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I-TASSER C-I-TASSER QUARK C-QUARK LOMETS COACH COFACTOR MetaGO MUSTER CEthreader SEGMER FG-MD ModRefiner REMO DEMO SPRING COTH Threpp BSpred ANGLOR EDock BSP-SLIM SAXSTER FUpred ThreaDom ThreaDomEx EvoDesign GPCR-I-TASSER MAGELLAN BindProf BindProfX SSIPe ResQ IonCom STRUM DAMpred

TM-score TM-align MM-align RNA-align NW-align LS-align EDTSurf MVP MVP-Fit SPICKER HAAD PSSpred 3DRobot MR-REX I-TASSER-MR SVMSEQ NeBcon ResPRE TripletRes WDL-RF ATPbind DockRMSD DeepMSA FASPR EM-Refiner

BioLiP E. coli GLASS GPCR-HGmod GPCR-RD GPCR-EXP Tara-3D TM-fold DECOYS POTENTIAL RW/RWplus EvoEF HPSF THE-DB ADDRESS Alpaca-Antibody CASP7 CASP8 CASP9 CASP10 CASP11 CASP12 CASP13 CASP14

RNA-align is an algorithm for comparing 3D structures of RNA molecules. Starting from two RNA structures, RNA-align seeks optimal nucleotide-to-nucleotide alignments based on a heuristic dynamic programming iteration process, assisted by distance-based secondary structure assignments. The structural similarity of the selected alignment is assessed by a renormalized TM-score on the statistics of RNA structures in the PDB, where TM-scoreRNA has values in (0,1] with 1 indicating a perfect structure match and a score ≥0.45 corresponding to a structural similarity of the RNA pairs in the same Rfam family. RNA-align can also be used to compare double-stranded DNA structures.


RNA-align on-line (RNA example output; DNA example output)


RNA-align download


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