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1、SupportinginformationToMolecularFluorophoresSelf-OrganizeintoC-dotSeedsandIncorporateintoC-dotStructuresMichalLanger,MarkétaPaloncýová,MiroslavMedved’,MichalOtyepkaRegionalCentreofAdvancedTechnologiesandMaterials,DepartmentofPhysicalChemistry,FacultyofScience,PalackýUniversityOlomouc,17.listopa
2、du12,77146Olomouc,CzechRepublicForcefieldTopologyandparametersofIPCAanionforMDsimulationswerederivedaccordingtogeneralized1amberforcefield(GAFF)schemebyaprotocoldescribedinourpreviouspublication(seealsoMethods2sectioninthemaintext).ElectrostaticpotentialwascalculatedatHF/6-31++Glevelonthegeomet
3、ryoptimizedatthesameleveloftheory.TheRESPpartialchargesweresubsequentlyassignedby3Antechambertool.AssignmentofatomtypestoatomswasdonewithtleapfromAMBERsoftware456package.Finally,topologyinAmberformatwastranslatedtoGROMACSformatbyAcPypetool.2TopologyandparametersofneutralIPCAweretakenfromourprev
4、iouspublication.SchemeS1.StructuresofnegativelychargedIPCA(anion)andneutralIPCA(5-oxo-1,2,3,5-tetrahydroimidazo-[1,2-α]-pyridine-7-carboxylicacid).NumbersrefertotheassignedRESPpartialatomiccharges.Coloringscheme:cyan-carbon;red-oxygen;lightblue-nitrogen;white-hydrogens.S1TableS1:Compositionofsi
5、mulationboxeswithnumbersofPAHlayers,numberofIPCAsandwater7molecules,sizesoflargestPAHlayer,figurescorrespondingtotherespectivesystem.SimulaLargestBoxIPCAIPCAtionC-dotlayeredgeWaterdimensionsFigure(-1)(0)lengthsize(#rings)(nm)(ns)1-2,S1,None0500108947.4×7.0×6.7200S74layers620073026.1×6.1×6.12001
6、,3,S8IPCA9layers6100107537.4×7.0×6.72001,S10-11(-1)S16-17,6layers615083606.5×6.5×6.5200S20,S215layers35038705.0×5.0×5.01004,S15None0050109297.4×7.0×6.7200S2-S5,S74layers602073096.2×6.2×6.2200S9IPCA9layers6010107667.4×7.0×6.7200S12(0)6layers601583606.5×6.5×6.5200S19-215layers30538705.0×5.0×5.010
7、0S189layers60082806.5×6.5×6.52004,S13PAH5layers30039105.0×5.0×5.0100S14Thesesimulationswerealsoperformedattemperature473Kandpressure15.5bar.Methods:8–11Symmetry-adaptedperturbationtheory(SAPT)calculations:12TheSAPTapproachatthezer