0.016502 0.009527 0.000000 0.000000 0.019054 0.000000 0.000000 0.000000 0.009033 0.00000 0.00000 0.00000 Hasegawa, N. Jonotsuka, H. Miki, K. Takeda, K. http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic 6 90.00 90.00 120.00 60.600 60.600 110.710 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 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 H2 O 18.015 WATER non-polymer C6 H13 N O2 131.173 y ISOLEUCINE L-peptide linking C43 H88 O3 653.157 2,3-DI-PHYTANYL-GLYCEROL 1,2-DI-1-(3,7,11,15-TETRAMETHYL-HEXADECANE)-SN-GLYCEROL non-polymer 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 N N 75 S C N 76 N C N 77 N O N 78 N C N 79 N C N 80 N C N 81 N O N 82 N N N 83 N O N 84 N H 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 N N 95 S C N 96 N C N 97 N O N 98 N C N 99 N C N 100 N C N 101 N O N 102 N O N 103 N O N 104 N H 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 N N 114 N C N 115 N C N 116 N O N 117 N O N 118 N H N 119 N H N 120 N H N 121 N H N 122 N H N 123 N O N 124 N H N 125 N H N 126 N N N 127 S C N 128 N C N 129 N O N 130 S C N 131 N C N 132 N C N 133 N C 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 H N 146 N H N 147 N H N 148 N C N 149 N O N 150 R C N 151 N O N 152 N C N 153 N O N 154 N C N 155 N C N 156 R C N 157 N C N 158 N C N 159 N C N 160 N C N 161 R C N 162 N C N 163 N C N 164 N C N 165 N C N 166 R C N 167 N C N 168 N C N 169 N C N 170 N C N 171 N C N 172 N C N 173 N C N 174 N C N 175 N C N 176 R C N 177 N C N 178 N C N 179 N C N 180 N C N 181 R C N 182 N C N 183 N C N 184 N C N 185 N C N 186 R C N 187 N C N 188 N C N 189 N C N 190 N C N 191 N C N 192 N C N 193 N C N 194 N H N 195 N H N 196 N H N 197 N H N 198 N H N 199 N H N 200 N H N 201 N H 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 H N 218 N H N 219 N H N 220 N H N 221 N H N 222 N H N 223 N H N 224 N H N 225 N H 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 H N 238 N H N 239 N H N 240 N H N 241 N H N 242 N H N 243 N H N 244 N H N 245 N H N 246 N H N 247 N H N 248 N H 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 H N 261 N H N 262 N H N 263 N H N 264 N H N 265 N H N 266 N H N 267 N H 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 H N 278 N H N 279 N H N 280 N H N 281 N H N 282 N N N 283 S C N 284 N C N 285 N O N 286 N C N 287 N C N 288 N C N 289 N C N 290 N O N 291 N H N 292 N H N 293 N H N 294 N H N 295 N H N 296 N H N 297 N H 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 N N 305 S C N 306 N C N 307 N O N 308 N C N 309 N C N 310 N C N 311 N C N 312 N N N 313 N O 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 H N 327 N H N 328 N H N 329 N N N 330 S C N 331 N C N 332 N O N 333 N C N 334 N C N 335 N S N 336 N C N 337 N O N 338 N H N 339 N H N 340 N H N 341 N H N 342 N H N 343 N H N 344 N H N 345 N H N 346 N H N 347 N H N 348 N H N 349 N N N 350 S C N 351 N C N 352 N O N 353 N C Y 354 N C Y 355 N C Y 356 N C Y 357 N C Y 358 N C Y 359 N C N 360 N O N 361 N H N 362 N H N 363 N H N 364 N H N 365 N H N 366 N H N 367 N H N 368 N H N 369 N H N 370 N H N 371 N H N 372 N N N 373 S C N 374 N C N 375 N O N 376 N C N 377 N C N 378 N C N 379 N O N 380 N H N 381 N H N 382 N H N 383 N H N 384 N H N 385 N H N 386 N H N 387 N H N 388 N H N 389 N C N 390 N C N 391 N C N 392 N C N 393 N C N 394 N C N 395 N C N 396 N C N 397 N C N 398 N C N 399 N C N 400 N C N 401 N C N 402 N C N 403 N C N 404 N O N 405 N C N 406 N C N 407 N C N 408 N C N 409 N C N 410 N H N 411 N H N 412 N H N 413 N H N 414 N H N 415 N H 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 427 N H N 428 N H N 429 N H N 430 N H N 431 N H N 432 N H N 433 N H N 434 N H N 435 N H N 436 N H N 437 N H N 438 N N N 439 S C N 440 N C N 441 N O N 442 N C N 443 N O N 444 N O N 445 N H N 446 N H N 447 N H N 448 N H N 449 N H N 450 N H N 451 N H N 452 N N N 453 S C N 454 N C N 455 N O N 456 R C N 457 N O N 458 N C N 459 N O N 460 N H N 461 N H N 462 N H N 463 N H N 464 N H N 465 N H N 466 N H N 467 N H N 468 N H N 469 N N N 470 S C N 471 N C N 472 N O N 473 N C Y 474 N C Y 475 N C Y 476 N C Y 477 N N Y 478 N C Y 479 N C Y 480 N C Y 481 N C Y 482 N C N 483 N O N 484 N H N 485 N H N 486 N H N 487 N H N 488 N H N 489 N H N 490 N H N 491 N H N 492 N H N 493 N H N 494 N H N 495 N H N 496 N N N 497 S C N 498 N C N 499 N O N 500 N C Y 501 N C Y 502 N C Y 503 N C Y 504 N C Y 505 N C Y 506 N C N 507 N O N 508 N O N 509 N H N 510 N H N 511 N H N 512 N H N 513 N H N 514 N H N 515 N H N 516 N H N 517 N H N 518 N H N 519 N H N 520 N N N 521 S C N 522 N C N 523 N O N 524 N C N 525 N C N 526 N C N 527 N O N 528 N H N 529 N H N 530 N H N 531 N H N 532 N H N 533 N H N 534 N H N 535 N H N 536 N H N 537 N H N 538 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 sing N 123 N sing N 124 N doub N 125 N sing N 126 N sing N 127 N sing N 128 N sing N 129 N sing N 130 N sing N 131 N sing N 132 N sing N 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 sing 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 sing 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 sing 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 sing 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 sing N 231 N sing N 232 N sing N 233 N sing N 234 N sing N 235 N sing N 236 N sing N 237 N sing N 238 N sing N 239 N sing N 240 N sing N 241 N sing N 242 N sing N 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 sing 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 sing N 278 N doub N 279 N sing N 280 N sing N 281 N sing N 282 N sing N 283 N sing N 284 N sing N 285 N sing N 286 N sing N 287 N sing N 288 N sing N 289 N sing N 290 N sing N 291 N sing N 292 N sing N 293 N sing N 294 N sing N 295 N sing N 296 N sing N 297 N sing N 298 N sing N 299 N doub 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 sing N 320 N sing N 321 N sing N 322 N sing N 323 N doub 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 sing 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 doub N 343 N sing N 344 N sing N 345 N sing N 346 N sing Y 347 N doub Y 348 N sing Y 349 N sing N 350 N sing Y 351 N doub N 352 N sing Y 353 N doub N 354 N sing Y 355 N sing N 356 N sing N 357 N sing N 358 N sing N 359 N sing N 360 N sing N 361 N sing N 362 N sing N 363 N sing N 364 N sing N 365 N doub N 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 sing N 377 N sing N 378 N sing N 379 N sing N 380 N sing N 381 N sing N 382 N sing N 383 N sing N 384 N sing N 385 N sing N 386 N sing N 387 N sing N 388 N sing N 389 N doub N 390 N sing N 391 N sing N 392 E doub N 393 N sing N 394 N sing N 395 N sing N 396 E doub N 397 N sing N 398 N sing N 399 N sing N 400 E doub N 401 N sing N 402 N sing N 403 N sing N 404 E doub N 405 N sing N 406 N sing N 407 N sing N 408 N doub N 409 N sing N 410 N sing N 411 N sing N 412 N sing N 413 N sing N 414 N sing N 415 N sing N 416 N sing N 417 N sing N 418 N sing N 419 N sing N 420 N sing N 421 N sing N 422 N sing N 423 N sing N 424 N sing N 425 N sing N 426 N sing N 427 N sing N 428 N sing N 429 N sing N 430 N sing N 431 N doub N 432 N sing N 433 N sing N 434 N sing N 435 N sing N 436 N sing N 437 N sing N 438 N sing N 439 N sing N 440 N sing N 441 N sing N 442 N sing N 443 N sing N 444 N doub N 445 N sing N 446 N sing N 447 N sing N 448 N sing N 449 N sing N 450 N sing N 451 N sing N 452 N sing N 453 N sing N 454 N sing N 455 N sing N 456 N sing N 457 N sing N 458 N sing N 459 N sing N 460 N doub N 461 N sing N 462 N sing N 463 N sing N 464 N sing Y 465 N doub Y 466 N sing Y 467 N sing N 468 N sing Y 469 N doub Y 470 N sing Y 471 N sing N 472 N sing Y 473 N sing Y 474 N doub N 475 N sing Y 476 N doub N 477 N sing Y 478 N sing N 479 N sing N 480 N sing N 481 N sing N 482 N sing N 483 N sing N 484 N sing N 485 N sing N 486 N sing N 487 N sing N 488 N doub N 489 N sing N 490 N sing N 491 N sing N 492 N sing Y 493 N doub Y 494 N sing Y 495 N sing N 496 N sing Y 497 N doub N 498 N sing Y 499 N doub N 500 N sing Y 501 N sing N 502 N sing N 503 N sing N 504 N sing N 505 N sing N 506 N sing N 507 N sing N 508 N sing N 509 N sing N 510 N sing N 511 N sing N 512 N doub N 513 N sing N 514 N sing N 515 N sing N 516 N sing N 517 N sing N 518 N sing N 519 N sing N 520 N sing N 521 N sing N 522 N sing N 523 N sing UK Sci Rep 2045-2322 8 13123 13123 10.1038/s41598-018-31370-0 30177765 X-ray structure analysis of bacteriorhodopsin at 1.3 angstrom resolution. 2018 0000-0002-4094-6816 10.2210/pdb5zim/pdb pdb_00005zim 15 1 PIXEL 2017-10-22 DECTRIS PILATUS 6M SINGLE WAVELENGTH M x-ray 1 0.8 1.0 BL41XU SPring-8 0.8 SYNCHROTRON SPRING-8 BEAMLINE BL41XU 24990.535 Bacteriorhodopsin 1 nat polymer 284.436 RETINAL 1 syn non-polymer 653.157 2,3-DI-PHYTANYL-GLYCEROL 4 syn non-polymer 18.015 water 29 nat water BR,Bacterioopsin,BO no no TGRPEWIWLALGTALMGLGTLYFLVKGMGVSDPDAKKFYAITTLVPAIAFTMYLSMLLGYGLTMVPFGGEQNPIYWARYA DWLFTTPLLLLDLALLVDADQGTILALVGADGIMIGTGLVGALTKVYSYRFVWWAISTAAMLYILYVLFFGFTSKAESMR PEVASTFKVLRNVTVVLWSAYPVVWLIGSEGAGIVPLNIETLLFMVLDVSAKVGFGLILLRSRAIFGE TGRPEWIWLALGTALMGLGTLYFLVKGMGVSDPDAKKFYAITTLVPAIAFTMYLSMLLGYGLTMVPFGGEQNPIYWARYA DWLFTTPLLLLDLALLVDADQGTILALVGADGIMIGTGLVGALTKVYSYRFVWWAISTAAMLYILYVLFFGFTSKAESMR PEVASTFKVLRNVTVVLWSAYPVVWLIGSEGAGIVPLNIETLLFMVLDVSAKVGFGLILLRSRAIFGE 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 Halobacterium halobium sample 1 228 64091 Halobacterium salinarum ATCC 700922 / JCM 11081 / NRC-1 1 2.35 47.74 LIPIDIC CUBIC PHASE MO, 2.0-2.5 M phosphate 293 atom_site atom_site_anisotrop cell entity pdbx_entity_instance_feature pdbx_nonpoly_scheme pdbx_unobs_or_zero_occ_atoms struct_conn struct_site struct_site_gen chem_comp_atom chem_comp_bond database_2 pdbx_initial_refinement_model repository Initial release Advisory Atomic model Author supporting evidence Data collection Derived calculations Other Structure summary Data collection Database references Refinement description 1 0 2018-10-10 2 0 2021-05-05 2 1 2023-11-22 _atom_site.B_iso_or_equiv _atom_site.Cartn_x _atom_site.Cartn_y _atom_site.Cartn_z _atom_site.auth_seq_id _atom_site.label_alt_id _atom_site.occupancy _atom_site_anisotrop.U[1][1] _atom_site_anisotrop.U[1][2] _atom_site_anisotrop.U[1][3] _atom_site_anisotrop.U[2][2] _atom_site_anisotrop.U[2][3] _atom_site_anisotrop.U[3][3] _atom_site_anisotrop.pdbx_auth_seq_id _atom_site_anisotrop.pdbx_label_alt_id _cell.angle_alpha_esd _cell.angle_beta_esd _cell.angle_gamma_esd _cell.length_a_esd _cell.length_b_esd _cell.length_c_esd _entity.formula_weight _pdbx_nonpoly_scheme.auth_seq_num _pdbx_nonpoly_scheme.pdb_seq_num _pdbx_unobs_or_zero_occ_atoms.auth_seq_id _struct_conn.ptnr2_auth_seq_id _database_2.pdbx_DOI _database_2.pdbx_database_accession Japan JSPS 25440020, 17H03643 N PDBJ Y PDBJ 2018-03-16 REL REL RET RETINAL L2P 2,3-DI-PHYTANYL-GLYCEROL HOH water 1C3W PDB experimental model RET 250 2 RET RET 250 A L2P 270 3 L2P L2P 270 A L2P 290 3 L2P L2P 290 A L2P 300 3 L2P L2P 300 A L2P 310 3 L2P L2P 310 A HOH 402 4 HOH HOH 402 A HOH 401 4 HOH HOH 401 A HOH 406 4 HOH HOH 406 A HOH 513 4 HOH HOH 513 A HOH 512 4 HOH HOH 512 A HOH 502 4 HOH HOH 502 A HOH 514 4 HOH HOH 514 A HOH 403 4 HOH HOH 403 A HOH 404 4 HOH HOH 404 A HOH 415 4 HOH HOH 415 A HOH 420 4 HOH HOH 420 A HOH 411 4 HOH HOH 411 A HOH 412 4 HOH HOH 412 A HOH 501 4 HOH HOH 501 A HOH 407 4 HOH HOH 407 A HOH 511 4 HOH HOH 511 A HOH 405 4 HOH HOH 405 A HOH 419 4 HOH HOH 419 A HOH 416 4 HOH HOH 416 A HOH 450 4 HOH HOH 450 A HOH 451 4 HOH HOH 451 A HOH 452 4 HOH HOH 452 A HOH 453 4 HOH HOH 453 A HOH 454 4 HOH HOH 454 A HOH 455 4 HOH HOH 455 A HOH 456 4 HOH HOH 456 A HOH 457 4 HOH HOH 457 A HOH 458 4 HOH HOH 458 A HOH 459 4 HOH HOH 459 A THR 5 n 1 THR 5 A GLY 6 n 2 GLY 6 A ARG 7 n 3 ARG 7 A PRO 8 n 4 PRO 8 A GLU 9 n 5 GLU 9 A TRP 10 n 6 TRP 10 A ILE 11 n 7 ILE 11 A TRP 12 n 8 TRP 12 A LEU 13 n 9 LEU 13 A ALA 14 n 10 ALA 14 A LEU 15 n 11 LEU 15 A GLY 16 n 12 GLY 16 A THR 17 n 13 THR 17 A ALA 18 n 14 ALA 18 A LEU 19 n 15 LEU 19 A MET 20 n 16 MET 20 A GLY 21 n 17 GLY 21 A LEU 22 n 18 LEU 22 A GLY 23 n 19 GLY 23 A THR 24 n 20 THR 24 A LEU 25 n 21 LEU 25 A TYR 26 n 22 TYR 26 A PHE 27 n 23 PHE 27 A LEU 28 n 24 LEU 28 A VAL 29 n 25 VAL 29 A LYS 30 n 26 LYS 30 A GLY 31 n 27 GLY 31 A MET 32 n 28 MET 32 A GLY 33 n 29 GLY 33 A VAL 34 n 30 VAL 34 A SER 35 n 31 SER 35 A ASP 36 n 32 ASP 36 A PRO 37 n 33 PRO 37 A ASP 38 n 34 ASP 38 A ALA 39 n 35 ALA 39 A LYS 40 n 36 LYS 40 A LYS 41 n 37 LYS 41 A PHE 42 n 38 PHE 42 A TYR 43 n 39 TYR 43 A ALA 44 n 40 ALA 44 A ILE 45 n 41 ILE 45 A THR 46 n 42 THR 46 A THR 47 n 43 THR 47 A LEU 48 n 44 LEU 48 A VAL 49 n 45 VAL 49 A PRO 50 n 46 PRO 50 A ALA 51 n 47 ALA 51 A ILE 52 n 48 ILE 52 A ALA 53 n 49 ALA 53 A PHE 54 n 50 PHE 54 A THR 55 n 51 THR 55 A MET 56 n 52 MET 56 A TYR 57 n 53 TYR 57 A LEU 58 n 54 LEU 58 A SER 59 n 55 SER 59 A MET 60 n 56 MET 60 A LEU 61 n 57 LEU 61 A LEU 62 n 58 LEU 62 A GLY 63 n 59 GLY 63 A TYR 64 n 60 TYR 64 A GLY 65 n 61 GLY 65 A LEU 66 n 62 LEU 66 A THR 67 n 63 THR 67 A MET 68 n 64 MET 68 A VAL 69 n 65 VAL 69 A PRO 70 n 66 PRO 70 A PHE 71 n 67 PHE 71 A GLY 72 n 68 GLY 72 A GLY 73 n 69 GLY 73 A GLU 74 n 70 GLU 74 A GLN 75 n 71 GLN 75 A ASN 76 n 72 ASN 76 A PRO 77 n 73 PRO 77 A ILE 78 n 74 ILE 78 A TYR 79 n 75 TYR 79 A TRP 80 n 76 TRP 80 A ALA 81 n 77 ALA 81 A ARG 82 n 78 ARG 82 A TYR 83 n 79 TYR 83 A ALA 84 n 80 ALA 84 A ASP 85 n 81 ASP 85 A TRP 86 n 82 TRP 86 A LEU 87 n 83 LEU 87 A PHE 88 n 84 PHE 88 A THR 89 n 85 THR 89 A THR 90 n 86 THR 90 A PRO 91 n 87 PRO 91 A LEU 92 n 88 LEU 92 A LEU 93 n 89 LEU 93 A LEU 94 n 90 LEU 94 A LEU 95 n 91 LEU 95 A ASP 96 n 92 ASP 96 A LEU 97 n 93 LEU 97 A ALA 98 n 94 ALA 98 A LEU 99 n 95 LEU 99 A LEU 100 n 96 LEU 100 A VAL 101 n 97 VAL 101 A ASP 102 n 98 ASP 102 A ALA 103 n 99 ALA 103 A ASP 104 n 100 ASP 104 A GLN 105 n 101 GLN 105 A GLY 106 n 102 GLY 106 A THR 107 n 103 THR 107 A ILE 108 n 104 ILE 108 A LEU 109 n 105 LEU 109 A ALA 110 n 106 ALA 110 A LEU 111 n 107 LEU 111 A VAL 112 n 108 VAL 112 A GLY 113 n 109 GLY 113 A ALA 114 n 110 ALA 114 A ASP 115 n 111 ASP 115 A GLY 116 n 112 GLY 116 A ILE 117 n 113 ILE 117 A MET 118 n 114 MET 118 A ILE 119 n 115 ILE 119 A GLY 120 n 116 GLY 120 A THR 121 n 117 THR 121 A GLY 122 n 118 GLY 122 A LEU 123 n 119 LEU 123 A VAL 124 n 120 VAL 124 A GLY 125 n 121 GLY 125 A ALA 126 n 122 ALA 126 A LEU 127 n 123 LEU 127 A THR 128 n 124 THR 128 A LYS 129 n 125 LYS 129 A VAL 130 n 126 VAL 130 A TYR 131 n 127 TYR 131 A SER 132 n 128 SER 132 A TYR 133 n 129 TYR 133 A ARG 134 n 130 ARG 134 A PHE 135 n 131 PHE 135 A VAL 136 n 132 VAL 136 A TRP 137 n 133 TRP 137 A TRP 138 n 134 TRP 138 A ALA 139 n 135 ALA 139 A ILE 140 n 136 ILE 140 A SER 141 n 137 SER 141 A THR 142 n 138 THR 142 A ALA 143 n 139 ALA 143 A ALA 144 n 140 ALA 144 A MET 145 n 141 MET 145 A LEU 146 n 142 LEU 146 A TYR 147 n 143 TYR 147 A ILE 148 n 144 ILE 148 A LEU 149 n 145 LEU 149 A TYR 150 n 146 TYR 150 A VAL 151 n 147 VAL 151 A LEU 152 n 148 LEU 152 A PHE 153 n 149 PHE 153 A PHE 154 n 150 PHE 154 A GLY 155 n 151 GLY 155 A PHE 156 n 152 PHE 156 A THR 157 n 153 THR 157 A SER 158 n 154 SER 158 A LYS 159 n 155 LYS 159 A ALA 160 n 156 ALA 160 A GLU 161 n 157 GLU 161 A SER 162 n 158 SER 162 A MET 163 n 159 MET 163 A ARG 164 n 160 ARG 164 A PRO 165 n 161 PRO 165 A GLU 166 n 162 GLU 166 A VAL 167 n 163 VAL 167 A ALA 168 n 164 ALA 168 A SER 169 n 165 SER 169 A THR 170 n 166 THR 170 A PHE 171 n 167 PHE 171 A LYS 172 n 168 LYS 172 A VAL 173 n 169 VAL 173 A LEU 174 n 170 LEU 174 A ARG 175 n 171 ARG 175 A ASN 176 n 172 ASN 176 A VAL 177 n 173 VAL 177 A THR 178 n 174 THR 178 A VAL 179 n 175 VAL 179 A VAL 180 n 176 VAL 180 A LEU 181 n 177 LEU 181 A TRP 182 n 178 TRP 182 A SER 183 n 179 SER 183 A ALA 184 n 180 ALA 184 A TYR 185 n 181 TYR 185 A PRO 186 n 182 PRO 186 A VAL 187 n 183 VAL 187 A VAL 188 n 184 VAL 188 A TRP 189 n 185 TRP 189 A LEU 190 n 186 LEU 190 A ILE 191 n 187 ILE 191 A GLY 192 n 188 GLY 192 A SER 193 n 189 SER 193 A GLU 194 n 190 GLU 194 A GLY 195 n 191 GLY 195 A ALA 196 n 192 ALA 196 A GLY 197 n 193 GLY 197 A ILE 198 n 194 ILE 198 A VAL 199 n 195 VAL 199 A PRO 200 n 196 PRO 200 A LEU 201 n 197 LEU 201 A ASN 202 n 198 ASN 202 A ILE 203 n 199 ILE 203 A GLU 204 n 200 GLU 204 A THR 205 n 201 THR 205 A LEU 206 n 202 LEU 206 A LEU 207 n 203 LEU 207 A PHE 208 n 204 PHE 208 A MET 209 n 205 MET 209 A VAL 210 n 206 VAL 210 A LEU 211 n 207 LEU 211 A ASP 212 n 208 ASP 212 A VAL 213 n 209 VAL 213 A SER 214 n 210 SER 214 A ALA 215 n 211 ALA 215 A LYS 216 n 212 LYS 216 A VAL 217 n 213 VAL 217 A GLY 218 n 214 GLY 218 A PHE 219 n 215 PHE 219 A GLY 220 n 216 GLY 220 A LEU 221 n 217 LEU 221 A ILE 222 n 218 ILE 222 A LEU 223 n 219 LEU 223 A LEU 224 n 220 LEU 224 A ARG 225 n 221 ARG 225 A SER 226 n 222 SER 226 A ARG 227 n 223 ARG 227 A ALA 228 n 224 ALA 228 A ILE 229 n 225 ILE 229 A PHE 230 n 226 PHE 230 A GLY 231 n 227 GLY 231 A ALA 232 n 228 GLU 232 A 0.1253 0.1481 3172 5.0 1 0.436 author_and_software_defined_assembly PISA 3 trimeric none 20370 -187 25050 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 -0.5000000000 -0.8660254038 0.0000000000 0.8660254038 -0.5000000000 0.0000000000 0.0000000000 0.0000000000 1.0000000000 2_635 -y+1,x-y-2,z crystal symmetry operation 121.2000000000 -104.9622789387 0.0000000000 -0.5000000000 0.8660254038 0.0000000000 -0.8660254038 -0.5000000000 0.0000000000 0.0000000000 0.0000000000 1.0000000000 3_865 -x+y+3,-x+1,z crystal symmetry operation 151.5000000000 52.4811394693 0.0000000000 A N THR 67 A N THR 63 A O ILE 78 A O ILE 74 1 A CG GLU 232 A CG GLU 228 1 Y 1 A CD GLU 232 A CD GLU 228 1 Y 1 A OE1 GLU 232 A OE1 GLU 228 1 Y 1 A OE2 GLU 232 A OE2 GLU 228 1 Y 1 A C13 L2P 290 D C13 L2P 1 1 N 1 A C14 L2P 290 D C14 L2P 1 1 N 1 A C15 L2P 290 D C15 L2P 1 1 N 1 A C16 L2P 290 D C16 L2P 1 1 N 1 A C17 L2P 290 D C17 L2P 1 1 N 1 A C18 L2P 290 D C18 L2P 1 1 N 1 A C19 L2P 290 D C19 L2P 1 1 N 1 A C20 L2P 290 D C20 L2P 1 1 N 1 A C21 L2P 290 D C21 L2P 1 1 N 1 A C22 L2P 290 D C22 L2P 1 1 N 1 A C23 L2P 290 D C23 L2P 1 1 N 1 A C24 L2P 290 D C24 L2P 1 1 N 1 A C25 L2P 290 D C25 L2P 1 1 N 1 A C26 L2P 290 D C26 L2P 1 1 N 1 A C27 L2P 290 D C27 L2P 1 1 N 1 A C28 L2P 290 D C28 L2P 1 1 N 1 A C29 L2P 290 D C29 L2P 1 1 N 1 A C30 L2P 290 D C30 L2P 1 1 N 1 15.37 2.10 122.30 137.67 A A A C N CA THR GLY GLY 5 6 6 Y 1 -3.38 0.50 120.30 116.92 A A A NE CZ NH2 ARG ARG ARG 7 7 7 N 1 5.73 0.90 118.30 124.03 A A A CB CG OD2 ASP ASP ASP 36 36 36 N 1 -4.00 0.60 121.00 117.00 A A A CB CG CD1 TYR TYR TYR 64 64 64 N 1 -4.90 0.70 120.80 115.90 A A A CB CG CD2 PHE PHE PHE 71 71 71 N 1 -4.96 0.50 120.30 115.34 A A A NE CZ NH1 ARG ARG ARG 82 82 82 N 1 -4.33 0.60 121.00 116.67 A A A CB CG CD2 TYR TYR TYR 133 133 133 N 1 3.96 0.60 121.00 124.96 A A A CB CG CD1 TYR TYR TYR 133 133 133 N 1 12.82 1.90 113.70 126.52 A A A CA CB CG TRP TRP TRP 189 189 189 N 1 5.30 0.50 120.30 125.60 A A A NE CZ NH1 ARG ARG ARG 227 227 227 N 1 A A C OXT GLU GLU 232 232 0.181 0.019 1.229 1.410 N 1 A MET 163 -177.87 109.07 81.980 25.5125 12.190 0.1481 0.1253 0.1253 1.25 47 3172 63455 5 100 random 1 FREE R-VALUE MOLECULAR REPLACEMENT 1C3W 1.25 47 29 1977 186 0 1762 21.706 1.250 47 5ZIM 63455 1.000 0.103 0.104 0.988 1 21.630 33.517 100.000 3.087 1.250 1.280 1.660 4679 0.502 3.135 1 33.055 100.000 2.276 1.280 1.320 2.220 4554 0.625 2.312 1 32.123 100.000 2.005 1.320 1.360 2.610 4424 0.669 2.036 1 33.810 100.000 1.537 1.360 1.400 3.390 4304 0.753 1.561 1 32.716 100.000 1.216 1.400 1.440 4.440 4217 0.835 1.234 1 34.661 100.000 0.886 1.440 1.490 6.090 4020 0.913 0.899 1 34.562 100.000 0.695 1.490 1.550 7.980 3921 0.955 0.705 1 34.229 100.000 0.540 1.550 1.610 10.050 3742 0.962 0.549 1 32.471 100.000 0.402 1.610 1.690 13.780 3615 0.976 0.408 1 34.090 100.000 0.309 1.690 1.770 17.200 3445 0.986 0.314 1 32.908 100.000 0.236 1.770 1.860 22.330 3268 0.993 0.240 1 35.258 100.000 0.178 1.860 1.980 29.190 3118 0.995 0.180 1 34.794 100.000 0.116 1.980 2.110 38.870 2905 0.998 0.117 1 34.051 100.000 0.098 2.110 2.280 45.560 2720 0.998 0.100 1 31.385 100.000 0.078 2.280 2.500 53.960 2524 0.999 0.080 1 33.278 100.000 0.068 2.500 2.800 61.650 2245 0.999 0.069 1 32.904 100.000 0.059 2.800 3.230 69.860 2012 0.999 0.060 1 34.433 100.000 0.051 3.230 3.950 74.980 1689 0.999 0.052 1 32.356 100.000 0.047 3.950 5.590 78.770 1319 0.999 0.048 1 32.293 100.000 0.043 5.590 47 82.590 734 0.999 0.043 1 35.005 99.700 data scaling XSCALE refinement SHELXL data extraction PDB_EXTRACT 3.24 N Crystal structure of bacteriorhodopsin at 1.25 A resolution 1 N N 2 N N 3 N N 3 N N 3 N N 3 N N 4 N N A GLU 9 A GLU 5 HELX_P A MET 32 A MET 28 1 AA1 24 A ASP 36 A ASP 32 HELX_P A LEU 62 A LEU 58 1 AA2 27 A TRP 80 A TRP 76 HELX_P A VAL 101 A VAL 97 1 AA3 22 A ASP 104 A ASP 100 HELX_P A THR 128 A THR 124 1 AA4 25 A VAL 130 A VAL 126 HELX_P A GLY 155 A GLY 151 1 AA5 26 A ARG 164 A ARG 160 HELX_P A GLY 192 A GLY 188 1 AA6 29 A PRO 200 A PRO 196 HELX_P A ARG 225 A ARG 221 1 AA7 26 A SER 226 A SER 222 HELX_P A PHE 230 A PHE 226 5 AA8 5 covale 1.350 one A LYS 216 A NZ LYS 212 1_555 A RET 250 B C15 RET 1_555 PROTON TRANSPORT proton pump, membrane protein, PROTON TRANSPORT BACR_HALSA UNP 1 18 P02945 TGRPEWIWLALGTALMGLGTLYFLVKGMGVSDPDAKKFYAITTLVPAIAFTMYLSMLLGYGLTMVPFGGEQNPIYWARYA DWLFTTPLLLLDLALLVDADQGTILALVGADGIMIGTGLVGALTKVYSYRFVWWAISTAAMLYILYVLFFGFTSKAESMR PEVASTFKVLRNVTVVLWSAYPVVWLIGSEGAGIVPLNIETLLFMVLDVSAKVGFGLILLRSRAIFGE 18 245 5ZIM 5 232 P02945 A 1 1 228 2 anti-parallel A LEU 66 A LEU 62 A PHE 71 A PHE 67 A GLU 74 A GLU 70 A TYR 79 A TYR 75 173 P 63