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| Title | STRUCTURAL AND BIOCHEMICAL EVIDENCE FOR A BOAT-LIKE TRANSITION STATE IN BETA-MANNOSIDASES | |
| Keywords | GLYCOSIDE, HYDROLASE, MANNOSIDASE, TRANSITION STATE MIMIC, LINEAR FREE ENERGY RELATIONSHIP | |
| Experiment | X-ray diffraction | |
| Number of Models | 1 |
| Database | ID code | Status | Coordinate files | ||
| Header | Asymmetric unit | Biological unit | |||
| PDB | 2VO5 | released | available | available | Quaternary Structure Server |
| Unit | Type | Name | Chain ID | Residues | Atoms | Hetatoms |
|---|---|---|---|---|---|---|
| 1 | Protein | BETA-MANNOSIDASE | A | 833 | 6759 | 0 |
| 2 | Protein | BETA-MANNOSIDASE | B | 841 | 6812 | 0 |
| 3 | Ligand | BETA-MANNOSIDASE | A | 22 | 0 | 83 |
| 4 | Ligand | BETA-MANNOSIDASE | B | 28 | 0 | 104 |
| 5 | Water | 949 | 0 | 949 | ||
| total | 2673 | 13571 | 1136 |
| Unit 1 | ASN28 ASP29 THR30 SER31 GLU32 VAL33 MET34 LEU35 LEU36 ASP37 THR38 GLY39 TRP40 GLU41 PHE42 SER43 GLN44 SER45 GLY46 THR47 GLU48 LYS49 TRP50 MET51 PRO52 ALA53 THR54 VAL55 PRO56 GLY57 THR58 VAL59 HIS60 GLN61 ASP62 LEU63 ILE64 SER65 HIS66 GLU67 LEU68 LEU69 PRO70 ASN71 PRO72 PHE73 TYR74 GLY75 MET76 ASN77 GLU78 LYS79 LYS80 ILE81 GLN82 TRP83 VAL84 GLU85 ASN86 GLU87 ASP88 TRP89 GLU90 TYR91 ARG92 THR93 SER94 PHE95 ILE96 VAL97 SER98 GLU99 GLU100 GLN101 LEU102 ASN103 ARG104 ASP105 GLY106 ILE107 GLN108 LEU109 ILE110 PHE111 GLU112 GLY113 LEU114 ASP115 THR116 TYR117 ALA118 ASP119 VAL120 TYR121 LEU122 ASN123 GLY124 SER125 LEU126 LEU127 LEU128 LYS129 ALA130 ASP131 ASN132 MET133 PHE134 VAL135 GLY136 TYR137 THR138 LEU139 PRO140 VAL141 LYS142 SER143 VAL144 LEU145 ARG146 LYS147 GLY148 GLU149 ASN150 HIS151 LEU152 TYR153 ILE154 TYR155 PHE156 HIS157 SER158 PRO159 ILE160 ARG161 GLN162 THR163 LEU164 PRO165 GLN166 TYR167 ALA168 SER169 ASN170 GLY171 PHE172 ASN173 TYR174 PRO175 ALA176 ASP177 ASN178 ASP179 HIS180 HIS181 GLU182 LYS183 HIS184 LEU185 SER186 VAL187 PHE188 SER189 ARG190 LYS191 ALA192 PRO193 TYR194 SER195 TYR196 GLY197 TRP198 ASP199 TRP200 GLY201 ILE202 ARG203 MET204 VAL205 THR206 SER207 GLY208 VAL209 TRP210 ARG211 PRO212 VAL213 THR214 LEU215 ARG216 PHE217 TYR218 ASP219 ILE220 ALA221 THR222 ILE223 SER224 ASP225 TYR226 TYR227 VAL228 ARG229 GLN230 LEU231 SER232 LEU233 THR234 ASP235 GLU236 ASN237 ALA238 ARG239 LEU240 SER241 ASN242 GLU243 LEU244 ILE245 VAL246 ASN247 GLN248 ILE249 VAL250 PRO251 GLN252 LYS253 ILE254 PRO255 ALA256 GLU257 VAL258 ARG259 VAL260 ASN261 VAL262 SER263 LEU264 ASN265 GLY266 THR267 THR268 VAL269 THR270 GLU271 VAL272 LYS273 GLN274 GLN275 VAL276 THR277 LEU278 GLN279 PRO280 GLY281 ILE282 ASN283 HIS284 ILE285 THR286 LEU287 PRO288 ALA289 GLU290 VAL291 THR292 ASN293 PRO294 VAL295 ARG296 TRP297 MET298 PRO299 ASN300 GLY301 TRP302 GLY303 THR304 PRO305 THR306 LEU307 TYR308 ASP309 PHE310 SER311 ALA312 GLN313 ILE314 ALA315 CYS316 GLY317 ASP318 ARG319 ILE320 VAL321 ALA322 GLU323 GLN324 SER325 HIS326 ARG327 ILE328 GLY329 LEU330 ARG331 THR332 ILE333 ARG334 VAL335 VAL336 ASN337 GLU338 LYS339 ASP340 LYS341 ASP342 GLY343 GLU344 SER345 PHE346 TYR347 PHE348 GLU349 VAL350 ASN351 GLY352 ILE353 PRO354 MET355 PHE356 ALA357 LYS358 GLY359 ALA360 ASN361 TYR362 ILE363 PRO364 GLN365 ASP366 ALA367 LEU368 LEU369 PRO370 ASN371 VAL372 THR373 THR374 GLU375 ARG376 TYR377 GLN378 THR379 LEU380 PHE381 ARG382 ASP383 MET384 LYS385 GLU386 ALA387 ASN388 MET389 ASN390 MET391 VAL392 ARG393 ILE394 TRP395 GLY396 GLY397 GLY398 THR399 TYR400 GLU401 ASN402 ASN403 LEU404 PHE405 TYR406 ASP407 LEU408 ALA409 ASP410 GLU411 ASN412 GLY413 ILE414 LEU415 VAL416 TRP417 GLN418 ASP419 PHE420 MET421 PHE422 ALA423 CYS424 THR425 PRO426 TYR427 PRO428 SER429 ASP430 PRO431 THR432 PHE433 LEU434 LYS435 ARG436 VAL437 GLU438 ALA439 GLU440 ALA441 VAL442 TYR443 ASN444 ILE445 ARG446 ARG447 LEU448 ARG449 ASN450 HIS451 ALA452 SER453 LEU454 ALA455 MET456 TRP457 CYS458 GLY459 ASN460 ASN461 GLU462 ILE463 LEU464 GLU465 ALA466 LEU467 LYS468 TYR469 TRP470 GLY471 PHE472 GLU473 LYS474 LYS475 PHE476 THR477 PRO478 GLU479 VAL480 TYR481 GLN482 GLY483 LEU484 MET485 HIS486 GLY487 TYR488 ASP489 LYS490 LEU491 PHE492 ARG493 GLU494 LEU495 LEU496 PRO497 SER498 THR499 VAL500 LYS501 GLU502 PHE503 ASP504 SER505 ASP506 ARG507 PHE508 TYR509 VAL510 HIS511 SER512 SER513 PRO514 TYR515 LEU516 ALA517 ASN518 TRP519 GLY520 ARG521 PRO522 GLU523 SER524 TRP525 GLY526 THR527 GLY528 ASP529 SER530 HIS531 ASN532 TRP533 GLY534 VAL535 TRP536 TYR537 GLY538 LYS539 LYS540 PRO541 PHE542 GLU543 SER544 LEU545 ASP546 THR547 ASP548 LEU549 PRO550 ARG551 PHE552 MET553 SER554 GLU555 PHE556 GLY557 PHE558 GLN559 SER560 PHE561 PRO562 GLU563 MET564 LYS565 THR566 ILE567 ALA568 ALA569 PHE570 ALA571 ALA572 PRO573 GLU574 ASP575 TYR576 GLN577 ILE578 GLU579 SER580 GLU581 VAL582 MET583 ASN584 ALA585 HIS586 GLN587 LYS588 SER589 SER590 ILE591 GLY592 ASN593 SER594 LEU595 ILE596 ARG597 THR598 TYR599 MET600 GLU601 ARG602 ASP603 TYR604 ILE605 ILE606 PRO607 GLU608 SER609 PHE610 GLU611 ASP612 PHE613 VAL614 TYR615 VAL616 GLY617 LEU618 VAL619 LEU620 GLN621 GLY622 GLN623 GLY624 MET625 ARG626 HIS627 GLY628 LEU629 GLU630 ALA631 HIS632 ARG633 ARG634 ASN635 ARG636 PRO637 TYR638 CYS639 MET640 GLY641 THR642 LEU643 TYR644 TRP645 GLN646 LEU647 ASN648 ASP649 SER650 TRP651 PRO652 VAL653 VAL654 SER655 TRP656 SER657 SER658 ILE659 ASP660 TYR661 TYR662 GLY663 ASN664 TRP665 LYS666 ALA667 LEU668 HIS669 TYR670 GLN671 ALA672 LYS673 ARG674 ALA675 PHE676 ALA677 PRO678 VAL679 LEU680 ILE681 ASN682 PRO683 ILE684 GLN685 GLN686 ASN687 ASP688 SER689 LEU690 SER691 VAL692 TYR693 LEU694 ILE695 SER696 ASP697 ARG698 LEU699 ASP700 THR701 MET702 GLU703 GLN704 MET705 THR706 LEU707 GLU708 MET709 LYS710 VAL711 VAL712 ASP713 PHE714 ASP715 GLY716 LYS717 THR718 LEU719 GLY720 LYS721 LYS722 ILE723 GLN724 VAL725 HIS726 SER727 LEU728 GLU729 VAL730 PRO731 ALA732 ASN733 THR734 SER735 LYS736 CYS737 VAL738 TYR739 ARG740 ALA741 LYS742 LEU743 ASP744 GLY745 TRP746 LEU747 THR748 PRO749 GLU750 ASP751 CYS752 ARG753 ARG754 SER755 PHE756 LEU757 LYS758 LEU759 ILE760 LEU761 LYS762 ASP763 LYS764 SER765 GLY766 HIS767 GLN768 VAL769 ALA770 GLU771 SER772 VAL773 HIS774 PHE775 PHE776 ARG777 LYS778 THR779 LYS780 ASP781 LEU782 GLN783 LEU784 PRO785 PRO786 THR787 SER788 VAL789 SER790 TYR791 GLN792 MET793 LYS794 GLN795 THR796 ASP797 GLY798 LYS799 CYS800 GLU801 LEU802 THR803 LEU804 PHE805 SER806 SER807 MET808 LEU809 ALA810 LYS811 ASP812 ILE813 PHE814 ILE815 GLU816 THR817 PRO818 LEU819 GLN820 GLY821 ALA822 ARG823 TYR824 SER825 ASP826 ASN827 PHE828 PHE829 ASP830 LEU831 LEU832 PRO833 GLY834 GLU835 ARG836 LYS837 LYS838 VAL839 ILE840 ILE841 THR842 SER843 PRO844 ARG845 ILE846 LYS847 LEU852 PRO853 VAL854 ASN855 ILE856 LYS857 HIS858 ILE859 ARG860 GLU861 THR862 TYR863 LYS864 |
| Unit 2 | GLY27 ASN28 ASP29 THR30 SER31 GLU32 VAL33 MET34 LEU35 LEU36 ASP37 THR38 GLY39 TRP40 GLU41 PHE42 SER43 GLN44 SER45 GLY46 THR47 GLU48 LYS49 TRP50 MET51 PRO52 ALA53 THR54 VAL55 PRO56 GLY57 THR58 VAL59 HIS60 GLN61 ASP62 LEU63 ILE64 SER65 HIS66 GLU67 LEU68 LEU69 PRO70 ASN71 PRO72 PHE73 TYR74 GLY75 MET76 ASN77 GLU78 LYS79 LYS80 ILE81 GLN82 TRP83 VAL84 GLU85 ASN86 GLU87 ASP88 TRP89 GLU90 TYR91 ARG92 THR93 SER94 PHE95 ILE96 VAL97 SER98 GLU99 GLU100 GLN101 LEU102 ASN103 ARG104 ASP105 GLY106 ILE107 GLN108 LEU109 ILE110 PHE111 GLU112 GLY113 LEU114 ASP115 THR116 TYR117 ALA118 ASP119 VAL120 TYR121 LEU122 ASN123 GLY124 SER125 LEU126 LEU127 LEU128 LYS129 ALA130 ASP131 ASN132 MET133 PHE134 VAL135 GLY136 TYR137 THR138 LEU139 PRO140 VAL141 LYS142 SER143 VAL144 LEU145 ARG146 LYS147 GLY148 GLU149 ASN150 HIS151 LEU152 TYR153 ILE154 TYR155 PHE156 HIS157 SER158 PRO159 ILE160 ARG161 GLN162 THR163 LEU164 PRO165 GLN166 TYR167 ALA168 SER169 ASN170 GLY171 PHE172 ASN173 TYR174 PRO175 ALA176 ASP177 ASN178 ASP179 HIS180 HIS181 GLU182 LYS183 HIS184 LEU185 SER186 VAL187 PHE188 SER189 ARG190 LYS191 ALA192 PRO193 TYR194 SER195 TYR196 GLY197 TRP198 ASP199 TRP200 GLY201 ILE202 ARG203 MET204 VAL205 THR206 SER207 GLY208 VAL209 TRP210 ARG211 PRO212 VAL213 THR214 LEU215 ARG216 PHE217 TYR218 ASP219 ILE220 ALA221 THR222 ILE223 SER224 ASP225 TYR226 TYR227 VAL228 ARG229 GLN230 LEU231 SER232 LEU233 THR234 ASP235 GLU236 ASN237 ALA238 ARG239 LEU240 SER241 ASN242 GLU243 LEU244 ILE245 VAL246 ASN247 GLN248 ILE249 VAL250 PRO251 GLN252 LYS253 ILE254 PRO255 ALA256 GLU257 VAL258 ARG259 VAL260 ASN261 VAL262 SER263 LEU264 ASN265 GLY266 THR267 THR268 VAL269 THR270 GLU271 VAL272 LYS273 GLN274 GLN275 VAL276 THR277 LEU278 GLN279 PRO280 GLY281 ILE282 ASN283 HIS284 ILE285 THR286 LEU287 PRO288 ALA289 GLU290 VAL291 THR292 ASN293 PRO294 VAL295 ARG296 TRP297 MET298 PRO299 ASN300 GLY301 TRP302 GLY303 THR304 PRO305 THR306 LEU307 TYR308 ASP309 PHE310 SER311 ALA312 GLN313 ILE314 ALA315 CYS316 GLY317 ASP318 ARG319 ILE320 VAL321 ALA322 GLU323 GLN324 SER325 HIS326 ARG327 ILE328 GLY329 LEU330 ARG331 THR332 ILE333 ARG334 VAL335 VAL336 ASN337 GLU338 LYS339 ASP340 LYS341 ASP342 GLY343 GLU344 SER345 PHE346 TYR347 PHE348 GLU349 VAL350 ASN351 GLY352 ILE353 PRO354 MET355 PHE356 ALA357 LYS358 GLY359 ALA360 ASN361 TYR362 ILE363 PRO364 GLN365 ASP366 ALA367 LEU368 LEU369 PRO370 ASN371 VAL372 THR373 THR374 GLU375 ARG376 TYR377 GLN378 THR379 LEU380 PHE381 ARG382 ASP383 MET384 LYS385 GLU386 ALA387 ASN388 MET389 ASN390 MET391 VAL392 ARG393 ILE394 TRP395 GLY396 GLY397 GLY398 THR399 TYR400 GLU401 ASN402 ASN403 LEU404 PHE405 TYR406 ASP407 LEU408 ALA409 ASP410 GLU411 ASN412 GLY413 ILE414 LEU415 VAL416 TRP417 GLN418 ASP419 PHE420 MET421 PHE422 ALA423 CYS424 THR425 PRO426 TYR427 PRO428 SER429 ASP430 PRO431 THR432 PHE433 LEU434 LYS435 ARG436 VAL437 GLU438 ALA439 GLU440 ALA441 VAL442 TYR443 ASN444 ILE445 ARG446 ARG447 LEU448 ARG449 ASN450 HIS451 ALA452 SER453 LEU454 ALA455 MET456 TRP457 CYS458 GLY459 ASN460 ASN461 GLU462 ILE463 LEU464 GLU465 ALA466 LEU467 LYS468 TYR469 TRP470 GLY471 PHE472 GLU473 LYS474 LYS475 PHE476 THR477 PRO478 GLU479 VAL480 TYR481 GLN482 GLY483 LEU484 MET485 HIS486 GLY487 TYR488 ASP489 LYS490 LEU491 PHE492 ARG493 GLU494 LEU495 LEU496 PRO497 SER498 THR499 VAL500 LYS501 GLU502 PHE503 ASP504 SER505 ASP506 ARG507 PHE508 TYR509 VAL510 HIS511 SER512 SER513 PRO514 TYR515 LEU516 ALA517 ASN518 TRP519 GLY520 ARG521 PRO522 GLU523 SER524 TRP525 GLY526 THR527 GLY528 ASP529 SER530 HIS531 ASN532 TRP533 GLY534 VAL535 TRP536 TYR537 GLY538 LYS539 LYS540 PRO541 PHE542 GLU543 SER544 LEU545 ASP546 THR547 ASP548 LEU549 PRO550 ARG551 PHE552 MET553 SER554 GLU555 PHE556 GLY557 PHE558 GLN559 SER560 PHE561 PRO562 GLU563 MET564 LYS565 THR566 ILE567 ALA568 ALA569 PHE570 ALA571 ALA572 PRO573 GLU574 ASP575 TYR576 GLN577 ILE578 GLU579 SER580 GLU581 VAL582 MET583 ASN584 ALA585 HIS586 GLN587 LYS588 SER589 SER590 ILE591 GLY592 ASN593 SER594 LEU595 ILE596 ARG597 THR598 TYR599 MET600 GLU601 ARG602 ASP603 TYR604 ILE605 ILE606 PRO607 GLU608 SER609 PHE610 GLU611 ASP612 PHE613 VAL614 TYR615 VAL616 GLY617 LEU618 VAL619 LEU620 GLN621 GLY622 GLN623 GLY624 MET625 ARG626 HIS627 GLY628 LEU629 GLU630 ALA631 HIS632 ARG633 ARG634 ASN635 ARG636 PRO637 TYR638 CYS639 MET640 GLY641 THR642 LEU643 TYR644 TRP645 GLN646 LEU647 ASN648 ASP649 SER650 TRP651 PRO652 VAL653 VAL654 SER655 TRP656 SER657 SER658 ILE659 ASP660 TYR661 TYR662 GLY663 ASN664 TRP665 LYS666 ALA667 LEU668 HIS669 TYR670 GLN671 ALA672 LYS673 ARG674 ALA675 PHE676 ALA677 PRO678 VAL679 LEU680 ILE681 ASN682 PRO683 ILE684 GLN685 GLN686 ASN687 ASP688 SER689 LEU690 SER691 VAL692 TYR693 LEU694 ILE695 SER696 ASP697 ARG698 LEU699 ASP700 THR701 MET702 GLU703 GLN704 MET705 THR706 LEU707 GLU708 MET709 LYS710 VAL711 VAL712 ASP713 PHE714 ASP715 GLY716 LYS717 THR718 LEU719 GLY720 LYS721 LYS722 ILE723 GLN724 VAL725 HIS726 SER727 LEU728 GLU729 VAL730 PRO731 ALA732 ASN733 THR734 SER735 LYS736 CYS737 VAL738 TYR739 ARG740 ALA741 LYS742 LEU743 ASP744 GLY745 TRP746 LEU747 THR748 PRO749 GLU750 ASP751 CYS752 ARG753 ARG754 SER755 PHE756 LEU757 LYS758 LEU759 ILE760 LEU761 LYS762 ASP763 LYS764 SER765 GLY766 HIS767 GLN768 VAL769 ALA770 GLU771 SER772 VAL773 HIS774 PHE775 PHE776 ARG777 LYS778 THR779 LYS780 ASP781 LEU782 GLN783 LEU784 PRO785 PRO786 THR787 SER788 VAL789 SER790 TYR791 GLN792 MET793 LYS794 GLN795 THR796 ASP797 GLY798 LYS799 CYS800 GLU801 LEU802 THR803 LEU804 PHE805 SER806 SER807 MET808 LEU809 ALA810 LYS811 ASP812 ILE813 PHE814 ILE815 GLU816 THR817 PRO818 LEU819 GLN820 GLY821 ALA822 ARG823 TYR824 SER825 ASP826 ASN827 PHE828 PHE829 ASP830 LEU831 LEU832 PRO833 GLY834 GLU835 ARG836 LYS837 LYS838 VAL839 ILE840 ILE841 THR842 SER843 PRO844 ARG845 ILE846 LYS847 LYS848 GLY849 GLU850 GLU851 LEU852 PRO853 VAL854 ASN855 ILE856 LYS857 HIS858 ILE859 ARG860 GLU861 THR862 TYR863 LYS864 GLU865 HIS866 HIS867 |
| Unit 3 | VBZ1865 EDO1866 EDO1867 EDO1868 EDO1869 EDO1870 EDO1871 EDO1872 EDO1873 BR1874 BR1875 CL1876 CL1877 EDO1878 EDO1879 EDO1880 EDO1881 BR1882 EDO1883 BR1884 EDO1885 BR1895 |
| Unit 4 | VBZ1868 EDO1869 EDO1870 EDO1871 EDO1872 EDO1873 EDO1874 EDO1875 EDO1876 EDO1877 EDO1878 EDO1879 EDO1880 EDO1881 EDO1882 EDO1883 BR1884 BR1885 CL1886 CL1887 CL1888 EDO1889 EDO1890 EDO1891 EDO1892 BR1893 BR1895 CL1896 |
| Perl script: | PDBscan.pl (15 Sep 2016) |
| Author: | Peter Slickers (slickers@leibniz-fli.de), IMB Jena, Germany |