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Sequence, Chains, Asymmetric and Biological Units

Title CRYSTAL STRUCTURE OF FULL-LENGTH N-GLYCOSYLATED HUMAN GLYPIC
Keywords MEMBRANE PROTEIN, PROTEOGLYCAN, GLYCOSAMINOGLYCANS, HEPARAN HELICAL BUNDLE, GLYCOPROTEIN, SUGAR BINDING PROTEIN
Experiment X-ray diffraction
Number of Models  1

   Database       ID code    StatusCoordinate files
        Header     Asymmetric unit     Biological unit  
PDB   4AD7     released     available     available     Quaternary Structure Server  
Asymmetric unit from PDB
 Unit     Type     Name   Chain ID   Residues   Atoms   Hetatoms 
1  Protein   GLYPICAN-1  A 358 2811 0
2  Protein   GLYPICAN-1  B 426 3341 0
3  Protein   GLYPICAN-1  C 385 3035 0
4  Protein   GLYPICAN-1  D 428 3357 0
5  Ligand   GLYPICAN-1  A 1 0 14
6  Ligand   GLYPICAN-1  B 2 0 28
7  Ligand   GLYPICAN-1  C 1 0 14
8  Ligand   GLYPICAN-1  D 2 0 28
9 Water     126 0 126
total       1729 12544 210
Proteins
Unit 1 SER29 ARG30 SER31 CYS32 GLY33 GLU34 VAL35 ARG36 GLN37 ILE38 TYR39 GLY40 ALA41 LYS42 GLY43 PHE44 SER45 LEU46 SER47 ASP48 VAL49 PRO50 GLN51 ALA52 GLU53 ILE54 SER55 GLY56 GLU57 HIS58 LEU59 ARG60 ILE61 CYS62 PRO63 GLN64 GLY65 TYR66 THR67 CYS68 CYS69 THR70 SER71 GLU72 MET73 GLU74 GLU75 ASN76 LEU77 ALA78 ASN79 ARG80 SER81 HIS82 ALA83 GLU84 LEU85 GLU86 THR87 ALA88 LEU89 ARG90 ASP91 SER92 SER93 ARG94 VAL95 LEU96 GLN97 ALA98 MET99 LEU100 ALA101 THR102 GLN103 LEU104 ARG105 SER106 PHE107 ASP108 ASP109 HIS110 PHE111 GLN112 HIS113 LEU114 LEU115 ASN116 ASP117 SER118 GLU119 ARG120 THR121 LEU122 GLN123 ALA124 THR125 PHE126 PRO127 GLY128 ALA129 PHE130 GLY131 GLU132 LEU133 TYR134 THR135 GLN136 ASN137 ALA138 ARG139 ALA140 PHE141 ARG142 ASP143 LEU144 TYR145 SER146 GLU147 LEU148 ARG149 LEU150 TYR151 TYR152 ARG153 GLY154 ALA155 ASN156 LEU157 HIS158 LEU159 GLU160 GLU161 THR162 LEU163 ALA164 GLU165 PHE166 TRP167 ALA168 ARG169 LEU170 LEU171 GLU172 ARG173 LEU174 PHE202 GLY203 GLU204 ALA205 PRO206 ARG207 GLU208 LEU209 ARG210 LEU211 ARG212 ALA213 THR214 ARG215 ALA216 PHE217 VAL218 ALA219 ALA220 ARG221 SER222 PHE223 VAL224 GLN225 GLY226 LEU227 GLY228 VAL229 ALA230 SER231 ASP232 VAL233 VAL234 ARG235 LYS236 VAL237 ALA238 GLN239 VAL240 PRO241 LEU242 GLY243 PRO244 GLU245 CYS246 SER247 ARG248 ALA249 VAL250 MET251 LYS252 LEU253 VAL254 TYR255 CYS256 ALA257 HIS258 CYS259 LEU260 GLY261 VAL262 PRO263 GLY264 ALA265 ARG266 PRO267 CYS268 PRO269 ASP270 TYR271 CYS272 ARG273 ASN274 VAL275 LEU276 LYS277 GLY278 CYS279 LEU280 ALA281 ASN282 GLN283 ALA284 ASP285 LEU286 ASP287 ALA288 GLU289 TRP290 ARG291 ASN292 LEU293 LEU294 ASP295 SER296 MET297 VAL298 LEU299 ILE300 THR301 ASP302 LYS303 PHE304 TRP305 GLY306 THR307 SER308 GLY309 VAL310 GLU311 SER312 VAL313 ILE314 GLY315 SER316 VAL317 HIS318 THR319 GLY373 THR374 LEU375 GLU376 LYS377 LEU378 VAL379 SER380 GLU381 ALA382 LYS383 ALA384 GLN385 LEU386 ARG387 ASP388 VAL389 GLN390 ASP391 PHE392 TRP393 ILE394 SER395 LEU396 PRO397 GLY398 THR399 LEU400 CYS401 SER402 GLU403 LYS404 MET405 ARG414 CYS415 TRP416 ASN417 GLY418 MET419 ALA420 ARG421 GLY422 ARG423 TYR424 LEU425 PRO426 GLU427 VAL428 MET429 GLY430 ASP431 GLY432 LEU433 ALA434 ASN435 GLN436 ILE437 ASN438 ASN439 PRO440 GLU441 VAL442 GLU443 VAL444 ASP445 ILE446 THR447 LYS448 PRO449 ASP450 MET451 THR452 ILE453 ARG454 GLN455 GLN456 ILE457 MET458 GLN459 LEU460 LYS461 ILE462 MET463 THR464 ASN465 ARG466 LEU467 ARG468 SER469 ALA470 TYR471 ASN472 GLY473 ASN474
Unit 2 SER29 ARG30 SER31 CYS32 GLY33 GLU34 VAL35 ARG36 GLN37 ILE38 TYR39 GLY40 ALA41 LYS42 GLY43 PHE44 SER45 LEU46 SER47 ASP48 VAL49 PRO50 GLN51 ALA52 GLU53 ILE54 SER55 GLY56 GLU57 HIS58 LEU59 ARG60 ILE61 CYS62 PRO63 GLN64 GLY65 TYR66 THR67 CYS68 CYS69 THR70 SER71 GLU72 MET73 GLU74 GLU75 ASN76 LEU77 ALA78 ASN79 ARG80 SER81 HIS82 ALA83 GLU84 LEU85 GLU86 THR87 ALA88 LEU89 ARG90 ASP91 SER92 SER93 ARG94 VAL95 LEU96 GLN97 ALA98 MET99 LEU100 ALA101 THR102 GLN103 LEU104 ARG105 SER106 PHE107 ASP108 ASP109 HIS110 PHE111 GLN112 HIS113 LEU114 LEU115 ASN116 ASP117 SER118 GLU119 ARG120 THR121 LEU122 GLN123 ALA124 THR125 PHE126 PRO127 GLY128 ALA129 PHE130 GLY131 GLU132 LEU133 TYR134 THR135 GLN136 ASN137 ALA138 ARG139 ALA140 PHE141 ARG142 ASP143 LEU144 TYR145 SER146 GLU147 LEU148 ARG149 LEU150 TYR151 TYR152 ARG153 GLY154 ALA155 ASN156 LEU157 HIS158 LEU159 GLU160 GLU161 THR162 LEU163 ALA164 GLU165 PHE166 TRP167 ALA168 ARG169 LEU170 LEU171 GLU172 ARG173 LEU174 PHE175 LYS176 GLN177 LEU178 HIS179 PRO180 GLN181 LEU182 LEU183 LEU184 PRO185 ASP186 ASP187 TYR188 LEU189 ASP190 CYS191 LEU192 GLY193 LYS194 GLN195 ALA196 GLU197 ALA198 LEU199 ARG200 PRO201 PHE202 GLY203 GLU204 ALA205 PRO206 ARG207 GLU208 LEU209 ARG210 LEU211 ARG212 ALA213 THR214 ARG215 ALA216 PHE217 VAL218 ALA219 ALA220 ARG221 SER222 PHE223 VAL224 GLN225 GLY226 LEU227 GLY228 VAL229 ALA230 SER231 ASP232 VAL233 VAL234 ARG235 LYS236 VAL237 ALA238 GLN239 VAL240 PRO241 LEU242 GLY243 PRO244 GLU245 CYS246 SER247 ARG248 ALA249 VAL250 MET251 LYS252 LEU253 VAL254 TYR255 CYS256 ALA257 HIS258 CYS259 LEU260 GLY261 VAL262 PRO263 GLY264 ALA265 ARG266 PRO267 CYS268 PRO269 ASP270 TYR271 CYS272 ARG273 ASN274 VAL275 LEU276 LYS277 GLY278 CYS279 LEU280 ALA281 ASN282 GLN283 ALA284 ASP285 LEU286 ASP287 ALA288 GLU289 TRP290 ARG291 ASN292 LEU293 LEU294 ASP295 SER296 MET297 VAL298 LEU299 ILE300 THR301 ASP302 LYS303 PHE304 TRP305 GLY306 THR307 SER308 GLY309 VAL310 GLU311 SER312 VAL313 ILE314 GLY315 SER316 VAL317 HIS318 THR319 TRP320 LEU321 ALA322 GLU323 ALA324 ILE325 ASN326 ALA327 LEU328 GLN329 ASP330 ASN331 ARG332 ASP333 THR334 LEU335 THR336 ALA337 LYS338 VAL339 ILE340 GLN341 GLY342 CYS343 GLY344 ASN345 PRO346 LYS347 VAL348 GLY362 LYS363 LEU364 ALA365 PRO366 ARG367 GLU368 ARG369 PRO370 PRO371 SER372 GLY373 THR374 LEU375 GLU376 LYS377 LEU378 VAL379 SER380 GLU381 ALA382 LYS383 ALA384 GLN385 LEU386 ARG387 ASP388 VAL389 GLN390 ASP391 PHE392 TRP393 ILE394 SER395 LEU396 PRO397 GLY398 THR399 LEU400 CYS401 SER402 GLU403 LYS404 MET405 ARG414 CYS415 TRP416 ASN417 GLY418 MET419 ALA420 ARG421 GLY422 ARG423 TYR424 LEU425 PRO426 GLU427 VAL428 MET429 GLY430 ASP431 GLY432 LEU433 ALA434 ASN435 GLN436 ILE437 ASN438 ASN439 PRO440 GLU441 VAL442 GLU443 VAL444 ASP445 ILE446 THR447 LYS448 PRO449 ASP450 MET451 THR452 ILE453 ARG454 GLN455 GLN456 ILE457 MET458 GLN459 LEU460 LYS461 ILE462 MET463 THR464 ASN465 ARG466 LEU467 ARG468 SER469 ALA470 TYR471 ASN472 GLY473 ASN474 ASP475
Unit 3 SER29 ARG30 SER31 CYS32 GLY33 GLU34 VAL35 ARG36 GLN37 ILE38 TYR39 GLY40 ALA41 LYS42 GLY43 PHE44 SER45 LEU46 SER47 ASP48 VAL49 PRO50 GLN51 ALA52 GLU53 ILE54 SER55 GLY56 GLU57 HIS58 LEU59 ARG60 ILE61 CYS62 PRO63 GLN64 GLY65 TYR66 THR67 CYS68 CYS69 THR70 SER71 GLU72 MET73 GLU74 GLU75 ASN76 LEU77 ALA78 ASN79 ARG80 SER81 HIS82 ALA83 GLU84 LEU85 GLU86 THR87 ALA88 LEU89 ARG90 ASP91 SER92 SER93 ARG94 VAL95 LEU96 GLN97 ALA98 MET99 LEU100 ALA101 THR102 GLN103 LEU104 ARG105 SER106 PHE107 ASP108 ASP109 HIS110 PHE111 GLN112 HIS113 LEU114 LEU115 ASN116 ASP117 SER118 GLU119 ARG120 THR121 LEU122 GLN123 ALA124 THR125 PHE126 PRO127 GLY128 ALA129 PHE130 GLY131 GLU132 LEU133 TYR134 THR135 GLN136 ASN137 ALA138 ARG139 ALA140 PHE141 ARG142 ASP143 LEU144 TYR145 SER146 GLU147 LEU148 ARG149 LEU150 TYR151 TYR152 ARG153 GLY154 ALA155 ASN156 LEU157 HIS158 LEU159 GLU160 GLU161 THR162 LEU163 ALA164 GLU165 PHE166 TRP167 ALA168 ARG169 LEU170 LEU171 GLU172 ARG173 LEU174 PHE175 LYS176 GLN177 LEU178 HIS179 PRO180 GLU197 ALA198 LEU199 ARG200 PRO201 PHE202 GLY203 GLU204 ALA205 PRO206 ARG207 GLU208 LEU209 ARG210 LEU211 ARG212 ALA213 THR214 ARG215 ALA216 PHE217 VAL218 ALA219 ALA220 ARG221 SER222 PHE223 VAL224 GLN225 GLY226 LEU227 GLY228 VAL229 ALA230 SER231 ASP232 VAL233 VAL234 ARG235 LYS236 VAL237 ALA238 GLN239 VAL240 PRO241 LEU242 GLY243 PRO244 GLU245 CYS246 SER247 ARG248 ALA249 VAL250 MET251 LYS252 LEU253 VAL254 TYR255 CYS256 ALA257 HIS258 CYS259 LEU260 GLY261 VAL262 PRO263 GLY264 ALA265 ARG266 PRO267 CYS268 PRO269 ASP270 TYR271 CYS272 ARG273 ASN274 VAL275 LEU276 LYS277 GLY278 CYS279 LEU280 ALA281 ASN282 GLN283 ALA284 ASP285 LEU286 ASP287 ALA288 GLU289 TRP290 ARG291 ASN292 LEU293 LEU294 ASP295 SER296 MET297 VAL298 LEU299 ILE300 THR301 ASP302 LYS303 PHE304 TRP305 GLY306 THR307 SER312 VAL313 ILE314 GLY315 SER316 VAL317 HIS318 THR319 TRP320 LEU321 ALA322 GLU323 ALA324 ILE325 ASN326 ALA327 LEU328 GLN329 ASP330 ASN331 ARG332 ASP333 THR334 LEU335 THR336 ALA337 LYS338 SER372 GLY373 THR374 LEU375 GLU376 LYS377 LEU378 VAL379 SER380 GLU381 ALA382 LYS383 ALA384 GLN385 LEU386 ARG387 ASP388 VAL389 GLN390 ASP391 PHE392 TRP393 ILE394 SER395 LEU396 PRO397 GLY398 THR399 LEU400 CYS401 SER402 GLU403 LYS404 MET405 ARG414 CYS415 TRP416 ASN417 GLY418 MET419 ALA420 ARG421 GLY422 ARG423 TYR424 LEU425 PRO426 GLU427 VAL428 MET429 GLY430 ASP431 GLY432 LEU433 ALA434 ASN435 GLN436 ILE437 ASN438 ASN439 PRO440 GLU441 VAL442 GLU443 VAL444 ASP445 ILE446 THR447 LYS448 PRO449 ASP450 MET451 THR452 ILE453 ARG454 GLN455 GLN456 ILE457 MET458 GLN459 LEU460 LYS461 ILE462 MET463 THR464 ASN465 ARG466 LEU467 ARG468 SER469 ALA470 TYR471 ASN472 GLY473 ASN474
Unit 4 SER29 ARG30 SER31 CYS32 GLY33 GLU34 VAL35 ARG36 GLN37 ILE38 TYR39 GLY40 ALA41 LYS42 GLY43 PHE44 SER45 LEU46 SER47 ASP48 VAL49 PRO50 GLN51 ALA52 GLU53 ILE54 SER55 GLY56 GLU57 HIS58 LEU59 ARG60 ILE61 CYS62 PRO63 GLN64 GLY65 TYR66 THR67 CYS68 CYS69 THR70 SER71 GLU72 MET73 GLU74 GLU75 ASN76 LEU77 ALA78 ASN79 ARG80 SER81 HIS82 ALA83 GLU84 LEU85 GLU86 THR87 ALA88 LEU89 ARG90 ASP91 SER92 SER93 ARG94 VAL95 LEU96 GLN97 ALA98 MET99 LEU100 ALA101 THR102 GLN103 LEU104 ARG105 SER106 PHE107 ASP108 ASP109 HIS110 PHE111 GLN112 HIS113 LEU114 LEU115 ASN116 ASP117 SER118 GLU119 ARG120 THR121 LEU122 GLN123 ALA124 THR125 PHE126 PRO127 GLY128 ALA129 PHE130 GLY131 GLU132 LEU133 TYR134 THR135 GLN136 ASN137 ALA138 ARG139 ALA140 PHE141 ARG142 ASP143 LEU144 TYR145 SER146 GLU147 LEU148 ARG149 LEU150 TYR151 TYR152 ARG153 GLY154 ALA155 ASN156 LEU157 HIS158 LEU159 GLU160 GLU161 THR162 LEU163 ALA164 GLU165 PHE166 TRP167 ALA168 ARG169 LEU170 LEU171 GLU172 ARG173 LEU174 PHE175 LYS176 GLN177 LEU178 HIS179 PRO180 GLN181 LEU182 LEU183 LEU184 PRO185 ASP186 ASP187 TYR188 LEU189 ASP190 CYS191 LEU192 GLY193 LYS194 GLN195 ALA196 GLU197 ALA198 LEU199 ARG200 PRO201 PHE202 GLY203 GLU204 ALA205 PRO206 ARG207 GLU208 LEU209 ARG210 LEU211 ARG212 ALA213 THR214 ARG215 ALA216 PHE217 VAL218 ALA219 ALA220 ARG221 SER222 PHE223 VAL224 GLN225 GLY226 LEU227 GLY228 VAL229 ALA230 SER231 ASP232 VAL233 VAL234 ARG235 LYS236 VAL237 ALA238 GLN239 VAL240 PRO241 LEU242 GLY243 PRO244 GLU245 CYS246 SER247 ARG248 ALA249 VAL250 MET251 LYS252 LEU253 VAL254 TYR255 CYS256 ALA257 HIS258 CYS259 LEU260 GLY261 VAL262 PRO263 GLY264 ALA265 ARG266 PRO267 CYS268 PRO269 ASP270 TYR271 CYS272 ARG273 ASN274 VAL275 LEU276 LYS277 GLY278 CYS279 LEU280 ALA281 ASN282 GLN283 ALA284 ASP285 LEU286 ASP287 ALA288 GLU289 TRP290 ARG291 ASN292 LEU293 LEU294 ASP295 SER296 MET297 VAL298 LEU299 ILE300 THR301 ASP302 LYS303 PHE304 TRP305 GLY306 THR307 SER308 GLY309 VAL310 GLU311 SER312 VAL313 ILE314 GLY315 SER316 VAL317 HIS318 THR319 TRP320 LEU321 ALA322 GLU323 ALA324 ILE325 ASN326 ALA327 LEU328 GLN329 ASP330 ASN331 ARG332 ASP333 THR334 LEU335 THR336 ALA337 LYS338 VAL339 ILE340 GLN341 GLY342 CYS343 GLY344 ASN345 PRO346 LYS347 VAL348 ASN349 GLY362 LYS363 LEU364 ALA365 PRO366 ARG367 GLU368 ARG369 PRO370 PRO371 SER372 GLY373 THR374 LEU375 GLU376 LYS377 LEU378 VAL379 SER380 GLU381 ALA382 LYS383 ALA384 GLN385 LEU386 ARG387 ASP388 VAL389 GLN390 ASP391 PHE392 TRP393 ILE394 SER395 LEU396 PRO397 GLY398 THR399 LEU400 CYS401 SER402 GLU403 LYS404 MET405 ASP413 ARG414 CYS415 TRP416 ASN417 GLY418 MET419 ALA420 ARG421 GLY422 ARG423 TYR424 LEU425 PRO426 GLU427 VAL428 MET429 GLY430 ASP431 GLY432 LEU433 ALA434 ASN435 GLN436 ILE437 ASN438 ASN439 PRO440 GLU441 VAL442 GLU443 VAL444 ASP445 ILE446 THR447 LYS448 PRO449 ASP450 MET451 THR452 ILE453 ARG454 GLN455 GLN456 ILE457 MET458 GLN459 LEU460 LYS461 ILE462 MET463 THR464 ASN465 ARG466 LEU467 ARG468 SER469 ALA470 TYR471 ASN472 GLY473 ASN474 ASP475
Ligands
Unit 5 NAG1501
Unit 6 NAG1500 NAG1501
Unit 7 NAG1501
Unit 8 NAG1500 NAG1501
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Perl script:    PDBscan.pl  (15 Sep 2016)
Author:    Peter Slickers  (slickers@leibniz-fli.de),  IMB Jena,  Germany