Job ID: mTM004773
      Query Family Name: your_protein

  Structure-based phylogenetic tree

  Multiple structure alignment




1gx1A.pdb
1iv3A.pdb
1jn1A.pdb

  --------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170
 123456789|123456789|123456789|123456789|123456789|123456789|123456789|123456789|123456789|123456789|123456789|123456789|123456789|123456789|123456789|123456789|123456789|123456789
 E-RIGHGFDVHAFGGEGPIIIGGVRIPYEKGLL-----------------AH--SDGDVALHALTDALLGAAALGDIGKLFPDTDPAFK--GADSRELLREAWRRIQAKGYTLGNVDVTIIAQAPK-LPHIPQ-RVFIAEDLGCH-DDVNVKATTTEKLGFTGRGEGIACEAVALLIK
 --RIGYGEDSHRLEEGRPLYLCGLLIPSPVGAL-----------------AH--SDGDAAMHALTDALLSAYGLGDIGLLFPDTDPRWR--GERSEVFLREAMRLVEARGAKLLQASLVLTLDRPKLGPHRKALVDSLSRLMRLPQDRIGLTFKTSEGL--A--PSHVQARAVVLLD-
 MIRIGHGFDVHAFG------------------EDRPLIIGGVEVPYHTGF-IAHSDGDVALHALTDAILGAAALGDIGKLFPDTD--MQYKNADSRGLLREAFRQVQEKGYKIGNVDITIIAQAPKMRPHIDAMRAKIAEDLQCDIEQVNVKATTTEKLGFTGRQEGIACEAVALLIR
Download the alignment in fasta format
Columns in magenta are common core regions (i.e., columns with no gaps and the maximum pairwise residue distance < 4Å).

   Visualization and Metrics of the alignment

     Number of structures: 3
     1gx1A.pdb 1iv3A.pdb 1jn1A.pdb


Metrics Value
Lcore   124
ccRMSD   1.11
ccTM-score   0.778
Lali   135
RMSD   1.18
TM-score   0.843


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    Download the pairwise TM-score and RMSD
    Download the superimposed structure file in common core regions
    Download the superimposed structure file in all regions
The visualization is powered by 3Dmol.




Reference

  • R Dong, S Pan, Z Peng, Y Zhang, J Yang, mTM-align: a server for fast protein structure database search and multiple protein structure alignment, Nucleic Acids Research, 46: W380–W386 (2018).
  • R Dong, Z Peng, Y Zhang, J Yang, mTM-align: an algorithm for fast and accurate multiple protein structure alignment, Bioinformatics, 34: 1719-1725 (2018).