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Sequence, Chains, Asymmetric and Biological Units

Title STRUCTURAL ANALYSIS OF A BETA-GLUCOSIDASE MUTANT DERIVED FRO HYPERTHERMOPHILIC TETRAMERIC STRUCTURE
Keywords TIM BARREL, HYDROLASE, SUGAR BINDING, HYDROLYSIS
Experiment X-ray diffraction
Number of Models  1


   Database       ID code    StatusCoordinate files
        Header     Asymmetric unit     Biological unit  

PDB   3WDP     released     available     available     Quaternary Structure Server  


Asymmetric unit from PDB
 Unit     Type     Name   Chain ID   Residues   Atoms   Hetatoms 
1  Protein   BETA-GLUCOSIDASE  P 472 3858 0
2  Protein   BETA-GLUCOSIDASE  Q 472 3858 0
3  Protein   BETA-GLUCOSIDASE  R 472 3858 0
4  Protein   BETA-GLUCOSIDASE  S 472 3858 0
5  Ligand   BETA-GLUCOSIDASE  P 8 0 44
6  Ligand   BETA-GLUCOSIDASE  Q 7 0 38
7  Ligand   BETA-GLUCOSIDASE  R 6 0 33
8  Ligand   BETA-GLUCOSIDASE  S 2 0 11
9 Water     1578 0 1578
total       3489 15432 1704

Proteins
Unit 1 ALA1 LYS2 PHE3 PRO4 LYS5 ASN6 PHE7 MET8 PHE9 GLY10 TYR11 SER12 TRP13 SER14 GLY15 PHE16 GLN17 PHE18 GLU19 MET20 GLY21 LEU22 PRO23 GLY24 SER25 GLU26 VAL27 GLU28 SER29 ASP30 TRP31 TRP32 VAL33 TRP34 VAL35 HIS36 ASP37 LYS38 GLU39 ASN40 ILE41 ALA42 SER43 GLY44 LEU45 VAL46 SER47 GLY48 ASP49 LEU50 PRO51 GLU52 ASN53 GLY54 PRO55 ALA56 TYR57 TRP58 HIS59 LEU60 TYR61 LYS62 GLN63 ASP64 HIS65 ASP66 ILE67 ALA68 GLU69 LYS70 LEU71 GLY72 MET73 ASP74 CYS75 ILE76 ARG77 GLY78 GLY79 ILE80 GLU81 TRP82 ALA83 ARG84 ILE85 PHE86 PRO87 LYS88 PRO89 THR90 PHE91 ASP92 VAL93 LYS94 VAL95 ASP96 VAL97 GLU98 LYS99 ASP100 GLU101 GLU102 GLY103 ASN104 ILE105 ILE106 SER107 VAL108 ASP109 VAL110 PRO111 GLU112 SER113 THR114 ILE115 LYS116 GLU117 LEU118 GLU119 LYS120 ILE121 ALA122 ASN123 MET124 GLU125 ALA126 LEU127 GLU128 HIS129 TYR130 ARG131 LYS132 ILE133 TYR134 SER135 ASP136 TRP137 LYS138 GLU139 ARG140 GLY141 LYS142 THR143 PHE144 ILE145 LEU146 ASN147 LEU148 TYR149 HIS150 TRP151 PRO152 LEU153 PRO154 LEU155 TRP156 ILE157 HIS158 ASP159 PRO160 ILE161 ALA162 VAL163 ARG164 LYS165 LEU166 GLY167 PRO168 ASP169 ALA170 ALA171 PRO172 ALA173 GLY174 TRP175 LEU176 ASP177 GLU178 LYS179 THR180 VAL181 VAL182 GLU183 PHE184 VAL185 LYS186 PHE187 ALA188 ALA189 PHE190 VAL191 ALA192 TYR193 HIS194 LEU195 ASP196 ASP197 LEU198 VAL199 ASP200 MET201 TRP202 SER203 THR204 MET205 ASN206 GLU207 PRO208 ASN209 VAL210 VAL211 TYR212 ASN213 GLN214 GLY215 TYR216 ILE217 ASN218 LEU219 ALA220 SER221 GLY222 PHE223 PRO224 PRO225 GLY226 PHE227 LEU228 SER229 PHE230 GLU231 ALA232 ALA233 GLU234 LYS235 ALA236 LYS237 PHE238 ASN239 LEU240 ILE241 GLN242 ALA243 HIS244 ILE245 GLY246 ALA247 TYR248 ASP249 ALA250 ILE251 LYS252 GLU253 TYR254 SER255 GLU256 LYS257 SER258 VAL259 GLY260 VAL261 ILE262 TYR263 ALA264 PHE265 ALA266 TRP267 HIS268 ASP269 PRO270 LEU271 ALA272 GLU273 GLU274 TYR275 LYS276 ASP277 GLU278 VAL279 GLU280 GLU281 ILE282 ARG283 LYS284 LYS285 ASP286 TYR287 GLU288 PHE289 VAL290 THR291 ILE292 LEU293 HIS294 SER295 LYS296 GLY297 LYS298 LEU299 ASP300 TRP301 ILE302 GLY303 VAL304 ASN305 TYR306 TYR307 SER308 ARG309 LEU310 VAL311 TYR312 GLY313 ALA314 LYS315 ASP316 GLY317 HIS318 LEU319 VAL320 PRO321 LEU322 PRO323 GLY324 TYR325 GLY326 PHE327 MET328 SER329 GLU330 ARG331 GLY332 GLY333 PHE334 ALA335 LYS336 SER337 GLY338 ARG339 PRO340 ALA341 SER342 ASP343 PHE344 GLY345 TRP346 GLU347 MET348 TYR349 PRO350 GLU351 GLY352 LEU353 GLU354 ASN355 LEU356 LEU357 LYS358 TYR359 LEU360 ASN361 ASN362 ALA363 TYR364 GLU365 LEU366 PRO367 MET368 ILE369 ILE370 THR371 GLU372 ASN373 GLY374 MET375 ALA376 ASP377 ALA378 ALA379 ASP380 ARG381 TYR382 ARG383 PRO384 HIS385 TYR386 LEU387 VAL388 SER389 HIS390 LEU391 LYS392 ALA393 VAL394 TYR395 ASN396 ALA397 MET398 LYS399 GLU400 GLY401 ALA402 ASP403 VAL404 ARG405 GLY406 TYR407 LEU408 HIS409 TRP410 SER411 LEU412 THR413 ASP414 ASN415 TYR416 GLU417 TRP418 ALA419 GLN420 GLY421 PHE422 ARG423 MET424 ARG425 PHE426 GLY427 LEU428 VAL429 TYR430 VAL431 ASP432 PHE433 GLU434 THR435 LYS436 LYS437 ARG438 TYR439 LEU440 ARG441 PRO442 SER443 ALA444 LEU445 VAL446 PHE447 ARG448 GLU449 ILE450 ALA451 THR452 GLN453 LYS454 GLU455 ILE456 PRO457 GLU458 GLU459 LEU460 ALA461 HIS462 LEU463 ALA464 ASP465 LEU466 LYS467 PHE468 VAL469 THR470 ARG471 LYS472
Unit 2 ALA1 LYS2 PHE3 PRO4 LYS5 ASN6 PHE7 MET8 PHE9 GLY10 TYR11 SER12 TRP13 SER14 GLY15 PHE16 GLN17 PHE18 GLU19 MET20 GLY21 LEU22 PRO23 GLY24 SER25 GLU26 VAL27 GLU28 SER29 ASP30 TRP31 TRP32 VAL33 TRP34 VAL35 HIS36 ASP37 LYS38 GLU39 ASN40 ILE41 ALA42 SER43 GLY44 LEU45 VAL46 SER47 GLY48 ASP49 LEU50 PRO51 GLU52 ASN53 GLY54 PRO55 ALA56 TYR57 TRP58 HIS59 LEU60 TYR61 LYS62 GLN63 ASP64 HIS65 ASP66 ILE67 ALA68 GLU69 LYS70 LEU71 GLY72 MET73 ASP74 CYS75 ILE76 ARG77 GLY78 GLY79 ILE80 GLU81 TRP82 ALA83 ARG84 ILE85 PHE86 PRO87 LYS88 PRO89 THR90 PHE91 ASP92 VAL93 LYS94 VAL95 ASP96 VAL97 GLU98 LYS99 ASP100 GLU101 GLU102 GLY103 ASN104 ILE105 ILE106 SER107 VAL108 ASP109 VAL110 PRO111 GLU112 SER113 THR114 ILE115 LYS116 GLU117 LEU118 GLU119 LYS120 ILE121 ALA122 ASN123 MET124 GLU125 ALA126 LEU127 GLU128 HIS129 TYR130 ARG131 LYS132 ILE133 TYR134 SER135 ASP136 TRP137 LYS138 GLU139 ARG140 GLY141 LYS142 THR143 PHE144 ILE145 LEU146 ASN147 LEU148 TYR149 HIS150 TRP151 PRO152 LEU153 PRO154 LEU155 TRP156 ILE157 HIS158 ASP159 PRO160 ILE161 ALA162 VAL163 ARG164 LYS165 LEU166 GLY167 PRO168 ASP169 ALA170 ALA171 PRO172 ALA173 GLY174 TRP175 LEU176 ASP177 GLU178 LYS179 THR180 VAL181 VAL182 GLU183 PHE184 VAL185 LYS186 PHE187 ALA188 ALA189 PHE190 VAL191 ALA192 TYR193 HIS194 LEU195 ASP196 ASP197 LEU198 VAL199 ASP200 MET201 TRP202 SER203 THR204 MET205 ASN206 GLU207 PRO208 ASN209 VAL210 VAL211 TYR212 ASN213 GLN214 GLY215 TYR216 ILE217 ASN218 LEU219 ALA220 SER221 GLY222 PHE223 PRO224 PRO225 GLY226 PHE227 LEU228 SER229 PHE230 GLU231 ALA232 ALA233 GLU234 LYS235 ALA236 LYS237 PHE238 ASN239 LEU240 ILE241 GLN242 ALA243 HIS244 ILE245 GLY246 ALA247 TYR248 ASP249 ALA250 ILE251 LYS252 GLU253 TYR254 SER255 GLU256 LYS257 SER258 VAL259 GLY260 VAL261 ILE262 TYR263 ALA264 PHE265 ALA266 TRP267 HIS268 ASP269 PRO270 LEU271 ALA272 GLU273 GLU274 TYR275 LYS276 ASP277 GLU278 VAL279 GLU280 GLU281 ILE282 ARG283 LYS284 LYS285 ASP286 TYR287 GLU288 PHE289 VAL290 THR291 ILE292 LEU293 HIS294 SER295 LYS296 GLY297 LYS298 LEU299 ASP300 TRP301 ILE302 GLY303 VAL304 ASN305 TYR306 TYR307 SER308 ARG309 LEU310 VAL311 TYR312 GLY313 ALA314 LYS315 ASP316 GLY317 HIS318 LEU319 VAL320 PRO321 LEU322 PRO323 GLY324 TYR325 GLY326 PHE327 MET328 SER329 GLU330 ARG331 GLY332 GLY333 PHE334 ALA335 LYS336 SER337 GLY338 ARG339 PRO340 ALA341 SER342 ASP343 PHE344 GLY345 TRP346 GLU347 MET348 TYR349 PRO350 GLU351 GLY352 LEU353 GLU354 ASN355 LEU356 LEU357 LYS358 TYR359 LEU360 ASN361 ASN362 ALA363 TYR364 GLU365 LEU366 PRO367 MET368 ILE369 ILE370 THR371 GLU372 ASN373 GLY374 MET375 ALA376 ASP377 ALA378 ALA379 ASP380 ARG381 TYR382 ARG383 PRO384 HIS385 TYR386 LEU387 VAL388 SER389 HIS390 LEU391 LYS392 ALA393 VAL394 TYR395 ASN396 ALA397 MET398 LYS399 GLU400 GLY401 ALA402 ASP403 VAL404 ARG405 GLY406 TYR407 LEU408 HIS409 TRP410 SER411 LEU412 THR413 ASP414 ASN415 TYR416 GLU417 TRP418 ALA419 GLN420 GLY421 PHE422 ARG423 MET424 ARG425 PHE426 GLY427 LEU428 VAL429 TYR430 VAL431 ASP432 PHE433 GLU434 THR435 LYS436 LYS437 ARG438 TYR439 LEU440 ARG441 PRO442 SER443 ALA444 LEU445 VAL446 PHE447 ARG448 GLU449 ILE450 ALA451 THR452 GLN453 LYS454 GLU455 ILE456 PRO457 GLU458 GLU459 LEU460 ALA461 HIS462 LEU463 ALA464 ASP465 LEU466 LYS467 PHE468 VAL469 THR470 ARG471 LYS472
Unit 3 ALA1 LYS2 PHE3 PRO4 LYS5 ASN6 PHE7 MET8 PHE9 GLY10 TYR11 SER12 TRP13 SER14 GLY15 PHE16 GLN17 PHE18 GLU19 MET20 GLY21 LEU22 PRO23 GLY24 SER25 GLU26 VAL27 GLU28 SER29 ASP30 TRP31 TRP32 VAL33 TRP34 VAL35 HIS36 ASP37 LYS38 GLU39 ASN40 ILE41 ALA42 SER43 GLY44 LEU45 VAL46 SER47 GLY48 ASP49 LEU50 PRO51 GLU52 ASN53 GLY54 PRO55 ALA56 TYR57 TRP58 HIS59 LEU60 TYR61 LYS62 GLN63 ASP64 HIS65 ASP66 ILE67 ALA68 GLU69 LYS70 LEU71 GLY72 MET73 ASP74 CYS75 ILE76 ARG77 GLY78 GLY79 ILE80 GLU81 TRP82 ALA83 ARG84 ILE85 PHE86 PRO87 LYS88 PRO89 THR90 PHE91 ASP92 VAL93 LYS94 VAL95 ASP96 VAL97 GLU98 LYS99 ASP100 GLU101 GLU102 GLY103 ASN104 ILE105 ILE106 SER107 VAL108 ASP109 VAL110 PRO111 GLU112 SER113 THR114 ILE115 LYS116 GLU117 LEU118 GLU119 LYS120 ILE121 ALA122 ASN123 MET124 GLU125 ALA126 LEU127 GLU128 HIS129 TYR130 ARG131 LYS132 ILE133 TYR134 SER135 ASP136 TRP137 LYS138 GLU139 ARG140 GLY141 LYS142 THR143 PHE144 ILE145 LEU146 ASN147 LEU148 TYR149 HIS150 TRP151 PRO152 LEU153 PRO154 LEU155 TRP156 ILE157 HIS158 ASP159 PRO160 ILE161 ALA162 VAL163 ARG164 LYS165 LEU166 GLY167 PRO168 ASP169 ALA170 ALA171 PRO172 ALA173 GLY174 TRP175 LEU176 ASP177 GLU178 LYS179 THR180 VAL181 VAL182 GLU183 PHE184 VAL185 LYS186 PHE187 ALA188 ALA189 PHE190 VAL191 ALA192 TYR193 HIS194 LEU195 ASP196 ASP197 LEU198 VAL199 ASP200 MET201 TRP202 SER203 THR204 MET205 ASN206 GLU207 PRO208 ASN209 VAL210 VAL211 TYR212 ASN213 GLN214 GLY215 TYR216 ILE217 ASN218 LEU219 ALA220 SER221 GLY222 PHE223 PRO224 PRO225 GLY226 PHE227 LEU228 SER229 PHE230 GLU231 ALA232 ALA233 GLU234 LYS235 ALA236 LYS237 PHE238 ASN239 LEU240 ILE241 GLN242 ALA243 HIS244 ILE245 GLY246 ALA247 TYR248 ASP249 ALA250 ILE251 LYS252 GLU253 TYR254 SER255 GLU256 LYS257 SER258 VAL259 GLY260 VAL261 ILE262 TYR263 ALA264 PHE265 ALA266 TRP267 HIS268 ASP269 PRO270 LEU271 ALA272 GLU273 GLU274 TYR275 LYS276 ASP277 GLU278 VAL279 GLU280 GLU281 ILE282 ARG283 LYS284 LYS285 ASP286 TYR287 GLU288 PHE289 VAL290 THR291 ILE292 LEU293 HIS294 SER295 LYS296 GLY297 LYS298 LEU299 ASP300 TRP301 ILE302 GLY303 VAL304 ASN305 TYR306 TYR307 SER308 ARG309 LEU310 VAL311 TYR312 GLY313 ALA314 LYS315 ASP316 GLY317 HIS318 LEU319 VAL320 PRO321 LEU322 PRO323 GLY324 TYR325 GLY326 PHE327 MET328 SER329 GLU330 ARG331 GLY332 GLY333 PHE334 ALA335 LYS336 SER337 GLY338 ARG339 PRO340 ALA341 SER342 ASP343 PHE344 GLY345 TRP346 GLU347 MET348 TYR349 PRO350 GLU351 GLY352 LEU353 GLU354 ASN355 LEU356 LEU357 LYS358 TYR359 LEU360 ASN361 ASN362 ALA363 TYR364 GLU365 LEU366 PRO367 MET368 ILE369 ILE370 THR371 GLU372 ASN373 GLY374 MET375 ALA376 ASP377 ALA378 ALA379 ASP380 ARG381 TYR382 ARG383 PRO384 HIS385 TYR386 LEU387 VAL388 SER389 HIS390 LEU391 LYS392 ALA393 VAL394 TYR395 ASN396 ALA397 MET398 LYS399 GLU400 GLY401 ALA402 ASP403 VAL404 ARG405 GLY406 TYR407 LEU408 HIS409 TRP410 SER411 LEU412 THR413 ASP414 ASN415 TYR416 GLU417 TRP418 ALA419 GLN420 GLY421 PHE422 ARG423 MET424 ARG425 PHE426 GLY427 LEU428 VAL429 TYR430 VAL431 ASP432 PHE433 GLU434 THR435 LYS436 LYS437 ARG438 TYR439 LEU440 ARG441 PRO442 SER443 ALA444 LEU445 VAL446 PHE447 ARG448 GLU449 ILE450 ALA451 THR452 GLN453 LYS454 GLU455 ILE456 PRO457 GLU458 GLU459 LEU460 ALA461 HIS462 LEU463 ALA464 ASP465 LEU466 LYS467 PHE468 VAL469 THR470 ARG471 LYS472
Unit 4 ALA1 LYS2 PHE3 PRO4 LYS5 ASN6 PHE7 MET8 PHE9 GLY10 TYR11 SER12 TRP13 SER14 GLY15 PHE16 GLN17 PHE18 GLU19 MET20 GLY21 LEU22 PRO23 GLY24 SER25 GLU26 VAL27 GLU28 SER29 ASP30 TRP31 TRP32 VAL33 TRP34 VAL35 HIS36 ASP37 LYS38 GLU39 ASN40 ILE41 ALA42 SER43 GLY44 LEU45 VAL46 SER47 GLY48 ASP49 LEU50 PRO51 GLU52 ASN53 GLY54 PRO55 ALA56 TYR57 TRP58 HIS59 LEU60 TYR61 LYS62 GLN63 ASP64 HIS65 ASP66 ILE67 ALA68 GLU69 LYS70 LEU71 GLY72 MET73 ASP74 CYS75 ILE76 ARG77 GLY78 GLY79 ILE80 GLU81 TRP82 ALA83 ARG84 ILE85 PHE86 PRO87 LYS88 PRO89 THR90 PHE91 ASP92 VAL93 LYS94 VAL95 ASP96 VAL97 GLU98 LYS99 ASP100 GLU101 GLU102 GLY103 ASN104 ILE105 ILE106 SER107 VAL108 ASP109 VAL110 PRO111 GLU112 SER113 THR114 ILE115 LYS116 GLU117 LEU118 GLU119 LYS120 ILE121 ALA122 ASN123 MET124 GLU125 ALA126 LEU127 GLU128 HIS129 TYR130 ARG131 LYS132 ILE133 TYR134 SER135 ASP136 TRP137 LYS138 GLU139 ARG140 GLY141 LYS142 THR143 PHE144 ILE145 LEU146 ASN147 LEU148 TYR149 HIS150 TRP151 PRO152 LEU153 PRO154 LEU155 TRP156 ILE157 HIS158 ASP159 PRO160 ILE161 ALA162 VAL163 ARG164 LYS165 LEU166 GLY167 PRO168 ASP169 ALA170 ALA171 PRO172 ALA173 GLY174 TRP175 LEU176 ASP177 GLU178 LYS179 THR180 VAL181 VAL182 GLU183 PHE184 VAL185 LYS186 PHE187 ALA188 ALA189 PHE190 VAL191 ALA192 TYR193 HIS194 LEU195 ASP196 ASP197 LEU198 VAL199 ASP200 MET201 TRP202 SER203 THR204 MET205 ASN206 GLU207 PRO208 ASN209 VAL210 VAL211 TYR212 ASN213 GLN214 GLY215 TYR216 ILE217 ASN218 LEU219 ALA220 SER221 GLY222 PHE223 PRO224 PRO225 GLY226 PHE227 LEU228 SER229 PHE230 GLU231 ALA232 ALA233 GLU234 LYS235 ALA236 LYS237 PHE238 ASN239 LEU240 ILE241 GLN242 ALA243 HIS244 ILE245 GLY246 ALA247 TYR248 ASP249 ALA250 ILE251 LYS252 GLU253 TYR254 SER255 GLU256 LYS257 SER258 VAL259 GLY260 VAL261 ILE262 TYR263 ALA264 PHE265 ALA266 TRP267 HIS268 ASP269 PRO270 LEU271 ALA272 GLU273 GLU274 TYR275 LYS276 ASP277 GLU278 VAL279 GLU280 GLU281 ILE282 ARG283 LYS284 LYS285 ASP286 TYR287 GLU288 PHE289 VAL290 THR291 ILE292 LEU293 HIS294 SER295 LYS296 GLY297 LYS298 LEU299 ASP300 TRP301 ILE302 GLY303 VAL304 ASN305 TYR306 TYR307 SER308 ARG309 LEU310 VAL311 TYR312 GLY313 ALA314 LYS315 ASP316 GLY317 HIS318 LEU319 VAL320 PRO321 LEU322 PRO323 GLY324 TYR325 GLY326 PHE327 MET328 SER329 GLU330 ARG331 GLY332 GLY333 PHE334 ALA335 LYS336 SER337 GLY338 ARG339 PRO340 ALA341 SER342 ASP343 PHE344 GLY345 TRP346 GLU347 MET348 TYR349 PRO350 GLU351 GLY352 LEU353 GLU354 ASN355 LEU356 LEU357 LYS358 TYR359 LEU360 ASN361 ASN362 ALA363 TYR364 GLU365 LEU366 PRO367 MET368 ILE369 ILE370 THR371 GLU372 ASN373 GLY374 MET375 ALA376 ASP377 ALA378 ALA379 ASP380 ARG381 TYR382 ARG383 PRO384 HIS385 TYR386 LEU387 VAL388 SER389 HIS390 LEU391 LYS392 ALA393 VAL394 TYR395 ASN396 ALA397 MET398 LYS399 GLU400 GLY401 ALA402 ASP403 VAL404 ARG405 GLY406 TYR407 LEU408 HIS409 TRP410 SER411 LEU412 THR413 ASP414 ASN415 TYR416 GLU417 TRP418 ALA419 GLN420 GLY421 PHE422 ARG423 MET424 ARG425 PHE426 GLY427 LEU428 VAL429 TYR430 VAL431 ASP432 PHE433 GLU434 THR435 LYS436 LYS437 ARG438 TYR439 LEU440 ARG441 PRO442 SER443 ALA444 LEU445 VAL446 PHE447 ARG448 GLU449 ILE450 ALA451 THR452 GLN453 LYS454 GLU455 ILE456 PRO457 GLU458 GLU459 LEU460 ALA461 HIS462 LEU463 ALA464 ASP465 LEU466 LYS467 PHE468 VAL469 THR470 ARG471 LYS472

Ligands
Unit 5 GOL501 GOL502 GOL503 GOL504 PO4505 PO4506 PO4507 PO4508
Unit 6 GOL501 GOL502 GOL503 PO4504 PO4505 PO4506 PO4507
Unit 7 GOL501 GOL502 GOL503 PO4504 PO4505 PO4506
Unit 8 GOL501 PO4502

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Perl script:    PDBscan.pl  (15 Sep 2016)
Author:    Peter Slickers  (slickers@leibniz-fli.de),  IMB Jena,  Germany