0.027132 0.000000 0.008058 -0.000000 0.016742 0.000000 0.000000 -0.000000 0.020218 0.000000 0.000000 0.000000 Hutter, C. Peneff, C.M. Wirth, C. Schirmer, T. http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic 2 90.0000 106.5412 90.0000 36.8569 59.7311 51.5959 C6 H10 O7 194.139 alpha-D-galactopyranuronic acid alpha-D-galacturonic acid; D-galacturonic acid; galacturonic acid; ALPHA D-GALACTURONIC ACID D-saccharide, alpha linking 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 C16 H34 O5 306.438 (HYDROXYETHYLOXY)TRI(ETHYLOXY)OCTANE 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 C8 H18 114.229 N-OCTANE non-polymer 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 N 1 S C N 2 R C N 3 S C N 4 R C N 5 S C N 6 N C N 7 N O N 8 N O N 9 N O N 10 N O N 11 N O N 12 N O N 13 N O N 14 N H N 15 N H N 16 N H N 17 N H N 18 N H N 19 N H N 20 N H N 21 N H N 22 N H N 23 N H N 24 N N N 25 S C N 26 N C N 27 N O N 28 N C N 29 N O 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 N N 38 S C N 39 N C N 40 N O N 41 N C N 42 N C N 43 N C N 44 N N N 45 N C N 46 N N N 47 N N N 48 N O N 49 N H 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 H N 59 N H N 60 N H N 61 N H N 62 N H N 63 N H N 64 N N N 65 S C N 66 N C N 67 N O N 68 N C N 69 N C N 70 N O N 71 N N N 72 N O N 73 N H N 74 N H N 75 N H N 76 N H N 77 N H N 78 N H N 79 N H N 80 N H N 81 N N N 82 S C N 83 N C N 84 N O N 85 N C N 86 N C N 87 N O N 88 N O N 89 N O N 90 N H N 91 N H N 92 N H N 93 N H N 94 N H N 95 N H N 96 N H N 97 N C N 98 N C N 99 N C N 100 N C N 101 N C N 102 N C N 103 N C N 104 N C N 105 N O N 106 N C N 107 N C N 108 N O N 109 N C N 110 N C N 111 N O N 112 N C N 113 N C N 114 N O N 115 N C N 116 N C 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 H N 124 N H N 125 N H N 126 N H N 127 N H N 128 N H N 129 N H N 130 N H N 131 N H N 132 N H N 133 N H N 134 N H 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 H N 149 N H N 150 N H N 151 N H N 152 N N N 153 S C N 154 N C N 155 N O N 156 N C N 157 N C N 158 N C N 159 N O N 160 N N N 161 N O 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 H N 171 N H N 172 N N N 173 S C N 174 N C N 175 N O N 176 N C N 177 N C N 178 N C N 179 N O N 180 N O N 181 N O 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 N N 192 N C N 193 N C N 194 N O N 195 N O N 196 N H N 197 N H N 198 N H N 199 N H N 200 N H N 201 N N N 202 S C N 203 N C N 204 N O N 205 N C Y 206 N C Y 207 N N Y 208 N C Y 209 N C Y 210 N N N 211 N O 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 O N 223 N H N 224 N H N 225 N N N 226 S C N 227 N C N 228 N O N 229 S C N 230 N C N 231 N C N 232 N C N 233 N O 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 N N 248 S C N 249 N C N 250 N O N 251 N C N 252 N C N 253 N C N 254 N C N 255 N O 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 N N 270 S C N 271 N C N 272 N O N 273 N C N 274 N C N 275 N C N 276 N C N 277 N N N 278 N O N 279 N H N 280 N H N 281 N H N 282 N H N 283 N H N 284 N H N 285 N H N 286 N H N 287 N H N 288 N H N 289 N H N 290 N H N 291 N H N 292 N H N 293 N H N 294 N N N 295 S C N 296 N C N 297 N O N 298 N C N 299 N C N 300 N S N 301 N C N 302 N O 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 C N 315 N C N 316 N C N 317 N C N 318 N C N 319 N C N 320 N C N 321 N C 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 H N 330 N H N 331 N H N 332 N H 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 N C Y 345 N C Y 346 N C Y 347 N C Y 348 N C Y 349 N C Y 350 N C N 351 N O N 352 N H N 353 N H N 354 N H N 355 N H N 356 N H N 357 N H N 358 N H N 359 N H N 360 N H N 361 N H N 362 N H N 363 N N N 364 S C N 365 N C N 366 N O N 367 N C N 368 N C N 369 N C N 370 N O N 371 N H 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 N N 381 S C N 382 N C N 383 N O N 384 N C N 385 N O N 386 N O N 387 N H N 388 N H N 389 N H N 390 N H N 391 N H N 392 N H N 393 N H N 394 N N N 395 S C N 396 N C N 397 N O N 398 R C N 399 N O N 400 N C N 401 N O 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 H N 409 N H N 410 N H N 411 N N N 412 S C N 413 N C N 414 N O N 415 N C Y 416 N C Y 417 N C Y 418 N C Y 419 N N Y 420 N C Y 421 N C Y 422 N C Y 423 N C Y 424 N C N 425 N O 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 Y 443 N C Y 444 N C Y 445 N C Y 446 N C Y 447 N C Y 448 N C N 449 N O N 450 N O N 451 N H N 452 N H N 453 N H N 454 N H N 455 N H N 456 N H N 457 N H N 458 N H N 459 N H N 460 N H N 461 N H N 462 N N N 463 S C N 464 N C N 465 N O N 466 N C N 467 N C N 468 N C N 469 N O N 470 N H N 471 N H N 472 N H N 473 N H N 474 N H N 475 N H N 476 N H N 477 N H N 478 N H N 479 N H N 480 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 sing 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 doub N 19 N sing 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 doub N 31 N sing N 32 N sing N 33 N sing 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 doub N 43 N sing N 44 N sing N 45 N sing N 46 N sing N 47 N sing N 48 N sing N 49 N sing N 50 N sing N 51 N sing N 52 N sing N 53 N sing N 54 N sing N 55 N sing N 56 N doub N 57 N sing N 58 N sing N 59 N sing N 60 N sing N 61 N sing N 62 N sing N 63 N sing N 64 N sing N 65 N sing N 66 N sing N 67 N sing N 68 N doub N 69 N sing N 70 N sing N 71 N sing N 72 N sing N 73 N doub N 74 N sing N 75 N sing N 76 N sing 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 doub N 90 N sing N 91 N sing N 92 N sing N 93 N sing N 94 N sing N 95 N sing 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 sing 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 sing 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 sing 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 doub 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 doub 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 doub 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 doub 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 doub 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 doub N 200 N sing N 201 N sing N 202 N sing N 203 N sing Y 204 N sing Y 205 N doub Y 206 N doub N 207 N sing Y 208 N sing N 209 N sing Y 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 doub 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 doub 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 doub 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 sing 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 doub 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 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 sing 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 Y 337 N doub Y 338 N sing Y 339 N sing N 340 N sing Y 341 N doub N 342 N sing Y 343 N doub N 344 N sing Y 345 N sing N 346 N sing N 347 N sing N 348 N sing N 349 N sing N 350 N sing N 351 N sing N 352 N sing N 353 N sing N 354 N sing N 355 N doub 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 sing 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 doub 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 doub N 386 N sing N 387 N sing N 388 N sing N 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 sing N 401 N doub N 402 N sing N 403 N sing N 404 N sing N 405 N sing Y 406 N doub Y 407 N sing Y 408 N sing N 409 N sing Y 410 N doub Y 411 N sing Y 412 N sing N 413 N sing Y 414 N sing Y 415 N doub N 416 N sing Y 417 N doub N 418 N sing Y 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 doub N 430 N sing N 431 N sing N 432 N sing N 433 N sing Y 434 N doub Y 435 N sing Y 436 N sing N 437 N sing Y 438 N doub N 439 N sing Y 440 N doub N 441 N sing Y 442 N sing N 443 N sing N 444 N sing 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 doub 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 sing N 461 N sing N 462 N sing N 463 N sing N 464 N sing DK Acta Crystallogr.,Sect.D ABCRE6 0766 0907-4449 70 1770 1778 10.1107/S1399004714007147 24914987 Structure of the oligogalacturonate-specific KdgM porin. 2014 10.2210/pdb4pr7/pdb pdb_00004pr7 100 1 CCD 2011-04-01 MARMOSAIC 225 mm CCD Si(111) SINGLE WAVELENGTH M x-ray 1 1.008 1.0 X06DA SLS 1.008 SYNCHROTRON SLS BEAMLINE X06DA 25546.006 Oligogalacturonate-specific porin KdgM UNP residues 21-236 1 man polymer 898.634 alpha-D-galactopyranuronic acid-(1-4)-alpha-D-galactopyranuronic acid-(1-4)-alpha-D-galactopyranuronic acid-(1-4)-alpha-D-galactopyranuronic acid-(1-4)-alpha-D-galactopyranuronic acid 1 man branched 114.229 N-OCTANE 4 syn non-polymer 306.438 (HYDROXYETHYLOXY)TRI(ETHYLOXY)OCTANE 2 syn non-polymer 18.015 water 41 nat water no no VSIDYRHEMQDTAQAGHKDRLLISHRFANGFGLSSEVKWAQSSADKTPNKPFNEQVSNGTEVVASYVYKFNSVFSIEPGF SLESGSSNNNYRPYLRGRANVTDDLSVALRYRPYFKRNSGNIGKDNTMDKGYTLTGNIDYTFLKDYTIGYELEYKKGTSG KTILSDNDDYDITHNVKLSYKWDKNWKPYVEVGNVSGSETTDERQTRYRVGVQYSFHHHHHH VSIDYRHEMQDTAQAGHKDRLLISHRFANGFGLSSEVKWAQSSADKTPNKPFNEQVSNGTEVVASYVYKFNSVFSIEPGF SLESGSSNNNYRPYLRGRANVTDDLSVALRYRPYFKRNSGNIGKDNTMDKGYTLTGNIDYTFLKDYTIGYELEYKKGTSG KTILSDNDDYDITHNVKLSYKWDKNWKPYVEVGNVSGSETTDERQTRYRVGVQYSFHHHHHH 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 3937 sample kdgM, Dda3937_03362 204038 Dickeya dadantii 469008 Escherichia coli BL21(DE3)omp8/pLys plasmid pKSM717 1 2.2 44.0 VAPOR DIFFUSION, HANGING DROP 6.0 0.1 M MES, 22% MPD, 36 mM digalacturonate, pH 6.0, VAPOR DIFFUSION, HANGING DROP, temperature 293K 293 atom_site chem_comp database_PDB_caveat entity pdbx_branch_scheme pdbx_chem_comp_identifier pdbx_entity_branch pdbx_entity_branch_descriptor pdbx_entity_branch_link pdbx_entity_branch_list pdbx_entity_nonpoly pdbx_nonpoly_scheme pdbx_struct_assembly_gen pdbx_unobs_or_zero_occ_residues pdbx_validate_close_contact struct_asym struct_conn struct_ref_seq_dif struct_site struct_site_gen chem_comp chem_comp_atom chem_comp_bond database_2 pdbx_initial_refinement_model pdbx_unobs_or_zero_occ_residues repository Initial release Carbohydrate remediation repository Remediation Database references Advisory Atomic model Data collection Database references Derived calculations Structure summary Advisory Data collection Database references Refinement description Structure summary 1 0 2014-06-11 1 1 2014-09-24 2 0 2020-07-29 2 1 2023-09-20 _atom_site.B_iso_or_equiv _atom_site.Cartn_x _atom_site.Cartn_y _atom_site.Cartn_z _atom_site.auth_asym_id _atom_site.auth_atom_id _atom_site.auth_comp_id _atom_site.auth_seq_id _atom_site.label_asym_id _atom_site.label_atom_id _atom_site.label_comp_id _atom_site.label_entity_id _atom_site.occupancy _atom_site.type_symbol _chem_comp.name _chem_comp.type _entity.formula_weight _entity.pdbx_description _entity.pdbx_number_of_molecules _entity.src_method _entity.type _pdbx_struct_assembly_gen.asym_id_list _pdbx_validate_close_contact.auth_asym_id_1 _pdbx_validate_close_contact.auth_seq_id_1 _struct_conn.pdbx_dist_value _struct_conn.pdbx_leaving_atom_flag _struct_conn.ptnr1_auth_asym_id _struct_conn.ptnr1_auth_seq_id _struct_conn.ptnr1_label_asym_id _struct_conn.ptnr2_auth_asym_id _struct_conn.ptnr2_auth_seq_id _struct_conn.ptnr2_label_asym_id _struct_ref_seq_dif.details _chem_comp.pdbx_synonyms _database_2.pdbx_DOI _database_2.pdbx_database_accession X ADA 400 n B ADA 1 X ADA 401 n B ADA 2 X ADA 402 n B ADA 3 X ADA 403 n B ADA 4 X ADA 404 n B ADA 5 DGalpAa a-D-galactopyranuronic acid a-D-GalpA GalA RCSB Y RCSB 2014-03-05 REL REL oligosaccharide DGalpAa1-4DGalpAa1-4DGalpAa1-4DGalpAa1-4DGalpAa1-ROH 2 GMML 1.0 Glycam Condensed Sequence WURCS=2.0/1,5,4/[a2112A-1a_1-5]/1-1-1-1-1/a4-b1_b4-c1_c4-d1_d4-e1 2 PDB2Glycan 1.1.0 WURCS [][a-D-GalpA]{[(4+1)][a-D-GalpA]{[(4+1)][a-D-GalpA]{[(4+1)][a-D-GalpA]{[(4+1)][a-D-GalpA]{}}}}} 2 PDB-CARE LINUCS C1 O4 ADA ADA 2 1 2 O1 HO4 sing C1 O4 ADA ADA 3 2 2 O1 HO4 sing C1 O4 ADA ADA 4 3 2 O1 HO4 sing C1 O4 ADA ADA 5 4 2 O1 HO4 sing n n n n n OCT N-OCTANE C8E (HYDROXYETHYLOXY)TRI(ETHYLOXY)OCTANE HOH water 4FQE PDB ENTRY 4FQE PDB experimental model OCT 1 3 OCT OCT 301 A OCT 2 3 OCT OCT 302 A OCT 6 3 OCT OCT 303 A OCT 7 3 OCT OCT 304 A C8E 1 4 C8E C8E 305 A C8E 2 4 C8E C8E 306 A HOH 1 5 HOH HOH 401 A HOH 2 5 HOH HOH 402 A HOH 3 5 HOH HOH 403 A HOH 4 5 HOH HOH 404 A HOH 5 5 HOH HOH 405 A HOH 6 5 HOH HOH 406 A HOH 7 5 HOH HOH 407 A HOH 8 5 HOH HOH 408 A HOH 9 5 HOH HOH 409 A HOH 10 5 HOH HOH 410 A HOH 11 5 HOH HOH 411 A HOH 12 5 HOH HOH 412 A HOH 13 5 HOH HOH 413 A HOH 15 5 HOH HOH 414 A HOH 16 5 HOH HOH 415 A HOH 17 5 HOH HOH 416 A HOH 18 5 HOH HOH 417 A HOH 20 5 HOH HOH 418 A HOH 22 5 HOH HOH 419 A HOH 23 5 HOH HOH 420 A HOH 25 5 HOH HOH 421 A HOH 26 5 HOH HOH 422 A HOH 28 5 HOH HOH 423 A HOH 29 5 HOH HOH 424 A HOH 30 5 HOH HOH 425 A HOH 33 5 HOH HOH 426 A HOH 34 5 HOH HOH 427 A HOH 35 5 HOH HOH 428 A HOH 37 5 HOH HOH 429 A HOH 38 5 HOH HOH 430 A HOH 39 5 HOH HOH 431 A HOH 41 5 HOH HOH 432 A HOH 42 5 HOH HOH 433 A HOH 43 5 HOH HOH 434 A HOH 44 5 HOH HOH 435 A HOH 46 5 HOH HOH 436 A HOH 47 5 HOH HOH 437 A HOH 48 5 HOH HOH 438 A HOH 49 5 HOH HOH 439 A HOH 50 5 HOH HOH 440 A HOH 51 5 HOH HOH 441 A VAL 1 n 1 VAL 1 A SER 2 n 2 SER 2 A ILE 3 n 3 ILE 3 A ASP 4 n 4 ASP 4 A TYR 5 n 5 TYR 5 A ARG 6 n 6 ARG 6 A HIS 7 n 7 HIS 7 A GLU 8 n 8 GLU 8 A MET 9 n 9 MET 9 A GLN 10 n 10 GLN 10 A ASP 11 n 11 ASP 11 A n 12 12 A n 13 13 A n 14 14 A n 15 15 A GLY 16 n 16 GLY 16 A HIS 17 n 17 HIS 17 A LYS 18 n 18 LYS 18 A ASP 19 n 19 ASP 19 A ARG 20 n 20 ARG 20 A LEU 21 n 21 LEU 21 A LEU 22 n 22 LEU 22 A ILE 23 n 23 ILE 23 A SER 24 n 24 SER 24 A HIS 25 n 25 HIS 25 A ARG 26 n 26 ARG 26 A PHE 27 n 27 PHE 27 A ALA 28 n 28 ALA 28 A ASN 29 n 29 ASN 29 A GLY 30 n 30 GLY 30 A PHE 31 n 31 PHE 31 A GLY 32 n 32 GLY 32 A LEU 33 n 33 LEU 33 A SER 34 n 34 SER 34 A SER 35 n 35 SER 35 A GLU 36 n 36 GLU 36 A VAL 37 n 37 VAL 37 A LYS 38 n 38 LYS 38 A TRP 39 n 39 TRP 39 A ALA 40 n 40 ALA 40 A GLN 41 n 41 GLN 41 A SER 42 n 42 SER 42 A n 43 43 A n 44 44 A n 45 45 A n 46 46 A n 47 47 A n 48 48 A n 49 49 A n 50 50 A n 51 51 A n 52 52 A n 53 53 A n 54 54 A n 55 55 A VAL 56 n 56 VAL 56 A SER 57 n 57 SER 57 A ASN 58 n 58 ASN 58 A GLY 59 n 59 GLY 59 A THR 60 n 60 THR 60 A GLU 61 n 61 GLU 61 A VAL 62 n 62 VAL 62 A VAL 63 n 63 VAL 63 A ALA 64 n 64 ALA 64 A SER 65 n 65 SER 65 A TYR 66 n 66 TYR 66 A VAL 67 n 67 VAL 67 A TYR 68 n 68 TYR 68 A LYS 69 n 69 LYS 69 A PHE 70 n 70 PHE 70 A ASN 71 n 71 ASN 71 A SER 72 n 72 SER 72 A VAL 73 n 73 VAL 73 A PHE 74 n 74 PHE 74 A SER 75 n 75 SER 75 A ILE 76 n 76 ILE 76 A GLU 77 n 77 GLU 77 A PRO 78 n 78 PRO 78 A GLY 79 n 79 GLY 79 A PHE 80 n 80 PHE 80 A SER 81 n 81 SER 81 A LEU 82 n 82 LEU 82 A GLU 83 n 83 GLU 83 A SER 84 n 84 SER 84 A GLY 85 n 85 GLY 85 A SER 86 n 86 SER 86 A SER 87 n 87 SER 87 A ASN 88 n 88 ASN 88 A ASN 89 n 89 ASN 89 A ASN 90 n 90 ASN 90 A TYR 91 n 91 TYR 91 A ARG 92 n 92 ARG 92 A PRO 93 n 93 PRO 93 A TYR 94 n 94 TYR 94 A LEU 95 n 95 LEU 95 A ARG 96 n 96 ARG 96 A GLY 97 n 97 GLY 97 A ARG 98 n 98 ARG 98 A ALA 99 n 99 ALA 99 A ASN 100 n 100 ASN 100 A VAL 101 n 101 VAL 101 A THR 102 n 102 THR 102 A ASP 103 n 103 ASP 103 A ASP 104 n 104 ASP 104 A LEU 105 n 105 LEU 105 A SER 106 n 106 SER 106 A VAL 107 n 107 VAL 107 A ALA 108 n 108 ALA 108 A LEU 109 n 109 LEU 109 A ARG 110 n 110 ARG 110 A TYR 111 n 111 TYR 111 A ARG 112 n 112 ARG 112 A PRO 113 n 113 PRO 113 A TYR 114 n 114 TYR 114 A PHE 115 n 115 PHE 115 A LYS 116 n 116 LYS 116 A ARG 117 n 117 ARG 117 A n 118 118 A n 119 119 A n 120 120 A n 121 121 A n 122 122 A n 123 123 A n 124 124 A n 125 125 A n 126 126 A n 127 127 A n 128 128 A n 129 129 A LYS 130 n 130 LYS 130 A GLY 131 n 131 GLY 131 A TYR 132 n 132 TYR 132 A THR 133 n 133 THR 133 A LEU 134 n 134 LEU 134 A THR 135 n 135 THR 135 A GLY 136 n 136 GLY 136 A ASN 137 n 137 ASN 137 A ILE 138 n 138 ILE 138 A ASP 139 n 139 ASP 139 A TYR 140 n 140 TYR 140 A THR 141 n 141 THR 141 A PHE 142 n 142 PHE 142 A LEU 143 n 143 LEU 143 A LYS 144 n 144 LYS 144 A ASP 145 n 145 ASP 145 A TYR 146 n 146 TYR 146 A THR 147 n 147 THR 147 A ILE 148 n 148 ILE 148 A GLY 149 n 149 GLY 149 A TYR 150 n 150 TYR 150 A GLU 151 n 151 GLU 151 A LEU 152 n 152 LEU 152 A GLU 153 n 153 GLU 153 A TYR 154 n 154 TYR 154 A LYS 155 n 155 LYS 155 A LYS 156 n 156 LYS 156 A GLY 157 n 157 GLY 157 A THR 158 n 158 THR 158 A SER 159 n 159 SER 159 A n 160 160 A n 161 161 A n 162 162 A n 163 163 A n 164 164 A n 165 165 A n 166 166 A n 167 167 A n 168 168 A n 169 169 A TYR 170 n 170 TYR 170 A ASP 171 n 171 ASP 171 A ILE 172 n 172 ILE 172 A THR 173 n 173 THR 173 A HIS 174 n 174 HIS 174 A ASN 175 n 175 ASN 175 A VAL 176 n 176 VAL 176 A LYS 177 n 177 LYS 177 A LEU 178 n 178 LEU 178 A SER 179 n 179 SER 179 A TYR 180 n 180 TYR 180 A LYS 181 n 181 LYS 181 A TRP 182 n 182 TRP 182 A ASP 183 n 183 ASP 183 A LYS 184 n 184 LYS 184 A ASN 185 n 185 ASN 185 A TRP 186 n 186 TRP 186 A LYS 187 n 187 LYS 187 A PRO 188 n 188 PRO 188 A TYR 189 n 189 TYR 189 A VAL 190 n 190 VAL 190 A GLU 191 n 191 GLU 191 A VAL 192 n 192 VAL 192 A GLY 193 n 193 GLY 193 A ASN 194 n 194 ASN 194 A VAL 195 n 195 VAL 195 A SER 196 n 196 SER 196 A n 197 197 A n 198 198 A n 199 199 A n 200 200 A n 201 201 A n 202 202 A n 203 203 A ARG 204 n 204 ARG 204 A GLN 205 n 205 GLN 205 A THR 206 n 206 THR 206 A ARG 207 n 207 ARG 207 A TYR 208 n 208 TYR 208 A ARG 209 n 209 ARG 209 A VAL 210 n 210 VAL 210 A GLY 211 n 211 GLY 211 A VAL 212 n 212 VAL 212 A GLN 213 n 213 GLN 213 A TYR 214 n 214 TYR 214 A SER 215 n 215 SER 215 A PHE 216 n 216 PHE 216 A HIS 217 n 217 HIS 217 A n 218 218 A n 219 219 A n 220 220 A n 221 221 A n 222 222 A 1.5074 0.1857 0.2489 2.6115 0.1413 0.0460 -0.0189 -0.1019 0.0291 0.1214 0.0087 0.0265 0.0003 -0.0166 0.0102 0.0320 0.0056 -0.0146 0.0246 0.0057 0.0652 refined 8.5390 1.1350 2.2370 X-RAY DIFFRACTION A 1 A 217 X-RAY DIFFRACTION 1 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 N TYR 68 A N TYR 68 A O ILE 76 A O ILE 76 A N GLY 79 A N GLY 79 A O TYR 94 A O TYR 94 A N ALA 99 A N ALA 99 A O VAL 107 A O VAL 107 A N TYR 68 A N TYR 68 A O ILE 76 A O ILE 76 A O SER 84 A O SER 84 A N THR 60 A N THR 60 A O GLU 61 A O GLU 61 A N GLU 36 A N GLU 36 A O TRP 39 A O TRP 39 A N ASP 19 A N ASP 19 A O LEU 22 A O LEU 22 A N ASP 4 A N ASP 4 A N MET 9 A N MET 9 A O TYR 208 A O TYR 208 A O ARG 207 A O ARG 207 A N GLY 193 A N GLY 193 A O VAL 190 A O VAL 190 A N LEU 178 A N LEU 178 A O ASN 175 A O ASN 175 A N GLU 151 A N GLU 151 A O LEU 152 A O LEU 152 A N GLY 136 A N GLY 136 A O THR 133 A O THR 133 A N ARG 112 A N ARG 112 A O ARG 117 A O ARG 117 A N ASN 89 A N ASN 89 A O ASN 90 A O ASN 90 A N GLU 83 A N GLU 83 1 A THR 12 A THR 12 1 Y 1 A ALA 13 A ALA 13 1 Y 1 A GLN 14 A GLN 14 1 Y 1 A ALA 15 A ALA 15 1 Y 1 A SER 43 A SER 43 1 Y 1 A ALA 44 A ALA 44 1 Y 1 A ASP 45 A ASP 45 1 Y 1 A LYS 46 A LYS 46 1 Y 1 A THR 47 A THR 47 1 Y 1 A PRO 48 A PRO 48 1 Y 1 A ASN 49 A ASN 49 1 Y 1 A LYS 50 A LYS 50 1 Y 1 A PRO 51 A PRO 51 1 Y 1 A PHE 52 A PHE 52 1 Y 1 A ASN 53 A ASN 53 1 Y 1 A GLU 54 A GLU 54 1 Y 1 A GLN 55 A GLN 55 1 Y 1 A ASN 118 A ASN 118 1 Y 1 A SER 119 A SER 119 1 Y 1 A GLY 120 A GLY 120 1 Y 1 A ASN 121 A ASN 121 1 Y 1 A ILE 122 A ILE 122 1 Y 1 A GLY 123 A GLY 123 1 Y 1 A LYS 124 A LYS 124 1 Y 1 A ASP 125 A ASP 125 1 Y 1 A ASN 126 A ASN 126 1 Y 1 A THR 127 A THR 127 1 Y 1 A MET 128 A MET 128 1 Y 1 A ASP 129 A ASP 129 1 Y 1 A GLY 160 A GLY 160 1 Y 1 A LYS 161 A LYS 161 1 Y 1 A THR 162 A THR 162 1 Y 1 A ILE 163 A ILE 163 1 Y 1 A LEU 164 A LEU 164 1 Y 1 A SER 165 A SER 165 1 Y 1 A ASP 166 A ASP 166 1 Y 1 A ASN 167 A ASN 167 1 Y 1 A ASP 168 A ASP 168 1 Y 1 A ASP 169 A ASP 169 1 Y 1 A GLY 197 A GLY 197 1 Y 1 A SER 198 A SER 198 1 Y 1 A GLU 199 A GLU 199 1 Y 1 A THR 200 A THR 200 1 Y 1 A THR 201 A THR 201 1 Y 1 A ASP 202 A ASP 202 1 Y 1 A GLU 203 A GLU 203 1 Y 1 A HIS 218 A HIS 218 1 Y 1 A HIS 219 A HIS 219 1 Y 1 A HIS 220 A HIS 220 1 Y 1 A HIS 221 A HIS 221 1 Y 1 A HIS 222 A HIS 222 1 Y 1 B ADA 1 B ADA 0 N 1 B ADA 2 B ADA 0 N 1 B ADA 3 B ADA 0 N 1 B ADA 4 B ADA 0 N 1 B ADA 5 B ADA 0 N 1 B A O6A O ADA HOH 3 441 2.06 1 A ASN 71 -173.80 -168.92 1 A LYS 144 71.13 -56.26 89.990 33.262 7.950 0.3100 0.0000 -0.0100 -1.1900 -0.0000 0.7500 0.9430 0.9170 HYDROGENS HAVE BEEN ADDED IN THE RIDING POSITIONS 0.2455 0.2081 0.2100 0.2100 2.100 30.0 576 11896 11896 4.8000 93.99 1.000 0.000 10.5420 0.1410 RANDOM 1 THROUGHOUT 0.0 0 DIFFERENCE FOURIER 0.1970 0.8000 0.8000 1.2000 PDB ENTRY 4FQE MAXIMUM LIKELIHOOD MASK 2.100 30.0 41 1593 135 0 1417 0.008 0.019 1519 0.001 0.020 1463 1.223 1.960 2015 0.635 3.000 3356 6.827 5.000 165 31.608 22.597 77 16.711 15.000 240 19.541 15.000 12 0.078 0.200 199 0.005 0.020 1629 0.001 0.020 385 0.2370 0.2020 2.154 32 562 594 20 62.26 2.10 59.74 4PR7 11990 11990 0 -3.0 0.078 1 9.9198 2.86 94.90 0.31 2.10 2.21 2.44 2961 1419 1 2.09 77.47 0.26 2.21 2.35 2.79 3859 1602 1 2.41 93.20 0.24 2.35 2.51 3.00 4390 1593 1 2.76 97.97 0.21 2.51 2.71 3.28 4750 1518 1 3.13 98.68 0.13 2.71 2.97 5.25 4343 1375 1 3.16 98.83 0.08 2.97 3.32 7.92 3980 1260 1 3.16 99.15 0.06 3.32 3.83 7.61 3492 1106 1 3.16 99.13 0.04 3.83 4.70 12.20 3007 963 1 3.12 99.57 0.04 4.70 6.64 13.12 2308 741 1 3.11 99.65 0.03 6.64 59.74 14.74 1233 413 1 2.99 97.89 refinement Garib N. Murshudov garib@ysbl.york.ac.uk Fortran_77 http://www.ccp4.ac.uk/dist/html/refmac5.html REFMAC program 5.7.0029 data scaling Phil R. Evans pre@mrc-lmb.cam.ac.uk 2011/05/18 Fortran_77 http://www.ccp4.ac.uk/dist/html/scala.html SCALA other CCP4_3.3.20 data extraction PDB deposit@deposit.rcsb.org June 10, 2010 C++ http://sw-tools.pdb.org/apps/PDB_EXTRACT/ PDB_EXTRACT package 3.10 data reduction MOSFLM phasing PHASER KdgM porin in complex with disordered oligogalacturonate 1 N N 2 N N 3 N N 3 N N 3 N N 3 N N 4 N N 4 N N 5 N N covale 1.436 both B ADA 1 B O4 ADA 1_555 B ADA 2 B C1 ADA 1_555 covale 1.438 both B ADA 2 B O4 ADA 1_555 B ADA 3 B C1 ADA 1_555 covale 1.444 both B ADA 3 B O4 ADA 1_555 B ADA 4 B C1 ADA 1_555 covale 1.439 both B ADA 4 B O4 ADA 1_555 B ADA 5 B C1 ADA 1_555 OUTER MEMBRANE PROTEIN beta barrel, oligogalacturonate specificity, transport protein, OUTER MEMBRANE PROTEIN KDGM_DICD3 UNP 1 21 Q934G3 VSIDYRHEMQDTAQAGHKDRLLISHRFANGFGLSSEVKWAQSSADKTPNKPFNEQVSNGTEVVASYVYKFNSVFSIEPGF SLESGSSNNNYRPYLRGRANVTDDLSVALRYRPYFKRNSGNIGKDNTMDKGYTLTGNIDYTFLKDYTIGYELEYKKGTSG KTILSDNDDYDITHNVKLSYKWDKNWKPYVEVGNVSGSETTDERQTRYRVGVQYSF 21 236 4PR7 1 216 Q934G3 A 1 1 216 1 expression tag HIS 217 4PR7 A Q934G3 UNP 217 1 expression tag HIS 218 4PR7 A Q934G3 UNP 218 1 expression tag HIS 219 4PR7 A Q934G3 UNP 219 1 expression tag HIS 220 4PR7 A Q934G3 UNP 220 1 expression tag HIS 221 4PR7 A Q934G3 UNP 221 1 expression tag HIS 222 4PR7 A Q934G3 UNP 222 4 14 anti-parallel anti-parallel anti-parallel anti-parallel anti-parallel anti-parallel anti-parallel anti-parallel anti-parallel anti-parallel anti-parallel anti-parallel anti-parallel anti-parallel anti-parallel anti-parallel A TYR 68 A TYR 68 A LYS 69 A LYS 69 A PHE 74 A PHE 74 A GLY 85 A GLY 85 A TYR 94 A TYR 94 A ASN 100 A ASN 100 A LEU 105 A LEU 105 A ARG 117 A ARG 117 A TYR 68 A TYR 68 A LYS 69 A LYS 69 A PHE 74 A PHE 74 A GLY 85 A GLY 85 A SER 57 A SER 57 A TYR 66 A TYR 66 A PHE 31 A PHE 31 A GLN 41 A GLN 41 A HIS 17 A HIS 17 A ARG 26 A ARG 26 A SER 2 A SER 2 A GLN 10 A GLN 10 A GLN 205 A GLN 205 A SER 215 A SER 215 A TRP 186 A TRP 186 A SER 196 A SER 196 A ASP 171 A ASP 171 A TYR 180 A TYR 180 A TYR 146 A TYR 146 A GLY 157 A GLY 157 A GLY 131 A GLY 131 A PHE 142 A PHE 142 A LEU 105 A LEU 105 A ARG 117 A ARG 117 A ASN 89 A ASN 89 A TYR 91 A TYR 91 A PHE 74 A PHE 74 A GLY 85 A GLY 85 4 P 1 21 1