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Molecular Modeling and Bioinformatics Group

Entry: NAFlex_FOXO3_mut_rep4


Nucleic Acid Data:


SequenceGACTAAGTCAACCACGC
Rev. SequenceGCGTGGTTGACTTAGTC
TypeDNA
SubTypeB
Chainsduplex
Pdb-
LigandsNo
KeywordsDNA-B Duplex Protein-Nuc SPC/E AddedSalt


Simulation Metadata
Force FieldparmBSC1
Simulation Date0.00000000 1545177600
Simulated Time50
Time Step10 ps
PartsDNA+protein+ions
Temperature300K
WaterSPCE
Additional SolventNo
Counter IonsNa+Cl-
Ionic Concentration0.05M
Additional IonsNo
Additional MoleculesNo
Ions Parameters-
Unified Molecular Modeling (UMM) Metadata
(Click to see full UMM)
Simulation Metadata (UMM)
AdditionalIonsNo
AdditionalMoleculesNo
AdditionalSolventNo
AuthorA.M.
Chainsduplex
CommentsN/A
CounterIonsNa+Cl-
Formatxtc
FrameStep10 ps
Frames5000
IonicConcentration0.05M
IonsParameters-
LigandsNo
NucTypeDNA
PDB-
PartsDNA+protein+ions
RMSd_avg2.026
RMSd_stdev0.344
Rgyr_avg17.686
Rgyr_stdev0.271
SASA_avg12209.270
SASA_stdev243.246
SubTypeB
Temperature300K
TopologyFOXO3_mut_mdeq_rep0_nowater.gro
TrajectoryFOXO3_mut_rep4_mdprod_sample.xtc
WaterSPCE
_idNAFlex_FOXO3_mut_rep4
datasetArray
date0.00000000 1545177600
descriptionDNA-B Duplex Protein-Nuc SPC/E AddedSalt
forceFieldparmBSC1
ionsModel-
moleculeTypeDna
rev_sequenceGCGTGGTTGACTTAGTC
saltConcentration-
sequenceGACTAAGTCAACCACGC
soluteAtoms2618
soluteCharge-
soluteResidues131
solventAtoms-
solventResidues-
time50
totalAtoms2618
totalCharge-
totalIons-
totalResidues131
Quality Control
RMSd-
Rgyr-
SASA-
RMSf-