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Sequence, Chains, Asymmetric and Biological Units

Title MOUSE SEMAPHORIN 6A, EXTRACELLULAR DOMAINS 1-2
Keywords TRANSMEMBRANE, LIGAND, SEMA-DOMAIN, CELL-CELL SIGNALLING, PL SIGNALING PROTEIN
Experiment X-ray diffraction
Number of Models  1

   Database       ID code    StatusCoordinate files
        Header     Asymmetric unit     Biological unit  
PDB   3OKW     released     available     available     Quaternary Structure Server  
Asymmetric unit from PDB
 Unit     Type     Name   Chain ID   Residues   Atoms   Hetatoms 
1  Protein   SEMAPHORIN-6A  A 540 4295 0
2  Protein   SEMAPHORIN-6A  B 522 4148 0
3  Ligand    C 2 0 28
4  Ligand    D 2 0 28
5  Ligand    E 2 0 28
6  Ligand    F 2 0 28
7  Ligand    G 5 0 61
8  Ligand   SEMAPHORIN-6A  A 8 0 63
9  Ligand   SEMAPHORIN-6A  B 5 0 38
10 Water     278 0 278
total       1366 8443 552
Proteins
Unit 1 PHE20 PRO21 GLU22 ASP23 SER24 GLU25 PRO26 ILE27 SER28 ILE29 SER30 HIS31 GLY32 ASN33 TYR34 THR35 LYS36 GLN37 TYR38 PRO39 VAL40 PHE41 VAL42 GLY43 HIS44 LYS45 PRO46 GLY47 ARG48 THR51 GLN52 ARG53 HIS54 ARG55 LEU56 ASP57 ILE58 GLN59 MET60 ILE61 MET62 ILE63 MET64 ASN65 ARG66 THR67 LEU68 TYR69 VAL70 ALA71 ALA72 ARG73 ASP74 HIS75 ILE76 TYR77 THR78 VAL79 ASP80 ILE81 ASP82 THR83 SER84 HIS85 THR86 GLU87 GLU88 ILE89 TYR90 CYS91 SER92 LYS93 LYS94 LEU95 THR96 TRP97 LYS98 SER99 ARG100 GLN101 ALA102 ASP103 VAL104 ASP105 THR106 CYS107 ARG108 MET109 LYS110 GLY111 LYS112 HIS113 LYS114 ASP115 GLU116 CYS117 HIS118 ASN119 PHE120 ILE121 LYS122 VAL123 LEU124 LEU125 LYS126 LYS127 ASN128 ASP129 ASP130 THR131 LEU132 PHE133 VAL134 CYS135 GLY136 THR137 ASN138 ALA139 PHE140 ASN141 PRO142 SER143 CYS144 ARG145 ASN146 TYR147 ARG148 VAL149 ASP150 THR151 LEU152 GLU153 THR154 PHE155 GLY156 ASP157 GLU158 PHE159 SER160 GLY161 MET162 ALA163 ARG164 CYS165 PRO166 TYR167 ASP168 ALA169 LYS170 HIS171 ALA172 ASN173 ILE174 ALA175 LEU176 PHE177 ALA178 ASP179 GLY180 LYS181 LEU182 TYR183 SER184 ALA185 THR186 VAL187 THR188 ASP189 PHE190 LEU191 ALA192 ILE193 ASP194 ALA195 VAL196 ILE197 TYR198 ARG199 SER200 LEU201 GLY202 ASP203 SER204 PRO205 THR206 LEU207 ARG208 THR209 VAL210 LYS211 HIS212 ASP213 SER214 LYS215 TRP216 LEU217 LYS218 GLU219 PRO220 TYR221 PHE222 VAL223 GLN224 ALA225 VAL226 ASP227 TYR228 GLY229 ASP230 TYR231 ILE232 TYR233 PHE234 PHE235 PHE236 ARG237 GLU238 ILE239 ALA240 VAL241 GLU242 TYR243 ASN244 GLY247 LYS248 VAL249 VAL250 PHE251 PRO252 ARG253 VAL254 ALA255 GLN256 VAL257 CYS258 LYS259 ASN260 ASP261 MET262 GLY263 GLY264 SER265 GLN266 ARG267 VAL268 LEU269 GLU270 LYS271 GLN272 TRP273 THR274 SER275 PHE276 LEU277 LYS278 ALA279 ARG280 LEU281 ASN282 CYS283 SER284 VAL285 PRO286 GLY287 ASP288 SER289 HIS290 PHE291 TYR292 PHE293 ASN294 ILE295 LEU296 GLN297 ALA298 VAL299 THR300 ASP301 VAL302 ILE303 ARG304 ILE305 ASN306 GLY307 ARG308 ASP309 VAL310 VAL311 LEU312 ALA313 THR314 PHE315 SER316 THR317 PRO318 TYR319 ASN320 SER321 ILE322 PRO323 GLY324 SER325 ALA326 VAL327 CYS328 ALA329 TYR330 ASP331 MET332 LEU333 ASP334 ILE335 ALA336 ASN337 VAL338 PHE339 THR340 GLY341 ARG342 PHE343 LYS344 GLU345 GLN346 LYS347 SER348 PRO349 ASP350 SER351 THR352 TRP353 THR354 PRO355 VAL356 PRO357 ASP358 GLU359 ARG360 VAL361 PRO362 LYS363 PRO364 ARG365 PRO366 GLY367 CYS368 CYS369 ALA370 GLY371 SER372 SER373 SER374 LEU375 GLU376 LYS377 TYR378 ALA379 THR380 SER381 ASN382 GLU383 PHE384 PRO385 ASP386 ASP387 THR388 LEU389 ASN390 PHE391 ILE392 LYS393 THR394 HIS395 PRO396 LEU397 MET398 ASP399 GLU400 ALA401 VAL402 PRO403 SER404 ILE405 ILE406 ASN407 ARG408 PRO409 TRP410 PHE411 LEU412 ARG413 THR414 MET415 VAL416 ARG417 TYR418 ARG419 LEU420 THR421 LYS422 ILE423 ALA424 VAL425 ASP426 ASN427 ALA428 ALA429 GLY430 PRO431 TYR432 GLN433 ASN434 HIS435 THR436 VAL437 VAL438 PHE439 LEU440 GLY441 SER442 GLU443 LYS444 GLY445 ILE446 ILE447 LEU448 LYS449 PHE450 LEU451 ALA452 ARG453 ILE454 GLY455 SER456 LEU460 ASN461 GLY462 SER463 LEU464 PHE465 LEU466 GLU467 GLU468 MET469 ASN470 VAL471 TYR472 ASN473 PRO474 GLU475 LYS476 CYS477 SER478 TYR479 ASP480 GLY481 VAL482 GLU483 ASP484 LYS485 ARG486 ILE487 MET488 GLY489 MET490 GLN491 LEU492 ASP493 ARG494 ALA495 SER496 GLY497 SER498 LEU499 TYR500 VAL501 ALA502 PHE503 SER504 THR505 CYS506 VAL507 ILE508 LYS509 VAL510 PRO511 LEU512 GLY513 ARG514 CYS515 GLU516 ARG517 HIS518 GLY519 LYS520 CYS521 LYS522 LYS523 THR524 CYS525 ILE526 ALA527 SER528 ARG529 ASP530 PRO531 TYR532 CYS533 GLY534 TRP535 VAL536 ARG537 GLU538 SER539 GLY540 SER541 CYS542 ALA543 HIS544 LEU545 SER546 PRO547 ARG550 LEU551 THR552 PHE553 GLU554 GLN555 ASP556 ILE557 GLU558 ARG559 GLY560 ASN561 THR562 ASP563 GLY564 LEU565 GLY566 ASP567 CYS568
Unit 2 PHE20 PRO21 GLU22 ASP23 SER24 GLU25 PRO26 ILE27 SER28 ILE29 TYR34 THR35 LYS36 GLN37 TYR38 PRO39 VAL40 PHE41 VAL42 GLY43 HIS44 LYS45 PRO46 GLY47 ARG55 LEU56 ASP57 ILE58 GLN59 MET60 ILE61 MET62 ILE63 MET64 ASN65 ARG66 THR67 LEU68 TYR69 VAL70 ALA71 ALA72 ARG73 ASP74 HIS75 ILE76 TYR77 THR78 VAL79 ASP80 ILE81 ASP82 THR83 SER84 HIS85 THR86 GLU87 GLU88 ILE89 TYR90 CYS91 SER92 LYS93 LYS94 LEU95 THR96 TRP97 LYS98 SER99 ARG100 GLN101 ALA102 ASP103 VAL104 ASP105 THR106 CYS107 ARG108 MET109 LYS110 GLY111 LYS112 HIS113 LYS114 ASP115 GLU116 CYS117 HIS118 ASN119 PHE120 ILE121 LYS122 VAL123 LEU124 LEU125 LYS126 LYS127 ASN128 ASP129 ASP130 THR131 LEU132 PHE133 VAL134 CYS135 GLY136 THR137 ASN138 ALA139 PHE140 ASN141 PRO142 SER143 CYS144 ARG145 ASN146 TYR147 ARG148 VAL149 ASP150 THR151 LEU152 GLU153 THR154 PHE155 GLY156 ASP157 GLU158 PHE159 SER160 GLY161 MET162 ALA163 ARG164 CYS165 PRO166 TYR167 ASP168 ALA169 LYS170 HIS171 ALA172 ASN173 ILE174 ALA175 LEU176 PHE177 ALA178 ASP179 GLY180 LYS181 LEU182 TYR183 SER184 ALA185 THR186 VAL187 THR188 ASP189 PHE190 LEU191 ALA192 ILE193 ASP194 ALA195 VAL196 ILE197 TYR198 ARG199 SER200 LEU201 GLY202 ASP203 SER204 PRO205 THR206 LEU207 ARG208 THR209 VAL210 LYS211 HIS212 ASP213 SER214 LYS215 TRP216 LEU217 LYS218 GLU219 PRO220 TYR221 PHE222 VAL223 GLN224 ALA225 VAL226 ASP227 TYR228 GLY229 ASP230 TYR231 ILE232 TYR233 PHE234 PHE235 PHE236 ARG237 GLU238 ILE239 ALA240 VAL241 GLU242 TYR243 ASN244 GLY247 LYS248 VAL249 VAL250 PHE251 PRO252 ARG253 VAL254 ALA255 GLN256 VAL257 CYS258 LYS259 ASN260 ASP261 MET262 GLY263 GLY264 SER265 GLN266 ARG267 VAL268 LEU269 GLU270 LYS271 GLN272 TRP273 THR274 SER275 PHE276 LEU277 LYS278 ALA279 ARG280 LEU281 ASN282 CYS283 SER284 VAL285 PRO286 GLY287 ASP288 SER289 HIS290 PHE291 TYR292 PHE293 ASN294 ILE295 LEU296 GLN297 ALA298 VAL299 THR300 ASP301 VAL302 ILE303 ARG304 ILE305 ASN306 GLY307 ARG308 ASP309 VAL310 VAL311 LEU312 ALA313 THR314 PHE315 SER316 THR317 PRO318 TYR319 ASN320 SER321 ILE322 PRO323 GLY324 SER325 ALA326 VAL327 CYS328 ALA329 TYR330 ASP331 MET332 LEU333 ASP334 ILE335 ALA336 ASN337 VAL338 PHE339 THR340 GLY341 ARG342 PHE343 LYS344 GLU345 GLN346 LYS347 SER348 PRO349 ASP350 SER351 THR352 TRP353 THR354 PRO355 VAL356 PRO357 ASP358 GLU359 ARG360 VAL361 PRO362 LYS363 PRO364 ARG365 PRO366 GLY367 CYS368 CYS369 ALA370 GLY371 SER372 SER373 SER374 LEU375 GLU376 LYS377 TYR378 ALA379 THR380 SER381 ASN382 GLU383 PHE384 PRO385 ASP386 ASP387 THR388 LEU389 ASN390 PHE391 ILE392 LYS393 THR394 HIS395 PRO396 LEU397 MET398 ASP399 GLU400 ALA401 VAL402 PRO403 SER404 ILE405 ILE406 ASN407 ARG408 PRO409 TRP410 PHE411 LEU412 ARG413 THR414 MET415 VAL416 ARG417 TYR418 ARG419 LEU420 THR421 LYS422 ILE423 ALA424 VAL425 ASP426 ASN427 ALA428 ALA429 GLY430 PRO431 TYR432 GLN433 ASN434 HIS435 THR436 VAL437 VAL438 PHE439 LEU440 GLY441 SER442 GLU443 LYS444 GLY445 ILE446 ILE447 LEU448 LYS449 PHE450 LEU451 ALA452 ARG453 ILE454 GLY455 SER456 LEU460 ASN461 GLY462 SER463 LEU464 PHE465 LEU466 GLU467 GLU468 MET469 ASN470 VAL471 TYR472 ASN473 PRO474 GLU475 LYS476 CYS477 SER478 TYR479 ASP480 GLY481 VAL482 GLU483 ASP484 LYS485 ARG486 ILE487 MET488 GLY489 MET490 GLN491 LEU492 ASP493 ARG494 ALA495 SER496 GLY497 SER498 LEU499 TYR500 VAL501 ALA502 PHE503 SER504 THR505 CYS506 VAL507 ILE508 LYS509 VAL510 PRO511 LEU512 GLY513 ARG514 CYS515 GLU516 ARG517 HIS518 CYS521 LYS522 LYS523 THR524 CYS525 ILE526 ALA527 SER528 ARG529 ASP530 PRO531 TYR532 CYS533 GLY534 TRP535 VAL536 ARG537 GLU538 SER539 GLY540 SER541 CYS542 ALA543 HIS544 GLU554 GLN555 ASP556 ILE557 GLU558 ARG559 GLY560 ASN561 THR562 ASP563 GLY564 LEU565 GLY566 ASP567 CYS568
Ligands
Unit 3 NAG1 NAG2
Unit 4 NAG1 NAG2
Unit 5 NAG1 NAG2
Unit 6 NAG1 NAG2
Unit 7 NAG1 NAG2 BMA3 MAN4 MAN5
Unit 8 NAG1065 CIT2001 GOL2002 GOL2003 GOL2004 GOL2005 GOL2006 GOL2007
Unit 9 NAG1434 GOL2016 GOL2017 GOL2018 GOL2019
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Perl script:    PDBscan.pl  (15 Sep 2016)
Author:    Peter Slickers  (slickers@leibniz-fli.de),  IMB Jena,  Germany