0.030530 0.000000 0.000000 0.000000 0.020398 0.000000 0.000000 0.000000 0.015351 0.00000 0.00000 0.00000 Tan, X. Li, W. Wang, Z. http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic 4 90.00 90.00 90.00 32.755 49.025 65.141 C3 H7 N O2 89.093 y ALANINE L-peptide linking C6 H15 N4 O2 1 175.209 y ARGININE L-peptide linking C4 H8 N2 O3 132.118 y ASPARAGINE L-peptide linking C4 H7 N O4 133.103 y ASPARTIC ACID L-peptide linking C3 H7 N O2 S 121.158 y CYSTEINE L-peptide linking C5 H10 N2 O3 146.144 y GLUTAMINE L-peptide linking C5 H9 N O4 147.129 y GLUTAMIC ACID L-peptide linking C2 H5 N O2 75.067 y GLYCINE peptide linking C6 H10 N3 O2 1 156.162 y HISTIDINE L-peptide linking H2 O 18.015 WATER non-polymer C6 H13 N O2 131.173 y ISOLEUCINE L-peptide linking C6 H13 N O2 131.173 y LEUCINE L-peptide linking C6 H15 N2 O2 1 147.195 y LYSINE L-peptide linking C5 H11 N O2 S 149.211 y METHIONINE L-peptide linking C9 H11 N O2 165.189 y PHENYLALANINE L-peptide linking C5 H9 N O2 115.130 y PROLINE L-peptide linking C3 H7 N O3 105.093 y SERINE L-peptide linking C4 H9 N O3 119.119 y THREONINE L-peptide linking C11 H12 N2 O2 204.225 y TRYPTOPHAN L-peptide linking C9 H11 N O3 181.189 y TYROSINE L-peptide linking C5 H11 N O2 117.146 y VALINE L-peptide linking To be Published 0353 Mapping the interaction betwwen APP and DR6 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.00000 0.00000 0.00000 100 1 CCD 2012-11-15 ADSC QUANTUM 315r GRAPHITE SINGLE WAVELENGTH M x-ray 1 0.9793 1.0 BL17U SSRF 0.9793 SYNCHROTRON SSRF BEAMLINE BL17U 11840.482 Amyloid beta A4 protein the N-terminal GFLD doamin of APP, UNP residues 22-126 1 man polymer 18.015 water 161 nat water ABPP, APPI, APP, Alzheimer disease amyloid protein, Cerebral vascular amyloid peptide, CVAP, PreA4, Protease nexin-II, PN-II, N-APP, Soluble APP-alpha, S-APP-alpha, Soluble APP-beta, S-APP-beta, C99, Beta-amyloid protein 42, Beta-APP42, Beta-amyloid protein 40, Beta-APP40, C83, P3(42), P3(40), C80, Gamma-secretase C-terminal fragment 59, Amyloid intracellular domain 59, AICD-59, AID(59), Gamma-CTF(59), Gamma-secretase C-terminal fragment 57, Amyloid intracellular domain 57, AICD-57, AID(57), Gamma-CTF(57), Gamma-secretase C-terminal fragment 50, Amyloid intracellular domain 50, AICD-50, AID(50), Gamma-CTF(50), C31 no no TDGNAGLLAEPQIAMFCGRLNMHMNVQNGKWDSDPSGTKTCIDTKEGILQYCQEVYPELQITNVVEANQPVTIQNWCKRG RKQCKTHPHFVIPYRCLVGEFVSDA TDGNAGLLAEPQIAMFCGRLNMHMNVQNGKWDSDPSGTKTCIDTKEGILQYCQEVYPELQITNVVEANQPVTIQNWCKRG RKQCKTHPHFVIPYRCLVGEFVSDA A polypeptide(L) n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n human sample APP, A4, AD1 9606 Homo sapiens 562 Escherichia coli 1 2.21 44.31 VAPOR DIFFUSION, HANGING DROP 7.0 60% v/v TacsimateTM pH 7.0, VAPOR DIFFUSION, HANGING DROP, temperature 288K 288 repository Initial release 1 0 2015-04-08 1MWP contains APP28-123, shorter than our structure (APP22-126) Y RCSB Y RCSB 2014-03-02 REL REL HOH water HOH 1 2 HOH HOH 201 A HOH 2 2 HOH HOH 202 A HOH 3 2 HOH HOH 203 A HOH 4 2 HOH HOH 204 A HOH 5 2 HOH HOH 205 A HOH 6 2 HOH HOH 206 A HOH 7 2 HOH HOH 207 A HOH 8 2 HOH HOH 208 A HOH 9 2 HOH HOH 209 A HOH 10 2 HOH HOH 210 A HOH 11 2 HOH HOH 211 A HOH 12 2 HOH HOH 212 A HOH 13 2 HOH HOH 213 A HOH 14 2 HOH HOH 214 A HOH 15 2 HOH HOH 215 A HOH 16 2 HOH HOH 216 A HOH 17 2 HOH HOH 217 A HOH 18 2 HOH HOH 218 A HOH 19 2 HOH HOH 219 A HOH 20 2 HOH HOH 220 A HOH 21 2 HOH HOH 221 A HOH 22 2 HOH HOH 222 A HOH 23 2 HOH HOH 223 A HOH 24 2 HOH HOH 224 A HOH 25 2 HOH HOH 225 A HOH 26 2 HOH HOH 226 A HOH 27 2 HOH HOH 227 A HOH 28 2 HOH HOH 228 A HOH 29 2 HOH HOH 229 A HOH 30 2 HOH HOH 230 A HOH 31 2 HOH HOH 231 A HOH 32 2 HOH HOH 232 A HOH 33 2 HOH HOH 233 A HOH 34 2 HOH HOH 234 A HOH 35 2 HOH HOH 235 A HOH 36 2 HOH HOH 236 A HOH 37 2 HOH HOH 237 A HOH 38 2 HOH HOH 238 A HOH 39 2 HOH HOH 239 A HOH 40 2 HOH HOH 240 A HOH 41 2 HOH HOH 241 A HOH 42 2 HOH HOH 242 A HOH 43 2 HOH HOH 243 A HOH 44 2 HOH HOH 244 A HOH 45 2 HOH HOH 245 A HOH 46 2 HOH HOH 246 A HOH 47 2 HOH HOH 247 A HOH 48 2 HOH HOH 248 A HOH 49 2 HOH HOH 249 A HOH 50 2 HOH HOH 250 A HOH 51 2 HOH HOH 251 A HOH 52 2 HOH HOH 252 A HOH 53 2 HOH HOH 253 A HOH 54 2 HOH HOH 254 A HOH 55 2 HOH HOH 255 A HOH 56 2 HOH HOH 256 A HOH 57 2 HOH HOH 257 A HOH 58 2 HOH HOH 258 A HOH 59 2 HOH HOH 259 A HOH 60 2 HOH HOH 260 A HOH 61 2 HOH HOH 261 A HOH 62 2 HOH HOH 262 A HOH 63 2 HOH HOH 263 A HOH 64 2 HOH HOH 264 A HOH 65 2 HOH HOH 265 A HOH 66 2 HOH HOH 266 A HOH 67 2 HOH HOH 267 A HOH 68 2 HOH HOH 268 A HOH 69 2 HOH HOH 269 A HOH 70 2 HOH HOH 270 A HOH 71 2 HOH HOH 271 A HOH 72 2 HOH HOH 272 A HOH 73 2 HOH HOH 273 A HOH 74 2 HOH HOH 274 A HOH 75 2 HOH HOH 275 A HOH 76 2 HOH HOH 276 A HOH 77 2 HOH HOH 277 A HOH 78 2 HOH HOH 278 A HOH 79 2 HOH HOH 279 A HOH 80 2 HOH HOH 280 A HOH 81 2 HOH HOH 281 A HOH 82 2 HOH HOH 282 A HOH 83 2 HOH HOH 283 A HOH 84 2 HOH HOH 284 A HOH 85 2 HOH HOH 285 A HOH 86 2 HOH HOH 286 A HOH 87 2 HOH HOH 287 A HOH 88 2 HOH HOH 288 A HOH 89 2 HOH HOH 289 A HOH 90 2 HOH HOH 290 A HOH 91 2 HOH HOH 291 A HOH 92 2 HOH HOH 292 A HOH 93 2 HOH HOH 293 A HOH 94 2 HOH HOH 294 A HOH 95 2 HOH HOH 295 A HOH 96 2 HOH HOH 296 A HOH 97 2 HOH HOH 297 A HOH 98 2 HOH HOH 298 A HOH 99 2 HOH HOH 299 A HOH 100 2 HOH HOH 300 A HOH 101 2 HOH HOH 301 A HOH 102 2 HOH HOH 302 A HOH 103 2 HOH HOH 303 A HOH 104 2 HOH HOH 304 A HOH 105 2 HOH HOH 305 A HOH 106 2 HOH HOH 306 A HOH 107 2 HOH HOH 307 A HOH 108 2 HOH HOH 308 A HOH 109 2 HOH HOH 309 A HOH 110 2 HOH HOH 310 A HOH 111 2 HOH HOH 311 A HOH 112 2 HOH HOH 312 A HOH 113 2 HOH HOH 313 A HOH 114 2 HOH HOH 314 A HOH 115 2 HOH HOH 315 A HOH 116 2 HOH HOH 316 A HOH 117 2 HOH HOH 317 A HOH 118 2 HOH HOH 318 A HOH 119 2 HOH HOH 319 A HOH 120 2 HOH HOH 320 A HOH 121 2 HOH HOH 321 A HOH 122 2 HOH HOH 322 A HOH 123 2 HOH HOH 323 A HOH 124 2 HOH HOH 324 A HOH 125 2 HOH HOH 325 A HOH 126 2 HOH HOH 326 A HOH 127 2 HOH HOH 327 A HOH 128 2 HOH HOH 328 A HOH 129 2 HOH HOH 329 A HOH 130 2 HOH HOH 330 A HOH 131 2 HOH HOH 331 A HOH 132 2 HOH HOH 332 A HOH 133 2 HOH HOH 333 A HOH 134 2 HOH HOH 334 A HOH 135 2 HOH HOH 335 A HOH 136 2 HOH HOH 336 A HOH 137 2 HOH HOH 337 A HOH 138 2 HOH HOH 338 A HOH 139 2 HOH HOH 339 A HOH 140 2 HOH HOH 340 A HOH 141 2 HOH HOH 341 A HOH 142 2 HOH HOH 342 A HOH 143 2 HOH HOH 343 A HOH 144 2 HOH HOH 344 A HOH 145 2 HOH HOH 345 A HOH 146 2 HOH HOH 346 A HOH 147 2 HOH HOH 347 A HOH 148 2 HOH HOH 348 A HOH 149 2 HOH HOH 349 A HOH 150 2 HOH HOH 350 A HOH 151 2 HOH HOH 351 A HOH 152 2 HOH HOH 352 A HOH 153 2 HOH HOH 353 A HOH 154 2 HOH HOH 354 A HOH 155 2 HOH HOH 355 A HOH 156 2 HOH HOH 356 A HOH 157 2 HOH HOH 357 A HOH 158 2 HOH HOH 358 A HOH 159 2 HOH HOH 359 A HOH 160 2 HOH HOH 360 A HOH 161 2 HOH HOH 361 A THR 22 n 1 THR 22 A ASP 23 n 2 ASP 23 A GLY 24 n 3 GLY 24 A ASN 25 n 4 ASN 25 A ALA 26 n 5 ALA 26 A GLY 27 n 6 GLY 27 A LEU 28 n 7 LEU 28 A LEU 29 n 8 LEU 29 A ALA 30 n 9 ALA 30 A GLU 31 n 10 GLU 31 A PRO 32 n 11 PRO 32 A GLN 33 n 12 GLN 33 A ILE 34 n 13 ILE 34 A ALA 35 n 14 ALA 35 A MET 36 n 15 MET 36 A PHE 37 n 16 PHE 37 A CYS 38 n 17 CYS 38 A GLY 39 n 18 GLY 39 A ARG 40 n 19 ARG 40 A LEU 41 n 20 LEU 41 A ASN 42 n 21 ASN 42 A MET 43 n 22 MET 43 A HIS 44 n 23 HIS 44 A MET 45 n 24 MET 45 A ASN 46 n 25 ASN 46 A VAL 47 n 26 VAL 47 A GLN 48 n 27 GLN 48 A ASN 49 n 28 ASN 49 A GLY 50 n 29 GLY 50 A LYS 51 n 30 LYS 51 A TRP 52 n 31 TRP 52 A ASP 53 n 32 ASP 53 A SER 54 n 33 SER 54 A ASP 55 n 34 ASP 55 A PRO 56 n 35 PRO 56 A SER 57 n 36 SER 57 A GLY 58 n 37 GLY 58 A THR 59 n 38 THR 59 A LYS 60 n 39 LYS 60 A THR 61 n 40 THR 61 A CYS 62 n 41 CYS 62 A ILE 63 n 42 ILE 63 A ASP 64 n 43 ASP 64 A THR 65 n 44 THR 65 A LYS 66 n 45 LYS 66 A GLU 67 n 46 GLU 67 A GLY 68 n 47 GLY 68 A ILE 69 n 48 ILE 69 A LEU 70 n 49 LEU 70 A GLN 71 n 50 GLN 71 A TYR 72 n 51 TYR 72 A CYS 73 n 52 CYS 73 A GLN 74 n 53 GLN 74 A GLU 75 n 54 GLU 75 A VAL 76 n 55 VAL 76 A TYR 77 n 56 TYR 77 A PRO 78 n 57 PRO 78 A GLU 79 n 58 GLU 79 A LEU 80 n 59 LEU 80 A GLN 81 n 60 GLN 81 A ILE 82 n 61 ILE 82 A THR 83 n 62 THR 83 A ASN 84 n 63 ASN 84 A VAL 85 n 64 VAL 85 A VAL 86 n 65 VAL 86 A GLU 87 n 66 GLU 87 A ALA 88 n 67 ALA 88 A ASN 89 n 68 ASN 89 A GLN 90 n 69 GLN 90 A PRO 91 n 70 PRO 91 A VAL 92 n 71 VAL 92 A THR 93 n 72 THR 93 A ILE 94 n 73 ILE 94 A GLN 95 n 74 GLN 95 A ASN 96 n 75 ASN 96 A TRP 97 n 76 TRP 97 A CYS 98 n 77 CYS 98 A LYS 99 n 78 LYS 99 A ARG 100 n 79 ARG 100 A GLY 101 n 80 GLY 101 A ARG 102 n 81 ARG 102 A LYS 103 n 82 LYS 103 A GLN 104 n 83 GLN 104 A CYS 105 n 84 CYS 105 A LYS 106 n 85 LYS 106 A THR 107 n 86 THR 107 A HIS 108 n 87 HIS 108 A PRO 109 n 88 PRO 109 A HIS 110 n 89 HIS 110 A PHE 111 n 90 PHE 111 A VAL 112 n 91 VAL 112 A ILE 113 n 92 ILE 113 A PRO 114 n 93 PRO 114 A TYR 115 n 94 TYR 115 A ARG 116 n 95 ARG 116 A CYS 117 n 96 CYS 117 A LEU 118 n 97 LEU 118 A VAL 119 n 98 VAL 119 A GLY 120 n 99 GLY 120 A GLU 121 n 100 GLU 121 A PHE 122 n 101 PHE 122 A VAL 123 n 102 VAL 123 A SER 124 n 103 SER 124 A ASP 125 n 104 ASP 125 A ALA 126 n 105 ALA 126 A 4.2680 4.3751 1.4502 5.0709 -0.7138 8.7089 -0.0237 0.6671 -0.7492 -0.4046 0.0363 -0.7939 0.9634 0.6774 0.0114 0.2531 0.0344 0.0444 0.2892 -0.0695 0.2962 refined 46.7127 5.2175 9.7527 X-RAY DIFFRACTION 2.8233 -1.7118 -1.5866 4.1140 1.6649 2.5568 0.0252 -0.1138 0.2588 -0.0573 0.0279 -0.0339 -0.0850 -0.0956 -0.0347 0.0682 -0.0145 0.0066 0.0513 0.0161 0.0632 refined 25.1791 17.9023 16.5433 X-RAY DIFFRACTION 5.3592 -2.3943 -0.6339 4.5021 0.1502 3.6499 0.1149 0.5535 -0.1782 -0.3380 -0.1615 -0.0139 0.1038 0.0381 0.0505 0.0800 0.0070 0.0099 0.1306 -0.0300 0.0793 refined 29.0549 12.8067 10.6486 X-RAY DIFFRACTION 2.1666 0.9370 2.7286 2.2052 1.4544 6.3676 -0.0073 -0.1229 -0.0160 0.0762 -0.0394 0.3069 -0.0387 -0.5486 0.0453 0.0822 -0.0085 0.0108 0.1285 -0.0045 0.1158 refined 17.3010 15.0618 20.1457 X-RAY DIFFRACTION 2.7671 -2.5866 -1.6773 5.7161 2.1126 7.0719 -0.0398 -0.0911 -0.1626 0.2267 0.0037 0.1253 0.0796 0.0215 0.0761 0.0610 -0.0086 0.0143 0.0816 0.0040 0.0891 refined 23.7917 11.6685 25.5774 X-RAY DIFFRACTION 0.9524 -0.3635 0.2775 3.2681 -1.4365 2.1994 -0.0389 -0.0038 0.0031 0.1554 -0.0588 -0.1791 -0.0573 0.1610 0.0905 0.0566 -0.0006 0.0041 0.0772 -0.0061 0.0767 refined 31.6318 14.9679 21.4978 X-RAY DIFFRACTION 4.2609 4.1902 -1.0894 5.1311 -0.6624 1.4274 -0.5585 0.9280 0.2860 -0.9952 0.5385 0.6237 -0.0974 -0.1978 -0.0240 0.2579 -0.0457 -0.0603 0.2328 0.0382 0.2068 refined 17.5629 20.1084 7.4759 X-RAY DIFFRACTION 1.2881 -1.2474 1.0648 2.8094 -2.2231 3.2661 0.0546 0.0201 -0.0412 0.1516 -0.0673 0.0335 0.1317 0.1550 0.0371 0.0753 -0.0009 -0.0049 0.0561 -0.0050 0.0579 refined 32.9748 13.2718 25.9261 X-RAY DIFFRACTION X-RAY DIFFRACTION 1 chain 'A' and (resid 22 through 28 ) X-RAY DIFFRACTION 2 chain 'A' and (resid 29 through 42 ) X-RAY DIFFRACTION 3 chain 'A' and (resid 43 through 54 ) X-RAY DIFFRACTION 4 chain 'A' and (resid 55 through 65 ) X-RAY DIFFRACTION 5 chain 'A' and (resid 66 through 76 ) X-RAY DIFFRACTION 6 chain 'A' and (resid 77 through 94 ) X-RAY DIFFRACTION 7 chain 'A' and (resid 95 through 109 ) X-RAY DIFFRACTION 8 chain 'A' and (resid 110 through 126 ) author_and_software_defined_assembly PISA 1 monomeric 1.0000000000 0.0000000000 0.0000000000 0.0000000000 1.0000000000 0.0000000000 0.0000000000 0.0000000000 1.0000000000 1_555 x,y,z identity operation 0.0000000000 0.0000000000 0.0000000000 A O ASP 53 A O ASP 32 A N HIS 44 A N HIS 23 A O MET 43 A O MET 22 A N ALA 35 A N ALA 14 A N ILE 34 A N ILE 13 A O TYR 115 A O TYR 94 A O ARG 116 A O ARG 95 A N VAL 86 A N VAL 65 A N VAL 92 A N VAL 71 A O VAL 112 A O VAL 91 A N LYS 99 A N LYS 78 A O LYS 103 A O LYS 82 1 A A O O HOH HOH 295 296 1.82 1 A A O O HOH HOH 347 360 1.85 1 A A O O HOH HOH 217 221 1.96 1 A A O O HOH HOH 349 360 1.98 1 A A O O HOH HOH 253 254 2.00 1 A A O O HOH HOH 298 326 2.05 1 A A O O HOH HOH 249 295 2.05 1 A A O O HOH HOH 313 314 2.09 1 A A O O HOH HOH 254 285 2.12 1 A A O O HOH HOH 233 242 2.16 1 A A O O HOH HOH 284 321 2.19 1 A A O O HOH HOH 244 288 2.19 1 A A O O HOH HOH 323 324 1.73 1_555 3_755 1 A A O O HOH HOH 291 293 1.76 1_555 3_645 1 A ASN 25 -153.31 82.91 1 A THR 61 -115.73 -166.53 0.1863 0.1696 0.1710 1.332 27.23 1998 23021 22664 8.82 91.72 0.10 random 1 1.34 MOLECULAR REPLACEMENT 17.48 0.90 1.11 ML FLAT BULK SOLVENT MODEL 1.332 27.23 161 986 0 0 825 0.007 846 1.104 1143 12.320 314 0.081 124 0.005 151 0.1843 0.1929 1.3650 83 862 54.00 0.2025 0.1716 1.4019 104 1065 68.00 0.1637 0.1772 1.4431 121 1252 80.00 0.1897 0.1773 1.4897 142 1467 91.00 0.1869 0.1694 1.5429 149 1554 99.00 0.1817 0.1635 1.6047 151 1576 100.00 0.1932 0.1692 1.6777 155 1594 100.00 0.1772 0.1658 1.7661 153 1583 100.00 0.1862 0.1661 1.8768 156 1604 100.00 0.2019 0.1572 2.0216 155 1600 100.00 0.1563 0.1532 2.2250 156 1621 100.00 0.1780 0.1655 2.5468 159 1636 100.00 0.1943 0.1740 3.2079 158 1634 100.00 0.1975 0.1804 27.2411 156 1618 93.00 1.33 27.23 4PQD 23021 22664 2.0 2.0 1 98.4 1.33 1.36 1 54 1.36 1.40 1 68 1.40 1.44 1 80 1.44 1.48 1 91 1.48 1.54 1 99 1.54 1.60 1 100 1.60 1.67 1 100 1.67 1.76 1 100 1.76 1.87 1 100 1.87 2.02 1 100 2.02 2.22 1 100 data collection HKL-2000 phasing AMoRE refinement PHENIX (phenix.refine: 1.8.2_1309) data reduction HKL-2000 data scaling HKL-2000 Amyloid beta A4 protein The longer crystal structure of the grow factor like domain from Beta amypoid precusor protein (APP22-126) 1 N N 2 N N A ASN 25 A ASN 4 HELX_P A LEU 29 A LEU 8 5 1 5 A THR 65 A THR 44 HELX_P A TYR 77 A TYR 56 1 2 13 disulf 2.041 A CYS 38 A SG CYS 17 1_555 A CYS 62 A SG CYS 41 1_555 disulf 2.085 A CYS 73 A SG CYS 52 1_555 A CYS 117 A SG CYS 96 1_555 disulf 2.037 A CYS 98 A SG CYS 77 1_555 A CYS 105 A SG CYS 84 1_555 PROTEIN BINDING Alphan and Beta, Growth factor, Heparin binding, protein binding, Alzheimer's Disease, Death receptor 6 binding A4_HUMAN UNP 1 22 P05067 TDGNAGLLAEPQIAMFCGRLNMHMNVQNGKWDSDPSGTKTCIDTKEGILQYCQEVYPELQITNVVEANQPVTIQNWCKRG RKQCKTHPHFVIPYRCLVGEFVSDA 22 126 4PQD 22 126 P05067 A 1 1 105 5 2 2 anti-parallel anti-parallel anti-parallel anti-parallel anti-parallel anti-parallel A TRP 52 A TRP 31 A SER 54 A SER 33 A MET 43 A MET 22 A MET 45 A MET 24 A GLN 33 A GLN 12 A ALA 35 A ALA 14 A TYR 115 A TYR 94 A VAL 119 A VAL 98 A ILE 82 A ILE 61 A GLU 87 A GLU 66 A VAL 92 A VAL 71 A ILE 94 A ILE 73 A HIS 110 A HIS 89 A VAL 112 A VAL 91 A TRP 97 A TRP 76 A LYS 99 A LYS 78 A LYS 103 A LYS 82 A LYS 106 A LYS 85 19 P 21 21 21