Entry: NAFlex_muGAAA


Nucleic Acid Data:


SequenceGCAAGAAAGAAAGAAAGC
Rev. SequenceGCTTTCTTTCTTTCTTGC
TypeDNA
SubTypeB
Chainsduplex
Pdb-
LigandsNo
KeywordsDNA-B Duplex Naked ParmBSC0 SPC/E AddedSalt


Simulation Metadata
Force FieldparmBSC1
Simulation Date2016-May-03
Simulated Time1,000 ns
Time Step1 ps
PartsDNA+ions
Temperature298K
WaterSPCE
Additional SolventNo
Counter IonsK+Cl-
Ionic Concentration0.15M
Additional IonsNo
Additional MoleculesNo
Ions ParametersDang
Unified Molecular Modeling (UMM) Metadata
(Click to see full UMM)
Simulation Metadata (UMM)
AdditionalIonsNo
AdditionalMoleculesNo
AdditionalSolventNo
AuthorP.D.
Chainsduplex
CommentsmuABC
CounterIonsK+Cl-
Formatmdcrd
FrameStep1 ps
Frames1000000
IonicConcentration0.15M
IonsParametersDang
LigandsNo
NucTypeDNA
PDBNONE
PartsDNA+ions
RMSd_avg3.098
RMSd_stdev0.583
Rgyr_avg18.329
Rgyr_stdev0.422
SASA_avg6398.227
SASA_stdev131.288
SubTypeB
Temperature298K
TopologyTCGA_nowat.prmtop
TrajectoryTCGA_last250ns.trj
WaterSPCE
_idNAFlex_muGAAA
boxAngle109.471219
boxX80.7216845
boxY80.7216845
boxZ80.7216845
datasetArray
date2016-May-03
descriptionDNA-B Duplex Naked ParmBSC0 SPC/E AddedSalt
forceFieldparmBSC0
ionsModel-
moleculeTypeDna
rev_sequenceGCTTTCTTTCTTTCTTGC
saltConcentration-
sequenceGCAAGAAAGAAAGAAAGC
soluteAtoms1143
soluteCharge-34
soluteResidues36
solventAtoms-
solventResidues-
time1,000
totalAtoms1143
totalCharge-34
totalIons-
totalResidues36
Quality Control
RMSd3.098 (0.583) Å    
Rgyr18.329 (0.422) Å    
SASA6398.227 (131.288) Ų    
RMSf