0.025537 0.000000 0.000000 0.000000 0.017344 0.000000 0.000000 0.000000 0.010716 0.00000 0.00000 0.00000 Lee, S. Antony, L. Hartmann, R. Knaus, K.J. Surewicz, K. Surewicz, W.K. Yee, V.C. http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic 8 90.00 90.00 90.00 39.159 57.656 93.315 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 Cd 2 112.411 CADMIUM ION non-polymer Cl -1 35.453 CHLORIDE ION non-polymer 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 C9 H11 N O3 181.189 y TYROSINE L-peptide linking C5 H11 N O2 117.146 y VALINE L-peptide linking UK Embo J. EMJODG 0897 0261-4189 29 251 262 10.1038/emboj.2009.333 19927125 Conformational diversity in prion protein variants influences intermolecular beta-sheet formation. 2010 10.2210/pdb3hjx/pdb pdb_00003hjx 100 1 2006-08-07 SINGLE WAVELENGTH M x-ray 1 0.9198 1.0 19-BM APS 0.9198 SYNCHROTRON APS BEAMLINE 19-BM 12644.971 Major prion protein UNP RESIDUES 90-231 D178N 1 man polymer 112.411 CADMIUM ION 1 syn non-polymer 35.453 CHLORIDE ION 1 syn non-polymer 18.015 water 55 nat water PrP, PrP27-30, PrP33-35C, ASCR no no GGYVLGSAMSRPIIHFGSDYEDRYYRENMHRYPNQVYYRPMDEYSNQNNFVHNCVNITIKQHTVTTTTKGENFTETDVKM MERVVEQMCITQYERESQAYYQRGSS GGYVLGSAMSRPIIHFGSDYEDRYYRENMHRYPNQVYYRPMDEYSNQNNFVHNCVNITIKQHTVTTTTKGENFTETDVKM MERVVEQMCITQYERESQAYYQRGSS 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 n human sample PRNP, PRIP, PRP 9606 Homo sapiens 562 Escherichia coli 1 2.08 40.94 VAPOR DIFFUSION, SITTING DROP 7.0 0.1M Tris (pH 7.0), 2.0 M NaCl and 5 mM CdCl2, VAPOR DIFFUSION, SITTING DROP, temperature 293K 293 software database_2 pdbx_struct_conn_angle pdbx_struct_special_symmetry struct_conn struct_ref_seq_dif struct_site repository Initial release Version format compliance Refinement description Database references Derived calculations 1 0 2010-01-12 1 1 2011-07-13 1 2 2017-11-01 1 3 2021-10-13 _database_2.pdbx_DOI _database_2.pdbx_database_accession _pdbx_struct_conn_angle.ptnr1_auth_comp_id _pdbx_struct_conn_angle.ptnr1_auth_seq_id _pdbx_struct_conn_angle.ptnr1_label_alt_id _pdbx_struct_conn_angle.ptnr1_label_asym_id _pdbx_struct_conn_angle.ptnr1_label_atom_id _pdbx_struct_conn_angle.ptnr1_label_comp_id _pdbx_struct_conn_angle.ptnr1_label_seq_id _pdbx_struct_conn_angle.ptnr3_auth_comp_id _pdbx_struct_conn_angle.ptnr3_auth_seq_id _pdbx_struct_conn_angle.ptnr3_label_alt_id _pdbx_struct_conn_angle.ptnr3_label_asym_id _pdbx_struct_conn_angle.ptnr3_label_atom_id _pdbx_struct_conn_angle.ptnr3_label_comp_id _pdbx_struct_conn_angle.ptnr3_label_seq_id _pdbx_struct_conn_angle.value _struct_conn.pdbx_dist_value _struct_conn.pdbx_ptnr1_label_alt_id _struct_conn.pdbx_ptnr2_label_alt_id _struct_conn.ptnr1_auth_comp_id _struct_conn.ptnr1_auth_seq_id _struct_conn.ptnr1_label_asym_id _struct_conn.ptnr1_label_atom_id _struct_conn.ptnr1_label_comp_id _struct_conn.ptnr1_label_seq_id _struct_conn.ptnr2_auth_comp_id _struct_conn.ptnr2_auth_seq_id _struct_conn.ptnr2_label_asym_id _struct_conn.ptnr2_label_atom_id _struct_conn.ptnr2_label_comp_id _struct_ref_seq_dif.details _struct_site.pdbx_auth_asym_id _struct_site.pdbx_auth_comp_id _struct_site.pdbx_auth_seq_id RCSB Y RCSB 2009-05-22 REL REL CD CADMIUM ION CL CHLORIDE ION HOH water THE COMPLETE SEQUENCE OF THE PROTEIN USED FOR CRYSTALLIZATION WAS: GQGGGTHSQWNKPSKPKTNMKHMAGAAAAGAVVGGLGGYVLGSAMSRPIIHFGSDYEDRYYRENMHRYPNQVYYRPMDEYSNQNNFVHDCVNITIKQHTVTTTTKGENFTETDVKMMERVVEQMCITQYERESQAYYQRGSS. HOWEVER ACCORDING TO THE AUTHORS THERE IS A REASONABLE CHANCE THAT THE CRYSTAL CONTAINS A PROTEOLYZED VERSION. ONLY THE RESIDUES OBSERVED IN THE EXPERIMENT WERE INCLUDED IN THE SEQRES RECORDS. CD 300 2 CD CD 300 A CL 301 3 CL CL 301 A HOH 302 4 HOH HOH 302 A HOH 303 4 HOH HOH 303 A HOH 304 4 HOH HOH 304 A HOH 305 4 HOH HOH 305 A HOH 306 4 HOH HOH 306 A HOH 307 4 HOH HOH 307 A HOH 308 4 HOH HOH 308 A HOH 309 4 HOH HOH 309 A HOH 310 4 HOH HOH 310 A HOH 311 4 HOH HOH 311 A HOH 312 4 HOH HOH 312 A HOH 313 4 HOH HOH 313 A HOH 314 4 HOH HOH 314 A HOH 315 4 HOH HOH 315 A HOH 316 4 HOH HOH 316 A HOH 317 4 HOH HOH 317 A HOH 318 4 HOH HOH 318 A HOH 319 4 HOH HOH 319 A HOH 320 4 HOH HOH 320 A HOH 321 4 HOH HOH 321 A HOH 322 4 HOH HOH 322 A HOH 323 4 HOH HOH 323 A HOH 324 4 HOH HOH 324 A HOH 325 4 HOH HOH 325 A HOH 326 4 HOH HOH 326 A HOH 327 4 HOH HOH 327 A HOH 328 4 HOH HOH 328 A HOH 329 4 HOH HOH 329 A HOH 330 4 HOH HOH 330 A HOH 331 4 HOH HOH 331 A HOH 332 4 HOH HOH 332 A HOH 333 4 HOH HOH 333 A HOH 334 4 HOH HOH 334 A HOH 335 4 HOH HOH 335 A HOH 336 4 HOH HOH 336 A HOH 337 4 HOH HOH 337 A HOH 338 4 HOH HOH 338 A HOH 339 4 HOH HOH 339 A HOH 340 4 HOH HOH 340 A HOH 341 4 HOH HOH 341 A HOH 342 4 HOH HOH 342 A HOH 343 4 HOH HOH 343 A HOH 344 4 HOH HOH 344 A HOH 345 4 HOH HOH 345 A HOH 346 4 HOH HOH 346 A HOH 347 4 HOH HOH 347 A HOH 348 4 HOH HOH 348 A HOH 349 4 HOH HOH 349 A HOH 350 4 HOH HOH 350 A HOH 351 4 HOH HOH 351 A HOH 352 4 HOH HOH 352 A HOH 353 4 HOH HOH 353 A HOH 354 4 HOH HOH 354 A HOH 355 4 HOH HOH 355 A HOH 356 4 HOH HOH 356 A GLY 126 n 1 GLY 126 A GLY 127 n 2 GLY 127 A TYR 128 n 3 TYR 128 A VAL 129 n 4 VAL 129 A LEU 130 n 5 LEU 130 A GLY 131 n 6 GLY 131 A SER 132 n 7 SER 132 A ALA 133 n 8 ALA 133 A MET 134 n 9 MET 134 A SER 135 n 10 SER 135 A ARG 136 n 11 ARG 136 A PRO 137 n 12 PRO 137 A ILE 138 n 13 ILE 138 A ILE 139 n 14 ILE 139 A HIS 140 n 15 HIS 140 A PHE 141 n 16 PHE 141 A GLY 142 n 17 GLY 142 A SER 143 n 18 SER 143 A ASP 144 n 19 ASP 144 A TYR 145 n 20 TYR 145 A GLU 146 n 21 GLU 146 A ASP 147 n 22 ASP 147 A ARG 148 n 23 ARG 148 A TYR 149 n 24 TYR 149 A TYR 150 n 25 TYR 150 A ARG 151 n 26 ARG 151 A GLU 152 n 27 GLU 152 A ASN 153 n 28 ASN 153 A MET 154 n 29 MET 154 A HIS 155 n 30 HIS 155 A ARG 156 n 31 ARG 156 A TYR 157 n 32 TYR 157 A PRO 158 n 33 PRO 158 A ASN 159 n 34 ASN 159 A GLN 160 n 35 GLN 160 A VAL 161 n 36 VAL 161 A TYR 162 n 37 TYR 162 A TYR 163 n 38 TYR 163 A ARG 164 n 39 ARG 164 A PRO 165 n 40 PRO 165 A MET 166 n 41 MET 166 A ASP 167 n 42 ASP 167 A GLU 168 n 43 GLU 168 A TYR 169 n 44 TYR 169 A SER 170 n 45 SER 170 A ASN 171 n 46 ASN 171 A GLN 172 n 47 GLN 172 A ASN 173 n 48 ASN 173 A ASN 174 n 49 ASN 174 A PHE 175 n 50 PHE 175 A VAL 176 n 51 VAL 176 A HIS 177 n 52 HIS 177 A ASN 178 n 53 ASN 178 A CYS 179 n 54 CYS 179 A VAL 180 n 55 VAL 180 A ASN 181 n 56 ASN 181 A ILE 182 n 57 ILE 182 A THR 183 n 58 THR 183 A ILE 184 n 59 ILE 184 A LYS 185 n 60 LYS 185 A GLN 186 n 61 GLN 186 A HIS 187 n 62 HIS 187 A THR 188 n 63 THR 188 A VAL 189 n 64 VAL 189 A THR 190 n 65 THR 190 A THR 191 n 66 THR 191 A THR 192 n 67 THR 192 A n 68 193 A n 69 194 A n 70 195 A GLU 196 n 71 GLU 196 A ASN 197 n 72 ASN 197 A PHE 198 n 73 PHE 198 A THR 199 n 74 THR 199 A GLU 200 n 75 GLU 200 A THR 201 n 76 THR 201 A ASP 202 n 77 ASP 202 A VAL 203 n 78 VAL 203 A LYS 204 n 79 LYS 204 A MET 205 n 80 MET 205 A MET 206 n 81 MET 206 A GLU 207 n 82 GLU 207 A ARG 208 n 83 ARG 208 A VAL 209 n 84 VAL 209 A VAL 210 n 85 VAL 210 A GLU 211 n 86 GLU 211 A GLN 212 n 87 GLN 212 A MET 213 n 88 MET 213 A CYS 214 n 89 CYS 214 A ILE 215 n 90 ILE 215 A THR 216 n 91 THR 216 A GLN 217 n 92 GLN 217 A TYR 218 n 93 TYR 218 A GLU 219 n 94 GLU 219 A ARG 220 n 95 ARG 220 A GLU 221 n 96 GLU 221 A SER 222 n 97 SER 222 A GLN 223 n 98 GLN 223 A n 99 224 A n 100 225 A n 101 226 A n 102 227 A n 103 228 A n 104 229 A n 105 230 A n 106 231 A software_defined_assembly PISA 2 dimeric software_defined_assembly PISA 2 dimeric 1080 -42 11710 1900 -16 10630 A HIS 140 A ND1 HIS 15 1_555 A CD 300 A B CD CD 1_555 A ASP 147 A OD1 ASP 22 1_555 149.2 A HIS 140 A ND1 HIS 15 1_555 A CD 300 A B CD CD 1_555 A ASP 147 A OD2 ASP 22 1_555 107.2 A ASP 147 A OD1 ASP 22 1_555 A CD 300 A B CD CD 1_555 A ASP 147 A OD2 ASP 22 1_555 55.0 A HIS 140 A ND1 HIS 15 1_555 A CD 300 A B CD CD 1_555 A HOH 350 D O HOH 1_555 100.1 A ASP 147 A OD1 ASP 22 1_555 A CD 300 A B CD CD 1_555 A HOH 350 D O HOH 1_555 99.6 A ASP 147 A OD2 ASP 22 1_555 A CD 300 A B CD CD 1_555 A HOH 350 D O HOH 1_555 77.2 A HIS 140 A ND1 HIS 15 1_555 A CD 300 B B CD CD 1_555 A ASP 147 A OD1 ASP 22 1_555 135.0 A HIS 140 A ND1 HIS 15 1_555 A CD 300 B B CD CD 1_555 A ASP 147 A OD2 ASP 22 1_555 93.4 A ASP 147 A OD1 ASP 22 1_555 A CD 300 B B CD CD 1_555 A ASP 147 A OD2 ASP 22 1_555 49.7 A HIS 140 A ND1 HIS 15 1_555 A CD 300 B B CD CD 1_555 A HOH 354 B D O HOH 1_555 104.2 A ASP 147 A OD1 ASP 22 1_555 A CD 300 B B CD CD 1_555 A HOH 354 B D O HOH 1_555 118.3 A ASP 147 A OD2 ASP 22 1_555 A CD 300 B B CD CD 1_555 A HOH 354 B D O HOH 1_555 159.0 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 -1.0000000000 0.0000000000 0.0000000000 0.0000000000 -1.0000000000 0.0000000000 0.0000000000 0.0000000000 1.0000000000 6_775 -x+2,-y+5/2,z crystal symmetry operation 78.3180000000 144.1400000000 0.0000000000 1.0000000000 0.0000000000 0.0000000000 0.0000000000 -1.0000000000 0.0000000000 0.0000000000 0.0000000000 -1.0000000000 8_576 x,-y+2,-z+3/2 crystal symmetry operation 0.0000000000 115.3120000000 139.9725000000 A N VAL 129 A N VAL 4 A O TYR 163 A O TYR 38 1 A CL 301 C CL 1 A THR 193 A THR 68 1 Y 1 A LYS 194 A LYS 69 1 Y 1 A GLY 195 A GLY 70 1 Y 1 A ALA 224 A ALA 99 1 Y 1 A TYR 225 A TYR 100 1 Y 1 A TYR 226 A TYR 101 1 Y 1 A GLN 227 A GLN 102 1 Y 1 A ARG 228 A ARG 103 1 Y 1 A GLY 229 A GLY 104 1 Y 1 A SER 230 A SER 105 1 Y 1 A SER 231 A SER 106 1 Y 1 A A O N MET GLU 166 168 1.95 1 A A GLU TYR 168 169 -113.20 1 -12.91 1.90 113.40 100.49 A A A CA CB CG TYR TYR TYR 169 169 169 N 1 A A ND1 CD HIS CD 177 300 1.86 A 1_555 8_576 1 A ASP 167 -55.23 48.70 1 A TYR 169 -2.17 73.92 1 A ASN 197 52.09 -136.78 1 A SER 222 -43.49 109.91 33.288 -0.01 0.00 0.00 0.01 0.00 0.00 0.940 0.911 HYDROGENS HAVE BEEN ADDED IN THE RIDING POSITIONS 0.26630 0.20524 0.20800 2.00 27.38 341 7061 4.6 100.00 1.00 0.50 4.583 0.128 RANDOM 1 THROUGHOUT MOLECULAR REPLACEMENT 0.203 0.189 0.80 0.80 1.40 MAXIMUM LIKELIHOOD MASK 2.00 27.38 56 858 3 0 799 0.012 0.021 818 1.464 1.919 1105 9.008 5.000 93 37.771 24.000 50 15.159 15.000 140 20.648 15.000 7 0.108 0.200 113 0.008 0.021 648 1.142 1.500 473 2.112 2.000 773 2.484 3.000 345 3.985 4.500 332 0.338 0.247 2.053 28 504 20 100.00 2.000 50.000 3HJX 7405 0.067 1 23.186 5.000 99.500 0.471 2.00 2.07 4.70 99.90 0.347 2.07 2.15 5.10 100.00 0.269 2.15 2.25 5.10 100.00 0.210 2.25 2.37 5.10 100.00 0.172 2.37 2.52 5.10 100.00 0.128 2.52 2.71 5.10 99.90 0.093 2.71 2.99 5.10 99.90 0.051 2.99 3.42 5.00 99.50 0.033 3.42 4.31 5.00 99.30 0.029 4.31 50.00 4.90 97.30 data reduction Zbyszek Otwinowski hkl@hkl-xray.com http://www.hkl-xray.com/ DENZO package data scaling Zbyszek Otwinowski hkl@hkl-xray.com http://www.hkl-xray.com/ SCALEPACK package refinement Garib N. Murshudov garib@ysbl.york.ac.uk Fortran_77 http://www.ccp4.ac.uk/dist/html/refmac5.html REFMAC program 5.5.0066 data extraction PDB help@deposit.rcsb.org June 11, 2008 C++ http://sw-tools.pdb.org/apps/PDB_EXTRACT/ PDB_EXTRACT package 3.005 data collection HKL-2000 data reduction HKL-2000 data scaling HKL-2000 phasing EPMR Human prion protein variant D178N with V129 1 N N 2 N N 3 N N 4 N N A SER 143 A SER 18 HELX_P A MET 154 A MET 29 1 1 12 A HIS 155 A HIS 30 HELX_P A TYR 157 A TYR 32 5 2 3 A ASN 171 A ASN 46 HELX_P A THR 191 A THR 66 1 3 21 A THR 199 A THR 74 HELX_P A SER 222 A SER 97 1 4 24 disulf 2.039 A CYS 179 A SG CYS 54 1_555 A CYS 214 A SG CYS 89 1_555 metalc 2.388 A A HIS 140 A ND1 HIS 15 1_555 A CD 300 B CD CD 1_555 metalc 2.516 B A HIS 140 A ND1 HIS 15 1_555 A CD 300 B CD CD 1_555 metalc 2.376 A A ASP 147 A OD1 ASP 22 1_555 A CD 300 B CD CD 1_555 metalc 2.455 B A ASP 147 A OD1 ASP 22 1_555 A CD 300 B CD CD 1_555 metalc 2.300 A A ASP 147 A OD2 ASP 22 1_555 A CD 300 B CD CD 1_555 metalc 2.666 B A ASP 147 A OD2 ASP 22 1_555 A CD 300 B CD CD 1_555 metalc 2.446 A A CD 300 B CD CD 1_555 A HOH 350 D O HOH 1_555 metalc 2.407 B B A CD 300 B CD CD 1_555 A HOH 354 D O HOH 1_555 MEMBRANE PROTEIN Prion protein, Cell membrane, Disease mutation, Disulfide bond, Glycoprotein, Golgi apparatus, GPI-anchor, Lipoprotein, Membrane, Polymorphism, Prion, MEMBRANE PROTEIN PRIO_HUMAN UNP 1 126 P04156 GGYMLGSAMSRPIIHFGSDYEDRYYRENMHRYPNQVYYRPMDEYSNQNNFVHDCVNITIKQHTVTTTTKGENFTETDVKM MERVVEQMCITQYERESQAYYQRGSS 126 231 3HJX 126 231 P04156 A 1 1 106 1 MET variant VAL 129 3HJX A P04156 UNP 129 4 1 ASP engineered mutation ASN 178 3HJX A P04156 UNP 178 53 2 anti-parallel A VAL 129 A VAL 4 A LEU 130 A LEU 5 A TYR 162 A TYR 37 A TYR 163 A TYR 38 BINDING SITE FOR RESIDUE CD A 300 A CD 300 Software 6 BINDING SITE FOR RESIDUE CL A 301 A CL 301 Software 1 A HIS 140 A HIS 15 6 1_555 A ASP 147 A ASP 22 6 1_555 A HIS 177 A HIS 52 6 8_576 A HOH 302 D HOH 6 1_555 A HOH 350 D HOH 6 1_555 A HOH 354 D HOH 6 1_555 A ASN 173 A ASN 48 1 6_775 24 I 21 21 21