0.011788 0.000000 0.000000 0.000000 0.007768 0.000000 0.000000 0.000000 0.019708 0.00000 0.00000 0.00000 Royant, A. Nollert, P. Edman, K. Neutze, R. Landau, E.M. Pebay-Peyroula, E. Navarro, J. http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic 8 90.00 90.00 90.00 84.830 128.740 50.740 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 Cl -1 35.453 CHLORIDE ION non-polymer 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 C20 H28 O 284.436 RETINAL non-polymer 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 N 1 N N N 2 S C N 3 N C N 4 N O N 5 N C N 6 N O N 7 N H N 8 N H N 9 N H N 10 N H N 11 N H N 12 N H N 13 N H N 14 N N N 15 S C N 16 N C N 17 N O N 18 N C N 19 N C N 20 N C N 21 N N N 22 N C N 23 N N N 24 N N N 25 N O N 26 N H N 27 N H N 28 N H N 29 N H N 30 N H N 31 N H N 32 N H N 33 N H N 34 N H N 35 N H N 36 N H N 37 N H N 38 N H N 39 N H N 40 N H N 41 N N N 42 S C N 43 N C N 44 N O N 45 N C N 46 N C N 47 N O N 48 N N N 49 N O N 50 N H N 51 N H N 52 N H N 53 N H N 54 N H N 55 N H N 56 N H N 57 N H N 58 N N N 59 S C N 60 N C N 61 N O N 62 N C N 63 N C N 64 N O N 65 N O N 66 N O N 67 N H N 68 N H N 69 N H N 70 N H N 71 N H N 72 N H N 73 N H N 74 N CL N 75 N N N 76 S C N 77 N C N 78 N O N 79 N C N 80 N C N 81 N C N 82 N O N 83 N N N 84 N O N 85 N H N 86 N H N 87 N H N 88 N H N 89 N H N 90 N H N 91 N H N 92 N H N 93 N H N 94 N H N 95 N N N 96 S C N 97 N C N 98 N O N 99 N C N 100 N C N 101 N C N 102 N O N 103 N O N 104 N O N 105 N H N 106 N H N 107 N H N 108 N H N 109 N H N 110 N H N 111 N H N 112 N H N 113 N H N 114 N N N 115 N C N 116 N C N 117 N O N 118 N O N 119 N H N 120 N H N 121 N H N 122 N H N 123 N H N 124 N N N 125 S C N 126 N C N 127 N O N 128 N C Y 129 N C Y 130 N N Y 131 N C Y 132 N C Y 133 N N N 134 N O N 135 N H N 136 N H N 137 N H N 138 N H N 139 N H N 140 N H N 141 N H N 142 N H N 143 N H N 144 N H N 145 N O N 146 N H N 147 N H N 148 N N N 149 S C N 150 N C N 151 N O N 152 S C N 153 N C N 154 N C N 155 N C N 156 N O N 157 N H N 158 N H N 159 N H N 160 N H N 161 N H N 162 N H N 163 N H N 164 N H N 165 N H N 166 N H N 167 N H N 168 N H N 169 N H N 170 N N N 171 S C N 172 N C N 173 N O N 174 N C N 175 N C N 176 N C N 177 N C N 178 N O N 179 N H N 180 N H N 181 N H N 182 N H N 183 N H N 184 N H N 185 N H N 186 N H N 187 N H N 188 N H N 189 N H N 190 N H N 191 N H N 192 N N N 193 S C N 194 N C N 195 N O N 196 N C N 197 N C N 198 N C N 199 N C N 200 N N N 201 N O N 202 N H N 203 N H N 204 N H N 205 N H N 206 N H N 207 N H N 208 N H N 209 N H N 210 N H N 211 N H N 212 N H N 213 N H N 214 N H N 215 N H N 216 N H N 217 N N N 218 S C N 219 N C N 220 N O N 221 N C N 222 N C N 223 N S N 224 N C N 225 N O N 226 N H N 227 N H N 228 N H N 229 N H N 230 N H N 231 N H N 232 N H N 233 N H N 234 N H N 235 N H N 236 N H N 237 N N N 238 S C N 239 N C N 240 N O N 241 N C Y 242 N C Y 243 N C Y 244 N C Y 245 N C Y 246 N C Y 247 N C N 248 N O N 249 N H N 250 N H N 251 N H N 252 N H N 253 N H N 254 N H N 255 N H N 256 N H N 257 N H N 258 N H N 259 N H N 260 N N N 261 S C N 262 N C N 263 N O N 264 N C N 265 N C N 266 N C N 267 N O N 268 N H N 269 N H N 270 N H N 271 N H N 272 N H N 273 N H N 274 N H N 275 N H N 276 N H N 277 N C N 278 N C N 279 N C N 280 N C N 281 N C N 282 N C N 283 N C N 284 N C N 285 N C N 286 N C N 287 N C N 288 N C N 289 N C N 290 N C N 291 N C N 292 N O N 293 N C N 294 N C N 295 N C N 296 N C N 297 N C N 298 N H N 299 N H N 300 N H N 301 N H N 302 N H N 303 N H N 304 N H N 305 N H N 306 N H N 307 N H N 308 N H N 309 N H N 310 N H N 311 N H N 312 N H N 313 N H N 314 N H N 315 N H N 316 N H N 317 N H N 318 N H N 319 N H N 320 N H N 321 N H N 322 N H N 323 N H N 324 N H N 325 N H N 326 N N N 327 S C N 328 N C N 329 N O N 330 N C N 331 N O N 332 N O N 333 N H N 334 N H N 335 N H N 336 N H N 337 N H N 338 N H N 339 N H N 340 N N N 341 S C N 342 N C N 343 N O N 344 R C N 345 N O N 346 N C N 347 N O N 348 N H N 349 N H N 350 N H N 351 N H N 352 N H N 353 N H N 354 N H N 355 N H N 356 N H N 357 N N N 358 S C N 359 N C N 360 N O N 361 N C Y 362 N C Y 363 N C Y 364 N C Y 365 N N Y 366 N C Y 367 N C Y 368 N C Y 369 N C Y 370 N C N 371 N O N 372 N H N 373 N H N 374 N H N 375 N H N 376 N H N 377 N H N 378 N H N 379 N H N 380 N H N 381 N H N 382 N H N 383 N H N 384 N N N 385 S C N 386 N C N 387 N O N 388 N C Y 389 N C Y 390 N C Y 391 N C Y 392 N C Y 393 N C Y 394 N C N 395 N O N 396 N O N 397 N H N 398 N H N 399 N H N 400 N H N 401 N H N 402 N H N 403 N H N 404 N H N 405 N H N 406 N H N 407 N H N 408 N N N 409 S C N 410 N C N 411 N O N 412 N C N 413 N C N 414 N C N 415 N O N 416 N H N 417 N H N 418 N H N 419 N H N 420 N H N 421 N H N 422 N H N 423 N H N 424 N H N 425 N H N 426 N H N 1 N sing N 2 N sing N 3 N sing N 4 N sing N 5 N sing N 6 N sing N 7 N doub N 8 N sing N 9 N sing N 10 N sing N 11 N sing N 12 N sing N 13 N sing N 14 N sing N 15 N sing N 16 N sing N 17 N sing N 18 N sing N 19 N doub N 20 N sing N 21 N sing N 22 N sing N 23 N sing N 24 N sing N 25 N sing N 26 N sing N 27 N sing N 28 N sing N 29 N sing N 30 N sing N 31 N sing N 32 N sing N 33 N doub N 34 N sing N 35 N sing N 36 N sing N 37 N sing N 38 N sing N 39 N sing N 40 N sing N 41 N sing N 42 N sing N 43 N sing N 44 N sing N 45 N doub N 46 N sing N 47 N sing N 48 N sing N 49 N sing N 50 N doub N 51 N sing N 52 N sing N 53 N sing N 54 N sing N 55 N sing N 56 N sing N 57 N sing N 58 N sing N 59 N sing N 60 N sing N 61 N doub N 62 N sing N 63 N sing N 64 N sing N 65 N sing N 66 N doub N 67 N sing N 68 N sing N 69 N sing N 70 N sing N 71 N sing N 72 N sing N 73 N sing N 74 N sing N 75 N sing N 76 N doub N 77 N sing N 78 N sing N 79 N sing N 80 N sing N 81 N sing N 82 N sing N 83 N sing N 84 N doub N 85 N sing N 86 N sing N 87 N sing N 88 N sing N 89 N sing N 90 N sing N 91 N sing N 92 N sing N 93 N sing N 94 N sing N 95 N doub N 96 N sing N 97 N sing N 98 N sing N 99 N sing N 100 N sing N 101 N sing N 102 N sing N 103 N doub N 104 N sing N 105 N sing N 106 N sing N 107 N sing N 108 N sing N 109 N sing N 110 N sing N 111 N sing N 112 N sing N 113 N doub N 114 N sing N 115 N sing N 116 N sing N 117 N sing N 118 N sing N 119 N sing N 120 N sing N 121 N sing N 122 N doub N 123 N sing N 124 N sing N 125 N sing N 126 N sing Y 127 N sing Y 128 N doub Y 129 N doub N 130 N sing Y 131 N sing N 132 N sing Y 133 N sing N 134 N sing N 135 N sing N 136 N sing N 137 N sing N 138 N sing N 139 N sing N 140 N sing N 141 N sing N 142 N sing N 143 N sing N 144 N sing N 145 N doub N 146 N sing N 147 N sing N 148 N sing N 149 N sing N 150 N sing N 151 N sing N 152 N sing N 153 N sing N 154 N sing N 155 N sing N 156 N sing N 157 N sing N 158 N sing N 159 N sing N 160 N sing N 161 N sing N 162 N sing N 163 N sing N 164 N sing N 165 N sing N 166 N doub N 167 N sing N 168 N sing N 169 N sing N 170 N sing N 171 N sing N 172 N sing N 173 N sing N 174 N sing N 175 N sing N 176 N sing N 177 N sing N 178 N sing N 179 N sing N 180 N sing N 181 N sing N 182 N sing N 183 N sing N 184 N sing N 185 N sing N 186 N sing N 187 N doub N 188 N sing N 189 N sing N 190 N sing N 191 N sing N 192 N sing N 193 N sing N 194 N sing N 195 N sing N 196 N sing N 197 N sing N 198 N sing N 199 N sing N 200 N sing N 201 N sing N 202 N sing N 203 N sing N 204 N sing N 205 N sing N 206 N sing N 207 N sing N 208 N sing N 209 N sing N 210 N sing N 211 N doub N 212 N sing N 213 N sing N 214 N sing N 215 N sing N 216 N sing N 217 N sing N 218 N sing N 219 N sing N 220 N sing N 221 N sing N 222 N sing N 223 N sing N 224 N sing N 225 N sing N 226 N sing N 227 N sing N 228 N sing N 229 N sing N 230 N doub N 231 N sing N 232 N sing N 233 N sing N 234 N sing Y 235 N doub Y 236 N sing Y 237 N sing N 238 N sing Y 239 N doub N 240 N sing Y 241 N doub N 242 N sing Y 243 N sing N 244 N sing N 245 N sing N 246 N sing N 247 N sing N 248 N sing N 249 N sing N 250 N sing N 251 N sing N 252 N sing N 253 N doub N 254 N sing N 255 N sing N 256 N sing N 257 N sing N 258 N sing N 259 N sing N 260 N sing N 261 N sing N 262 N sing N 263 N sing N 264 N sing N 265 N sing N 266 N sing N 267 N sing N 268 N sing N 269 N sing N 270 N sing N 271 N sing N 272 N sing N 273 N sing N 274 N sing N 275 N sing N 276 N sing N 277 N doub N 278 N sing N 279 N sing N 280 E doub N 281 N sing N 282 N sing N 283 N sing N 284 E doub N 285 N sing N 286 N sing N 287 N sing N 288 E doub N 289 N sing N 290 N sing N 291 N sing N 292 E doub N 293 N sing N 294 N sing N 295 N sing N 296 N doub N 297 N sing N 298 N sing N 299 N sing N 300 N sing N 301 N sing N 302 N sing N 303 N sing N 304 N sing N 305 N sing N 306 N sing N 307 N sing N 308 N sing N 309 N sing N 310 N sing N 311 N sing N 312 N sing N 313 N sing N 314 N sing N 315 N sing N 316 N sing N 317 N sing N 318 N sing N 319 N doub N 320 N sing N 321 N sing N 322 N sing N 323 N sing N 324 N sing N 325 N sing N 326 N sing N 327 N sing N 328 N sing N 329 N sing N 330 N sing N 331 N sing N 332 N doub N 333 N sing N 334 N sing N 335 N sing N 336 N sing N 337 N sing N 338 N sing N 339 N sing N 340 N sing N 341 N sing N 342 N sing N 343 N sing N 344 N sing N 345 N sing N 346 N sing N 347 N sing N 348 N doub N 349 N sing N 350 N sing N 351 N sing N 352 N sing Y 353 N doub Y 354 N sing Y 355 N sing N 356 N sing Y 357 N doub Y 358 N sing Y 359 N sing N 360 N sing Y 361 N sing Y 362 N doub N 363 N sing Y 364 N doub N 365 N sing Y 366 N sing N 367 N sing N 368 N sing N 369 N sing N 370 N sing N 371 N sing N 372 N sing N 373 N sing N 374 N sing N 375 N sing N 376 N doub N 377 N sing N 378 N sing N 379 N sing N 380 N sing Y 381 N doub Y 382 N sing Y 383 N sing N 384 N sing Y 385 N doub N 386 N sing Y 387 N doub N 388 N sing Y 389 N sing N 390 N sing N 391 N sing N 392 N sing N 393 N sing N 394 N sing N 395 N sing N 396 N sing N 397 N sing N 398 N sing N 399 N sing N 400 N doub N 401 N sing N 402 N sing N 403 N sing N 404 N sing N 405 N sing N 406 N sing N 407 N sing N 408 N sing N 409 N sing N 410 N sing N 411 N sing US Proc.Natl.Acad.Sci.USA PNASA6 0040 0027-8424 98 10131 10.1073/PNAS.181203898 11504917 X-Ray Structure of Sensory Rhodopsin II at 2.1 A Resolution 2001 10.2210/pdb1h68/pdb pdb_00001h68 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.00000 0.00000 0.00000 100.0 1 2000-10-15 SINGLE WAVELENGTH M x-ray 1 0.933 1.0 ID14-2 ESRF 0.933 SYNCHROTRON ESRF BEAMLINE ID14-2 25368.814 SENSORY RHODOPSIN II 1 man polymer 284.436 RETINAL 1 syn non-polymer 35.453 CHLORIDE ION 1 syn non-polymer 18.015 water 28 nat water SRII no no MVGLTTLFWLGAIGMLVGTLAFAWAGRDAGSGERRYYVTLVGISGIAAVAYVVMALGVGWVPVAERTVFAPRYIDWILTT PLIVYFLGLLAGLDSREFGIVITLNTVVMLAGFAGAMVPGIERYALFGMGAVAFLGLVYYLVGPMTESASQRSSGIKSLY VRLRNLTVILWAIYPFIWLLGPPGVALLTPTVDVALIVYLDLVTKVGFGFIALDAAATLRAEHGESLAGVDTDAPAVAD MVGLTTLFWLGAIGMLVGTLAFAWAGRDAGSGERRYYVTLVGISGIAAVAYVVMALGVGWVPVAERTVFAPRYIDWILTT PLIVYFLGLLAGLDSREFGIVITLNTVVMLAGFAGAMVPGIERYALFGMGAVAFLGLVYYLVGPMTESASQRSSGIKSLY VRLRNLTVILWAIYPFIWLLGPPGVALLTPTVDVALIVYLDLVTKVGFGFIALDAAATLRAEHGESLAGVDTDAPAVAD 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 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 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 NATRONOBACTERIUM PHARAONIS sample 2257 NATRONOMONAS PHARAONIS 562 ESCHERICHIA COLI 2 2.73 54.95 SIDE CHAINS, LOOPS AND THE RETINAL WERE OMITTED IN THE STARTING MODEL FOR MOLECULAR REPLACEMENT 4.60 pH 4.60 chem_comp_atom chem_comp_bond database_2 pdbx_database_status pdbx_initial_refinement_model struct_conn struct_site repository Initial release Version format compliance Version format compliance Data collection Database references Derived calculations Other Refinement description 1 0 2001-08-28 1 1 2011-05-08 1 2 2011-07-13 1 3 2023-12-13 _database_2.pdbx_DOI _database_2.pdbx_database_accession _pdbx_database_status.status_code_sf _struct_conn.pdbx_leaving_atom_flag _struct_site.pdbx_auth_asym_id _struct_site.pdbx_auth_comp_id _struct_site.pdbx_auth_seq_id PDBE Y PDBE 2001-06-08 REL REL RET RETINAL CL CHLORIDE ION HOH water 1QHJ PDB experimental model RET 300 2 RET RET 300 A CL 500 3 CL CL 500 A HOH 2001 4 HOH HOH 2001 A HOH 2002 4 HOH HOH 2002 A HOH 2003 4 HOH HOH 2003 A HOH 2004 4 HOH HOH 2004 A HOH 2005 4 HOH HOH 2005 A HOH 2006 4 HOH HOH 2006 A HOH 2007 4 HOH HOH 2007 A HOH 2008 4 HOH HOH 2008 A HOH 2009 4 HOH HOH 2009 A HOH 2010 4 HOH HOH 2010 A HOH 2011 4 HOH HOH 2011 A HOH 2012 4 HOH HOH 2012 A HOH 2013 4 HOH HOH 2013 A HOH 2014 4 HOH HOH 2014 A HOH 2015 4 HOH HOH 2015 A HOH 2016 4 HOH HOH 2016 A HOH 2017 4 HOH HOH 2017 A HOH 2018 4 HOH HOH 2018 A HOH 2019 4 HOH HOH 2019 A HOH 2020 4 HOH HOH 2020 A HOH 2021 4 HOH HOH 2021 A HOH 2022 4 HOH HOH 2022 A HOH 2023 4 HOH HOH 2023 A HOH 2024 4 HOH HOH 2024 A HOH 2025 4 HOH HOH 2025 A HOH 2026 4 HOH HOH 2026 A HOH 2027 4 HOH HOH 2027 A HOH 2028 4 HOH HOH 2028 A n 1 1 A VAL 2 n 2 VAL 2 A GLY 3 n 3 GLY 3 A LEU 4 n 4 LEU 4 A THR 5 n 5 THR 5 A THR 6 n 6 THR 6 A LEU 7 n 7 LEU 7 A PHE 8 n 8 PHE 8 A TRP 9 n 9 TRP 9 A LEU 10 n 10 LEU 10 A GLY 11 n 11 GLY 11 A ALA 12 n 12 ALA 12 A ILE 13 n 13 ILE 13 A GLY 14 n 14 GLY 14 A MET 15 n 15 MET 15 A LEU 16 n 16 LEU 16 A VAL 17 n 17 VAL 17 A GLY 18 n 18 GLY 18 A THR 19 n 19 THR 19 A LEU 20 n 20 LEU 20 A ALA 21 n 21 ALA 21 A PHE 22 n 22 PHE 22 A ALA 23 n 23 ALA 23 A TRP 24 n 24 TRP 24 A ALA 25 n 25 ALA 25 A GLY 26 n 26 GLY 26 A ARG 27 n 27 ARG 27 A ASP 28 n 28 ASP 28 A ALA 29 n 29 ALA 29 A GLY 30 n 30 GLY 30 A SER 31 n 31 SER 31 A GLY 32 n 32 GLY 32 A GLU 33 n 33 GLU 33 A ARG 34 n 34 ARG 34 A ARG 35 n 35 ARG 35 A TYR 36 n 36 TYR 36 A TYR 37 n 37 TYR 37 A VAL 38 n 38 VAL 38 A THR 39 n 39 THR 39 A LEU 40 n 40 LEU 40 A VAL 41 n 41 VAL 41 A GLY 42 n 42 GLY 42 A ILE 43 n 43 ILE 43 A SER 44 n 44 SER 44 A GLY 45 n 45 GLY 45 A ILE 46 n 46 ILE 46 A ALA 47 n 47 ALA 47 A ALA 48 n 48 ALA 48 A VAL 49 n 49 VAL 49 A ALA 50 n 50 ALA 50 A TYR 51 n 51 TYR 51 A VAL 52 n 52 VAL 52 A VAL 53 n 53 VAL 53 A MET 54 n 54 MET 54 A ALA 55 n 55 ALA 55 A LEU 56 n 56 LEU 56 A GLY 57 n 57 GLY 57 A VAL 58 n 58 VAL 58 A GLY 59 n 59 GLY 59 A TRP 60 n 60 TRP 60 A VAL 61 n 61 VAL 61 A PRO 62 n 62 PRO 62 A VAL 63 n 63 VAL 63 A ALA 64 n 64 ALA 64 A GLU 65 n 65 GLU 65 A ARG 66 n 66 ARG 66 A THR 67 n 67 THR 67 A VAL 68 n 68 VAL 68 A PHE 69 n 69 PHE 69 A ALA 70 n 70 ALA 70 A PRO 71 n 71 PRO 71 A ARG 72 n 72 ARG 72 A TYR 73 n 73 TYR 73 A ILE 74 n 74 ILE 74 A ASP 75 n 75 ASP 75 A TRP 76 n 76 TRP 76 A ILE 77 n 77 ILE 77 A LEU 78 n 78 LEU 78 A THR 79 n 79 THR 79 A THR 80 n 80 THR 80 A PRO 81 n 81 PRO 81 A LEU 82 n 82 LEU 82 A ILE 83 n 83 ILE 83 A VAL 84 n 84 VAL 84 A TYR 85 n 85 TYR 85 A PHE 86 n 86 PHE 86 A LEU 87 n 87 LEU 87 A GLY 88 n 88 GLY 88 A LEU 89 n 89 LEU 89 A LEU 90 n 90 LEU 90 A ALA 91 n 91 ALA 91 A GLY 92 n 92 GLY 92 A LEU 93 n 93 LEU 93 A ASP 94 n 94 ASP 94 A SER 95 n 95 SER 95 A ARG 96 n 96 ARG 96 A GLU 97 n 97 GLU 97 A PHE 98 n 98 PHE 98 A GLY 99 n 99 GLY 99 A ILE 100 n 100 ILE 100 A VAL 101 n 101 VAL 101 A ILE 102 n 102 ILE 102 A THR 103 n 103 THR 103 A LEU 104 n 104 LEU 104 A ASN 105 n 105 ASN 105 A THR 106 n 106 THR 106 A VAL 107 n 107 VAL 107 A VAL 108 n 108 VAL 108 A MET 109 n 109 MET 109 A LEU 110 n 110 LEU 110 A ALA 111 n 111 ALA 111 A GLY 112 n 112 GLY 112 A PHE 113 n 113 PHE 113 A ALA 114 n 114 ALA 114 A GLY 115 n 115 GLY 115 A ALA 116 n 116 ALA 116 A MET 117 n 117 MET 117 A VAL 118 n 118 VAL 118 A PRO 119 n 119 PRO 119 A GLY 120 n 120 GLY 120 A ILE 121 n 121 ILE 121 A GLU 122 n 122 GLU 122 A ARG 123 n 123 ARG 123 A TYR 124 n 124 TYR 124 A ALA 125 n 125 ALA 125 A LEU 126 n 126 LEU 126 A PHE 127 n 127 PHE 127 A GLY 128 n 128 GLY 128 A MET 129 n 129 MET 129 A GLY 130 n 130 GLY 130 A ALA 131 n 131 ALA 131 A VAL 132 n 132 VAL 132 A ALA 133 n 133 ALA 133 A PHE 134 n 134 PHE 134 A LEU 135 n 135 LEU 135 A GLY 136 n 136 GLY 136 A LEU 137 n 137 LEU 137 A VAL 138 n 138 VAL 138 A TYR 139 n 139 TYR 139 A TYR 140 n 140 TYR 140 A LEU 141 n 141 LEU 141 A VAL 142 n 142 VAL 142 A GLY 143 n 143 GLY 143 A PRO 144 n 144 PRO 144 A MET 145 n 145 MET 145 A THR 146 n 146 THR 146 A GLU 147 n 147 GLU 147 A SER 148 n 148 SER 148 A ALA 149 n 149 ALA 149 A SER 150 n 150 SER 150 A GLN 151 n 151 GLN 151 A ARG 152 n 152 ARG 152 A SER 153 n 153 SER 153 A SER 154 n 154 SER 154 A GLY 155 n 155 GLY 155 A ILE 156 n 156 ILE 156 A LYS 157 n 157 LYS 157 A SER 158 n 158 SER 158 A LEU 159 n 159 LEU 159 A TYR 160 n 160 TYR 160 A VAL 161 n 161 VAL 161 A ARG 162 n 162 ARG 162 A LEU 163 n 163 LEU 163 A ARG 164 n 164 ARG 164 A ASN 165 n 165 ASN 165 A LEU 166 n 166 LEU 166 A THR 167 n 167 THR 167 A VAL 168 n 168 VAL 168 A ILE 169 n 169 ILE 169 A LEU 170 n 170 LEU 170 A TRP 171 n 171 TRP 171 A ALA 172 n 172 ALA 172 A ILE 173 n 173 ILE 173 A TYR 174 n 174 TYR 174 A PRO 175 n 175 PRO 175 A PHE 176 n 176 PHE 176 A ILE 177 n 177 ILE 177 A TRP 178 n 178 TRP 178 A LEU 179 n 179 LEU 179 A LEU 180 n 180 LEU 180 A GLY 181 n 181 GLY 181 A PRO 182 n 182 PRO 182 A PRO 183 n 183 PRO 183 A GLY 184 n 184 GLY 184 A VAL 185 n 185 VAL 185 A ALA 186 n 186 ALA 186 A LEU 187 n 187 LEU 187 A LEU 188 n 188 LEU 188 A THR 189 n 189 THR 189 A PRO 190 n 190 PRO 190 A THR 191 n 191 THR 191 A VAL 192 n 192 VAL 192 A ASP 193 n 193 ASP 193 A VAL 194 n 194 VAL 194 A ALA 195 n 195 ALA 195 A LEU 196 n 196 LEU 196 A ILE 197 n 197 ILE 197 A VAL 198 n 198 VAL 198 A TYR 199 n 199 TYR 199 A LEU 200 n 200 LEU 200 A ASP 201 n 201 ASP 201 A LEU 202 n 202 LEU 202 A VAL 203 n 203 VAL 203 A THR 204 n 204 THR 204 A LYS 205 n 205 LYS 205 A VAL 206 n 206 VAL 206 A GLY 207 n 207 GLY 207 A PHE 208 n 208 PHE 208 A GLY 209 n 209 GLY 209 A PHE 210 n 210 PHE 210 A ILE 211 n 211 ILE 211 A ALA 212 n 212 ALA 212 A LEU 213 n 213 LEU 213 A ASP 214 n 214 ASP 214 A ALA 215 n 215 ALA 215 A ALA 216 n 216 ALA 216 A ALA 217 n 217 ALA 217 A THR 218 n 218 THR 218 A LEU 219 n 219 LEU 219 A n 220 220 A n 221 221 A n 222 222 A n 223 223 A n 224 224 A n 225 225 A n 226 226 A n 227 227 A n 228 228 A n 229 229 A n 230 230 A n 231 231 A n 232 232 A n 233 233 A n 234 234 A n 235 235 A n 236 236 A n 237 237 A n 238 238 A n 239 239 A author_and_software_defined_assembly PQS 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 N VAL 63 A N VAL 63 A O ARG 66 A O ARG 66 1 A CG ASP 28 A CG ASP 28 1 Y 1 A OD1 ASP 28 A OD1 ASP 28 1 Y 1 A OD2 ASP 28 A OD2 ASP 28 1 Y 1 A OG SER 31 A OG SER 31 1 Y 1 A CG GLU 33 A CG GLU 33 1 Y 1 A CD GLU 33 A CD GLU 33 1 Y 1 A OE1 GLU 33 A OE1 GLU 33 1 Y 1 A OE2 GLU 33 A OE2 GLU 33 1 Y 1 A CG ARG 35 A CG ARG 35 1 Y 1 A CD ARG 35 A CD ARG 35 1 Y 1 A NE ARG 35 A NE ARG 35 1 Y 1 A CZ ARG 35 A CZ ARG 35 1 Y 1 A NH1 ARG 35 A NH1 ARG 35 1 Y 1 A NH2 ARG 35 A NH2 ARG 35 1 Y 1 A CG GLU 97 A CG GLU 97 1 Y 1 A CD GLU 97 A CD GLU 97 1 Y 1 A OE1 GLU 97 A OE1 GLU 97 1 Y 1 A OE2 GLU 97 A OE2 GLU 97 1 Y 1 A CG LEU 219 A CG LEU 219 1 Y 1 A CD1 LEU 219 A CD1 LEU 219 1 Y 1 A CD2 LEU 219 A CD2 LEU 219 1 Y 1 A MET 1 A MET 1 1 Y 1 A ARG 220 A ARG 220 1 Y 1 A ALA 221 A ALA 221 1 Y 1 A GLU 222 A GLU 222 1 Y 1 A HIS 223 A HIS 223 1 Y 1 A GLY 224 A GLY 224 1 Y 1 A GLU 225 A GLU 225 1 Y 1 A SER 226 A SER 226 1 Y 1 A LEU 227 A LEU 227 1 Y 1 A ALA 228 A ALA 228 1 Y 1 A GLY 229 A GLY 229 1 Y 1 A VAL 230 A VAL 230 1 Y 1 A ASP 231 A ASP 231 1 Y 1 A THR 232 A THR 232 1 Y 1 A ASP 233 A ASP 233 1 Y 1 A ALA 234 A ALA 234 1 Y 1 A PRO 235 A PRO 235 1 Y 1 A ALA 236 A ALA 236 1 Y 1 A VAL 237 A VAL 237 1 Y 1 A ALA 238 A ALA 238 1 Y 1 A ASP 239 A ASP 239 1 Y 1 21.01 2.80 113.90 134.91 A A A CB CG1 CD1 ILE ILE ILE 177 177 177 B B B N 1 A ASP 28 -79.66 -71.92 1 A ALA 29 50.67 100.32 1 A SER 31 -168.56 -3.13 1 A ALA 64 53.28 -126.13 PROTEIN_REP.PARAM PROTEIN.TOP WATER_REP.PARAM WATER.TOP RETFIN-LO.PAR RETFIN.TOP ION.PARAM ION.TOP 37.5 7.55 0.00 0.00 3.40 0.00 -10.95 0.256 0.009 0.237 0.237 2.1 39.9 891 15956 5.6 95.8 RANDOM 1 RESTRAINED THROUGHOUT 0.0 MOLECULAR REPLACEMENT 1QHJ FALT MODEL 113.25 0.48 0.28 0.25 5.00 0.23 0.19 2.1 39.9 28 1674 21 0 1625 0.006 1.0 17.5 0.74 1.27 1.50 1.93 2.00 5.60 2.00 6.86 2.50 0.295 0.028 0.273 2.23 109 2059 6 5.0 80.1 22.7 2.100 39.900 1H68 15956 0.07200 1 8.4000 6.300 96.1 0.42500 2.10 2.21 1.800 1 4.40 80.1 refinement CNS 1.0 data reduction DENZO data scaling CCP4 phasing AMoRE sensory rhodopsin II 1 N N 2 N N 3 N N 4 N N A GLY 3 A GLY 3 HELX_P A GLY 26 A GLY 26 1 1 24 A GLU 33 A GLU 33 HELX_P A LEU 56 A LEU 56 1 2 24 A ALA 70 A ALA 70 HELX_P A GLY 92 A GLY 92 1 3 23 A ASP 94 A ASP 94 HELX_P A VAL 118 A VAL 118 1 4 25 A GLU 122 A GLU 122 HELX_P A SER 150 A SER 150 1 5 29 A SER 153 A SER 153 HELX_P A GLY 181 A GLY 181 1 7 29 A THR 189 A THR 189 HELX_P A LEU 219 A LEU 219 1 8 31 covale 1.261 one A LYS 205 A NZ LYS 205 1_555 A RET 300 B C15 RET 1_555 RECEPTOR RECEPTOR, ARCHAEAL RHODOPSIN, PHOTORECEPTOR, PHOTOTAXIS BACT_NATPH UNP 1 P42196 1 239 1H68 1 239 P42196 A 1 1 239 2 anti-parallel A TRP 60 A TRP 60 A VAL 63 A VAL 63 A ARG 66 A ARG 66 A PHE 69 A PHE 69 BINDING SITE FOR RESIDUE CL A 500 A CL 500 Software 4 BINDING SITE FOR RESIDUE RET A 300 A RET 300 Software 11 A PHE 69 A PHE 69 4 1_555 A ARG 72 A ARG 72 4 1_555 A TYR 73 A TYR 73 4 1_555 A HOH 2018 D HOH 4 1_555 A TRP 76 A TRP 76 11 1_555 A THR 80 A THR 80 11 1_555 A GLY 112 A GLY 112 11 1_555 A PHE 127 A PHE 127 11 1_555 A PHE 134 A PHE 134 11 1_555 A TRP 171 A TRP 171 11 1_555 A TYR 174 A TYR 174 11 1_555 A TRP 178 A TRP 178 11 1_555 A ASP 201 A ASP 201 11 1_555 A THR 204 A THR 204 11 1_555 A LYS 205 A LYS 205 11 1_555 20 C 2 2 21