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Sequence, Chains, Asymmetric and Biological Units

Title ALKYLPEROXO REACTION INTERMEDIATE TRAPPED IN PROTOCATECHUATE DIOXYGENASE (PSEUDOMONAS PUTIDA) AT PH 6.5
Keywords DIOXYGEN ACTIVATION, NON-HEME IRON, INTRADIOL DIOXYGENASE, A RING CLEAVAGE, CATALYTIC INTERMEDIATES, OXIDOREDUCTASE
Experiment X-ray diffraction
Number of Models  1

   Database       ID code    StatusCoordinate files
        Header     Asymmetric unit     Biological unit  
PDB   4WHQ     released     available     available     Quaternary Structure Server  
Asymmetric unit from PDB
 Unit     Type     Name   Chain ID   Residues   Atoms   Hetatoms 
1  Protein   PROTOCATECHUATE 3,4-DIOXYGENASE ALPHA CHAIN  A 200 1575 0
2  Protein   PROTOCATECHUATE 3,4-DIOXYGENASE ALPHA CHAIN  E 200 1575 0
3  Protein   PROTOCATECHUATE 3,4-DIOXYGENASE BETA CHAIN  F 236 1868 0
4  Protein   PROTOCATECHUATE 3,4-DIOXYGENASE ALPHA CHAIN  C 200 1575 0
5  Protein   PROTOCATECHUATE 3,4-DIOXYGENASE BETA CHAIN  D 238 1882 0
6  Protein   PROTOCATECHUATE 3,4-DIOXYGENASE BETA CHAIN  B 238 1882 0
7  Ligand   PROTOCATECHUATE 3,4-DIOXYGENASE ALPHA CHAIN  A 3 0 11
8  Ligand   PROTOCATECHUATE 3,4-DIOXYGENASE ALPHA CHAIN  E 1 0 9
9  Ligand   PROTOCATECHUATE 3,4-DIOXYGENASE BETA CHAIN  F 10 0 57
10  Ligand   PROTOCATECHUATE 3,4-DIOXYGENASE ALPHA CHAIN  C 4 0 19
11  Ligand   PROTOCATECHUATE 3,4-DIOXYGENASE BETA CHAIN  D 8 0 48
12  Ligand   PROTOCATECHUATE 3,4-DIOXYGENASE BETA CHAIN  B 12 0 82
13 Water     891 0 891
total       2241 10357 1117
Proteins
Unit 1 PRO1 ILE2 GLU3 LEU4 LEU5 PRO6 GLU7 THR8 PRO9 SER10 GLN11 THR12 ALA13 GLY14 PRO15 TYR16 VAL17 HIS18 ILE19 GLY20 LEU21 ALA22 LEU23 GLU24 ALA25 ALA26 GLY27 ASN28 PRO29 THR30 ARG31 ASP32 GLN33 GLU34 ILE35 TRP36 ASN37 ARG38 LEU39 ALA40 LYS41 PRO42 ASP43 ALA44 PRO45 GLY46 GLU47 HIS48 ILE49 LEU50 LEU51 LEU52 GLY53 GLN54 VAL55 TYR56 ASP57 GLY58 ASN59 GLY60 HIS61 LEU62 VAL63 ARG64 ASP65 SER66 PHE67 LEU68 GLU69 VAL70 TRP71 GLN72 ALA73 ASP74 ALA75 ASN76 GLY77 GLU78 TYR79 GLN80 ASP81 ALA82 TYR83 ASN84 LEU85 GLU86 ASN87 ALA88 PHE89 ASN90 SER91 PHE92 GLY93 ARG94 THR95 ALA96 THR97 THR98 PHE99 ASP100 ALA101 GLY102 GLU103 TRP104 THR105 LEU106 HIS107 THR108 VAL109 LYS110 PRO111 GLY112 VAL113 VAL114 ASN115 ASN116 ALA117 ALA118 GLY119 VAL120 PRO121 MET122 ALA123 PRO124 HIS125 ILE126 ASN127 ILE128 SER129 LEU130 PHE131 ALA132 ARG133 GLY134 ILE135 ASN136 ILE137 HIS138 LEU139 HIS140 THR141 ARG142 LEU143 TYR144 PHE145 ASP146 ASP147 GLU148 ALA149 GLN150 ALA151 ASN152 ALA153 LYS154 CYS155 PRO156 VAL157 LEU158 ASN159 LEU160 ILE161 GLU162 GLN163 PRO164 GLN165 ARG166 ARG167 GLU168 THR169 LEU170 ILE171 ALA172 LYS173 ARG174 CYS175 GLU176 VAL177 ASP178 GLY179 LYS180 THR181 ALA182 TYR183 ARG184 PHE185 ASP186 ILE187 ARG188 ILE189 GLN190 GLY191 GLU192 GLY193 GLU194 THR195 VAL196 PHE197 PHE198 ASP199 PHE200
Unit 2 PRO1 ILE2 GLU3 LEU4 LEU5 PRO6 GLU7 THR8 PRO9 SER10 GLN11 THR12 ALA13 GLY14 PRO15 TYR16 VAL17 HIS18 ILE19 GLY20 LEU21 ALA22 LEU23 GLU24 ALA25 ALA26 GLY27 ASN28 PRO29 THR30 ARG31 ASP32 GLN33 GLU34 ILE35 TRP36 ASN37 ARG38 LEU39 ALA40 LYS41 PRO42 ASP43 ALA44 PRO45 GLY46 GLU47 HIS48 ILE49 LEU50 LEU51 LEU52 GLY53 GLN54 VAL55 TYR56 ASP57 GLY58 ASN59 GLY60 HIS61 LEU62 VAL63 ARG64 ASP65 SER66 PHE67 LEU68 GLU69 VAL70 TRP71 GLN72 ALA73 ASP74 ALA75 ASN76 GLY77 GLU78 TYR79 GLN80 ASP81 ALA82 TYR83 ASN84 LEU85 GLU86 ASN87 ALA88 PHE89 ASN90 SER91 PHE92 GLY93 ARG94 THR95 ALA96 THR97 THR98 PHE99 ASP100 ALA101 GLY102 GLU103 TRP104 THR105 LEU106 HIS107 THR108 VAL109 LYS110 PRO111 GLY112 VAL113 VAL114 ASN115 ASN116 ALA117 ALA118 GLY119 VAL120 PRO121 MET122 ALA123 PRO124 HIS125 ILE126 ASN127 ILE128 SER129 LEU130 PHE131 ALA132 ARG133 GLY134 ILE135 ASN136 ILE137 HIS138 LEU139 HIS140 THR141 ARG142 LEU143 TYR144 PHE145 ASP146 ASP147 GLU148 ALA149 GLN150 ALA151 ASN152 ALA153 LYS154 CYS155 PRO156 VAL157 LEU158 ASN159 LEU160 ILE161 GLU162 GLN163 PRO164 GLN165 ARG166 ARG167 GLU168 THR169 LEU170 ILE171 ALA172 LYS173 ARG174 CYS175 GLU176 VAL177 ASP178 GLY179 LYS180 THR181 ALA182 TYR183 ARG184 PHE185 ASP186 ILE187 ARG188 ILE189 GLN190 GLY191 GLU192 GLY193 GLU194 THR195 VAL196 PHE197 PHE198 ASP199 PHE200
Unit 3 PRO301 ALA302 GLN303 ASP304 ASN305 SER306 ARG307 PHE308 VAL309 ILE310 ARG311 ASP312 ARG313 ASN314 TRP315 HIS316 PRO317 LYS318 ALA319 LEU320 THR321 PRO322 ASP323 TYR324 LYS325 THR326 SER327 ILE328 ALA329 ARG330 SER331 PRO332 ARG333 GLN334 ALA335 LEU336 VAL337 SER338 ILE339 PRO340 GLN341 SER342 ILE343 SER344 GLU345 THR346 THR347 GLY348 PRO349 ASN350 PHE351 SER352 HIS353 LEU354 GLY355 PHE356 GLY357 ALA358 HIS359 ASP360 HIS361 ASP362 LEU363 LEU364 LEU365 ASN366 PHE367 ASN368 ASN369 GLY370 GLY371 LEU372 PRO373 ILE374 GLY375 GLU376 ARG377 ILE378 ILE379 VAL380 ALA381 GLY382 ARG383 VAL384 VAL385 ASP386 GLN387 TYR388 GLY389 LYS390 PRO391 VAL392 PRO393 ASN394 THR395 LEU396 VAL397 GLU398 MET399 TRP400 GLN401 ALA402 ASN403 ALA404 GLY405 GLY406 ARG407 TYR408 ARG409 HIS410 LYS411 ASN412 ASP413 ARG414 TYR415 LEU416 ALA417 PRO418 LEU419 ASP420 PRO421 ASN422 PHE423 GLY424 GLY425 VAL426 GLY427 ARG428 CYS429 LEU430 THR431 ASP432 SER433 ASP434 GLY435 TYR436 TYR437 SER438 PHE439 ARG440 THR441 ILE442 LYS443 PRO444 GLY445 PRO446 TYR447 PRO448 TRP449 ARG450 ASN451 GLY452 PRO453 ASN454 ASP455 TRP456 ARG457 PRO458 ALA459 HIS460 ILE461 HIS462 PHE463 GLY464 ILE465 SER466 GLY467 PRO468 SER469 ILE470 ALA471 THR472 LYS473 LEU474 ILE475 THR476 GLN477 LEU478 TYR479 PHE480 GLU481 GLY482 ASP483 PRO484 LEU485 ILE486 PRO487 MET488 CYS489 PRO490 ILE491 VAL492 LYS493 SER494 ILE495 ALA496 ASN497 PRO498 GLU499 ALA500 VAL501 GLN502 GLN503 LEU504 ILE505 ALA506 LYS507 LEU508 ASP509 MET510 ASN511 ASN512 ALA513 ASN514 PRO515 MET516 ASP517 CYS518 LEU519 ALA520 TYR521 ARG522 PHE523 ASP524 ILE525 VAL526 LEU527 ARG528 GLY529 GLN530 ARG531 LYS532 THR533 HIS534 PHE535 GLU536
Unit 4 PRO1 ILE2 GLU3 LEU4 LEU5 PRO6 GLU7 THR8 PRO9 SER10 GLN11 THR12 ALA13 GLY14 PRO15 TYR16 VAL17 HIS18 ILE19 GLY20 LEU21 ALA22 LEU23 GLU24 ALA25 ALA26 GLY27 ASN28 PRO29 THR30 ARG31 ASP32 GLN33 GLU34 ILE35 TRP36 ASN37 ARG38 LEU39 ALA40 LYS41 PRO42 ASP43 ALA44 PRO45 GLY46 GLU47 HIS48 ILE49 LEU50 LEU51 LEU52 GLY53 GLN54 VAL55 TYR56 ASP57 GLY58 ASN59 GLY60 HIS61 LEU62 VAL63 ARG64 ASP65 SER66 PHE67 LEU68 GLU69 VAL70 TRP71 GLN72 ALA73 ASP74 ALA75 ASN76 GLY77 GLU78 TYR79 GLN80 ASP81 ALA82 TYR83 ASN84 LEU85 GLU86 ASN87 ALA88 PHE89 ASN90 SER91 PHE92 GLY93 ARG94 THR95 ALA96 THR97 THR98 PHE99 ASP100 ALA101 GLY102 GLU103 TRP104 THR105 LEU106 HIS107 THR108 VAL109 LYS110 PRO111 GLY112 VAL113 VAL114 ASN115 ASN116 ALA117 ALA118 GLY119 VAL120 PRO121 MET122 ALA123 PRO124 HIS125 ILE126 ASN127 ILE128 SER129 LEU130 PHE131 ALA132 ARG133 GLY134 ILE135 ASN136 ILE137 HIS138 LEU139 HIS140 THR141 ARG142 LEU143 TYR144 PHE145 ASP146 ASP147 GLU148 ALA149 GLN150 ALA151 ASN152 ALA153 LYS154 CYS155 PRO156 VAL157 LEU158 ASN159 LEU160 ILE161 GLU162 GLN163 PRO164 GLN165 ARG166 ARG167 GLU168 THR169 LEU170 ILE171 ALA172 LYS173 ARG174 CYS175 GLU176 VAL177 ASP178 GLY179 LYS180 THR181 ALA182 TYR183 ARG184 PHE185 ASP186 ILE187 ARG188 ILE189 GLN190 GLY191 GLU192 GLY193 GLU194 THR195 VAL196 PHE197 PHE198 ASP199 PHE200
Unit 5 PRO301 ALA302 GLN303 ASP304 ASN305 SER306 ARG307 PHE308 VAL309 ILE310 ARG311 ASP312 ARG313 ASN314 TRP315 HIS316 PRO317 LYS318 ALA319 LEU320 THR321 PRO322 ASP323 TYR324 LYS325 THR326 SER327 ILE328 ALA329 ARG330 SER331 PRO332 ARG333 GLN334 ALA335 LEU336 VAL337 SER338 ILE339 PRO340 GLN341 SER342 ILE343 SER344 GLU345 THR346 THR347 GLY348 PRO349 ASN350 PHE351 SER352 HIS353 LEU354 GLY355 PHE356 GLY357 ALA358 HIS359 ASP360 HIS361 ASP362 LEU363 LEU364 LEU365 ASN366 PHE367 ASN368 ASN369 GLY370 GLY371 LEU372 PRO373 ILE374 GLY375 GLU376 ARG377 ILE378 ILE379 VAL380 ALA381 GLY382 ARG383 VAL384 VAL385 ASP386 GLN387 TYR388 GLY389 LYS390 PRO391 VAL392 PRO393 ASN394 THR395 LEU396 VAL397 GLU398 MET399 TRP400 GLN401 ALA402 ASN403 ALA404 GLY405 GLY406 ARG407 TYR408 ARG409 HIS410 LYS411 ASN412 ASP413 ARG414 TYR415 LEU416 ALA417 PRO418 LEU419 ASP420 PRO421 ASN422 PHE423 GLY424 GLY425 VAL426 GLY427 ARG428 CYS429 LEU430 THR431 ASP432 SER433 ASP434 GLY435 TYR436 TYR437 SER438 PHE439 ARG440 THR441 ILE442 LYS443 PRO444 GLY445 PRO446 TYR447 PRO448 TRP449 ARG450 ASN451 GLY452 PRO453 ASN454 ASP455 TRP456 ARG457 PRO458 ALA459 HIS460 ILE461 HIS462 PHE463 GLY464 ILE465 SER466 GLY467 PRO468 SER469 ILE470 ALA471 THR472 LYS473 LEU474 ILE475 THR476 GLN477 LEU478 TYR479 PHE480 GLU481 GLY482 ASP483 PRO484 LEU485 ILE486 PRO487 MET488 CYS489 PRO490 ILE491 VAL492 LYS493 SER494 ILE495 ALA496 ASN497 PRO498 GLU499 ALA500 VAL501 GLN502 GLN503 LEU504 ILE505 ALA506 LYS507 LEU508 ASP509 MET510 ASN511 ASN512 ALA513 ASN514 PRO515 MET516 ASP517 CYS518 LEU519 ALA520 TYR521 ARG522 PHE523 ASP524 ILE525 VAL526 LEU527 ARG528 GLY529 GLN530 ARG531 LYS532 THR533 HIS534 PHE535 GLU536 ASN537 CYS538
Unit 6 PRO301 ALA302 GLN303 ASP304 ASN305 SER306 ARG307 PHE308 VAL309 ILE310 ARG311 ASP312 ARG313 ASN314 TRP315 HIS316 PRO317 LYS318 ALA319 LEU320 THR321 PRO322 ASP323 TYR324 LYS325 THR326 SER327 ILE328 ALA329 ARG330 SER331 PRO332 ARG333 GLN334 ALA335 LEU336 VAL337 SER338 ILE339 PRO340 GLN341 SER342 ILE343 SER344 GLU345 THR346 THR347 GLY348 PRO349 ASN350 PHE351 SER352 HIS353 LEU354 GLY355 PHE356 GLY357 ALA358 HIS359 ASP360 HIS361 ASP362 LEU363 LEU364 LEU365 ASN366 PHE367 ASN368 ASN369 GLY370 GLY371 LEU372 PRO373 ILE374 GLY375 GLU376 ARG377 ILE378 ILE379 VAL380 ALA381 GLY382 ARG383 VAL384 VAL385 ASP386 GLN387 TYR388 GLY389 LYS390 PRO391 VAL392 PRO393 ASN394 THR395 LEU396 VAL397 GLU398 MET399 TRP400 GLN401 ALA402 ASN403 ALA404 GLY405 GLY406 ARG407 TYR408 ARG409 HIS410 LYS411 ASN412 ASP413 ARG414 TYR415 LEU416 ALA417 PRO418 LEU419 ASP420 PRO421 ASN422 PHE423 GLY424 GLY425 VAL426 GLY427 ARG428 CYS429 LEU430 THR431 ASP432 SER433 ASP434 GLY435 TYR436 TYR437 SER438 PHE439 ARG440 THR441 ILE442 LYS443 PRO444 GLY445 PRO446 TYR447 PRO448 TRP449 ARG450 ASN451 GLY452 PRO453 ASN454 ASP455 TRP456 ARG457 PRO458 ALA459 HIS460 ILE461 HIS462 PHE463 GLY464 ILE465 SER466 GLY467 PRO468 SER469 ILE470 ALA471 THR472 LYS473 LEU474 ILE475 THR476 GLN477 LEU478 TYR479 PHE480 GLU481 GLY482 ASP483 PRO484 LEU485 ILE486 PRO487 MET488 CYS489 PRO490 ILE491 VAL492 LYS493 SER494 ILE495 ALA496 ASN497 PRO498 GLU499 ALA500 VAL501 GLN502 GLN503 LEU504 ILE505 ALA506 LYS507 LEU508 ASP509 MET510 ASN511 ASN512 ALA513 ASN514 PRO515 MET516 ASP517 CYS518 LEU519 ALA520 TYR521 ARG522 PHE523 ASP524 ILE525 VAL526 LEU527 ARG528 GLY529 GLN530 ARG531 LYS532 THR533 HIS534 PHE535 GLU536 ASN537 CYS538
Ligands
Unit 7 CL301 3N8302 CL303
Unit 8 3N8301
Unit 9 FE601 3N8602 3N8603 3N8604 BME605 BME606 BCT607 3N8608 BCT609 BME610
Unit 10 3N8301 BME302 CL303 SO4304
Unit 11 FE601 3N8602 3N8603 3N8604 3N8605 BME606 NA607 GOL608
Unit 12 FE601 3N8602 3N8603 3N8604 3N8605 BME606 3N8607 BME608 BME609 3N8610 BCT611 3N9612
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Perl script:    PDBscan.pl  (15 Sep 2016)
Author:    Peter Slickers  (slickers@leibniz-fli.de),  IMB Jena,  Germany