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MM-align is an algorithm for structurally aligning a pair of multiple-chain complexes of protein and/or nucleic acid molecules (RNA/DNA). The multiple chains in each complex are first joined, in every possible order, and then simultaneously aligned with cross-chain alignments prevented. An optimal alignment between two complexes, as well as the overall TM-score, will be reported.

Update history: MM-align has been updated to MM-align++, with major updates including

  • Alignment of hybrid complexes consisting of both protein and nucleic acids, such as ribosomes, is now supported.
  • A new assignment algorithm is implemented for fast chain-level correspondence search to improve the accuracy of large homo-oligomers alignment.
  • Support for the PDBx/mmCIF format is newly included in MM-align++, in addition to the legacy PDB format used in MM-align.
  • Fixed issue in the old MM-align program where alignments were not generated a pair of complex structures have divergent structures.
  • The new MM-align++ program includes five different chain-level initial alignment methods to ensure accurate initial alignment generation, in contrast to the old MM-align program that only implements one chain-level initial alignment (gapless threading).

MM-align on-line [View example output]



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References

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