575 1.00 92.72 ATOM 256 CB ASP C 926 4.170 -5.029 40.818 1.00100.48 TER