Mercurial > repos > tduigou > rptools_rpfba

comparison test-data/lycopene_CrtEBI_from_selenzy.xml @ 0:21349603013a draft

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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/rptools commit 3bc34bfc82850daa2229724c396dcd9454039273-dirty
author tduigou
date Wed, 16 Nov 2022 11:13:10 +0000
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-1:000000000000 0:21349603013a
1 <?xml version="1.0" encoding="UTF-8"?>
2 <sbml xmlns="http://www.sbml.org/sbml/level3/version1/core" xmlns:groups="http://www.sbml.org/sbml/level3/version1/groups/version1" xmlns:fbc="http://www.sbml.org/sbml/level3/version1/fbc/version2" level="3" version="1" groups:required="false" fbc:required="false">
3 <model metaid="f9b1ff022aa2133fc1e5e5d1fbac90ac29a744e960a2774be646bc71471ed597" id="RP_model_002_0001" name="002_0001" substanceUnits="mole" timeUnits="second" extentUnits="mole" fbc:strict="true">
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266 <brsynth:rp2_transfo_id value="TRS_0_1_9"/>
267 <brsynth:rule_ids>
268 <brsynth:RR-02-b25156a335e3e30f-16-F/>
269 </brsynth:rule_ids>
270 <brsynth:tmpl_rxn_ids>
271 <brsynth:MNXR111250/>
272 <brsynth:MNXR111499/>
273 <brsynth:MNXR113543/>
274 <brsynth:MNXR118024/>
275 <brsynth:MNXR139549/>
276 </brsynth:tmpl_rxn_ids>
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278 <brsynth:idx_in_path value="2"/>
279 <brsynth:selenzy_P21683>
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281 <brsynth:target_ID value="553"/>
282 </brsynth:selenzy_P21683>
283 <brsynth:selenzy_P21684>
284 <brsynth:score value="74.885"/>
285 <brsynth:target_ID value="553"/>
286 </brsynth:selenzy_P21684>
287 <brsynth:fba_biomass>
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289 <brsynth:units value="gDW / gDW / hour"/>
290 </brsynth:fba_biomass>
291 <brsynth:fba_fraction>
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293 <brsynth:units value="milimole / gDW / hour"/>
294 </brsynth:fba_fraction>
295 <brsynth:thermo_dG0_prime>
296 <brsynth:value value="-119.13360567395966"/>
297 <brsynth:error value="11.000567449695142"/>
298 <brsynth:units value="kilojoule / mole"/>
299 </brsynth:thermo_dG0_prime>
300 <brsynth:thermo_dGm_prime>
301 <brsynth:value value="-153.36328074340173"/>
302 <brsynth:error value="11.000567449695142"/>
303 <brsynth:units value="kilojoule / mole"/>
304 </brsynth:thermo_dGm_prime>
305 <brsynth:thermo_dG_prime>
306 <brsynth:value value="-119.13360567395966"/>
307 <brsynth:error value="11.000567449695142"/>
308 <brsynth:units value="kilojoule / mole"/>
309 </brsynth:thermo_dG_prime>
310 <brsynth:thermo_dG>
311 <brsynth:value value="-1501.0650763644926"/>
312 <brsynth:error value="11.000567449695142"/>
313 <brsynth:units value="kilojoule / mole"/>
314 </brsynth:thermo_dG>
315 </brsynth:brsynth>
316 </rdf:BRSynth>
317 </rdf:RDF>
318 </annotation>
319 <listOfReactants>
320 <speciesReference species="CMPD_0000000003" stoichiometry="1" constant="true"/>
321 </listOfReactants>
322 <listOfProducts>
323 <speciesReference species="CMPD_0000000001" stoichiometry="1" constant="true"/>
324 <speciesReference species="MNXM11" stoichiometry="2" constant="true"/>
325 </listOfProducts>
326 </reaction>
327 <reaction metaid="_376841fa42ba139764a5509b9d817e2e540d0e228582c970025c73ae1ee77c0d" sboTerm="SBO:0000176" id="rxn_3" reversible="false" fast="false" fbc:lowerFluxBound="BRS_FBC_0_0" fbc:upperFluxBound="BRS_FBC_10000_0">
328 <annotation>
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331 <bqbiol:is>
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334 <rdf:li rdf:resource="http://identifiers.org/uniprot/P21685"/>
335 <rdf:li rdf:resource="http://identifiers.org/ec-code/1.3.99.31"/>
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351 <brsynth:selenzy_P21685>
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355 <brsynth:selenzy_P21683>
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358 </brsynth:selenzy_P21683>
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365 <brsynth:units value="milimole / gDW / hour"/>
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370 <brsynth:units value="kilojoule / mole"/>
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372 <brsynth:thermo_dGm_prime>
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374 <brsynth:error value="44.93683979991009"/>
375 <brsynth:units value="kilojoule / mole"/>
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379 <brsynth:error value="44.93683979991009"/>
380 <brsynth:units value="kilojoule / mole"/>
381 </brsynth:thermo_dG_prime>
382 <brsynth:thermo_dG>
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384 <brsynth:error value="44.93683979991009"/>
385 <brsynth:units value="kilojoule / mole"/>
386 </brsynth:thermo_dG>
387 </brsynth:brsynth>
388 </rdf:BRSynth>
389 </rdf:RDF>
390 </annotation>
391 <listOfReactants>
392 <speciesReference species="CMPD_0000000001" stoichiometry="1" constant="true"/>
393 <speciesReference species="MNXM8975" stoichiometry="4" constant="true"/>
394 </listOfReactants>
395 <listOfProducts>
396 <speciesReference species="MNXM24" stoichiometry="4" constant="true"/>
397 <speciesReference species="TARGET_0000000001" stoichiometry="1" constant="true"/>
398 </listOfProducts>
399 </reaction>
400 </listOfReactions>
401 <groups:listOfGroups>
402 <groups:group metaid="_93eef40c447d295fa61df9270c5fd909ec2ba7ee9883090552c0466873cd4299" groups:id="rp_pathway" groups:kind="collection">
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411 <brsynth:fba_fraction>
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413 <brsynth:units value="milimole / gDW / hour"/>
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418 <brsynth:units value="kilojoule / mole"/>
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427 <brsynth:error value="47.748437579463356"/>
428 <brsynth:units value="kilojoule / mole"/>
429 </brsynth:thermo_dG_prime>
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432 <brsynth:error value="47.748437579463356"/>
433 <brsynth:units value="kilojoule / mole"/>
434 </brsynth:thermo_dG>
435 <brsynth:global_score value="0.9892438888549804"/>
436 </brsynth:brsynth>
437 </rdf:BRSynth>
438 </rdf:RDF>
439 </annotation>
440 <groups:listOfMembers>
441 <groups:member groups:idRef="rxn_1"/>
442 <groups:member groups:idRef="rxn_2"/>
443 <groups:member groups:idRef="rxn_3"/>
444 </groups:listOfMembers>
445 </groups:group>
446 <groups:group metaid="_613b064337553014ede418c67180137a4561ff11b13f3bfa1a2765ef37ac375a" groups:id="rp_intermediate_species" groups:kind="collection">
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452 </rdf:RDF>
453 </annotation>
454 <groups:listOfMembers>
455 <groups:member groups:idRef="CMPD_0000000001"/>
456 <groups:member groups:idRef="CMPD_0000000003"/>
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458 </groups:group>
459 <groups:group metaid="_564fce39b23c6cf87d12dc2c612448384fd2cd980fe3fc07829e2ef802645579" groups:id="rp_trunk_species" groups:kind="collection">
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465 </rdf:RDF>
466 </annotation>
467 <groups:listOfMembers>
468 <groups:member groups:idRef="CMPD_0000000001"/>
469 <groups:member groups:idRef="TARGET_0000000001"/>
470 <groups:member groups:idRef="CMPD_0000000003"/>
471 <groups:member groups:idRef="MNXM100"/>
472 <groups:member groups:idRef="MNXM83"/>
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474 </groups:group>
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481 </rdf:RDF>
482 </annotation>
483 <groups:listOfMembers>
484 <groups:member groups:idRef="MNXM24"/>
485 <groups:member groups:idRef="MNXM11"/>
486 <groups:member groups:idRef="MNXM8975"/>
487 </groups:listOfMembers>
488 </groups:group>
489 <groups:group metaid="_58b3b59284e0d918d6d3f3bcadc2d757726da7594cd899cad4e745836ac967a3" groups:id="rp_sink_species" groups:kind="collection">
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498 <groups:member groups:idRef="MNXM100"/>
499 <groups:member groups:idRef="MNXM83"/>
500 <groups:member groups:idRef="MNXM11"/>
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502 </groups:group>
503 <groups:group metaid="a0f48a6fe4f833a3d15abd7ee5b944b97d629570ac09588e9fb6fdf6196ab189" groups:id="rp_fba_ignored_species" groups:kind="collection">
504 <annotation>
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512 <groups:member groups:idRef="MNXM24"/>
513 <groups:member groups:idRef="MNXM8975"/>
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515 </groups:group>
516 <groups:group metaid="fb9b29ba20af773fed953f1d6726905a453f235c9a4baa7217f02760bc2057f8" groups:id="rp_thermo_substituted_species" groups:kind="collection">
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523 </annotation>
524 <groups:listOfMembers>
525 <groups:member groups:idRef="TARGET_0000000001"/>
526 <groups:member groups:idRef="MNXM24"/>
527 <groups:member groups:idRef="MNXM8975"/>
528 </groups:listOfMembers>
529 </groups:group>
530 </groups:listOfGroups>
531 </model>
532 </sbml>