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Table 4 Molecular modeling results of the amino acid consensus sequence of ZIKV NS5

From: In silico design of a Zika virus non-structural protein 5 aiming vaccine protection against zika and dengue in different human populations

Ranka PDB Hitb TM-scorec RM SDd IDENe Covf
1 5u0bA 0.977 0.30 0.960 0.978
2 4k6mA 0.972 0.93 0.694 0.980
3 4v0qA 0.714 4.18 0.518 0.784
4 2hfzA 0.616 2.98 0.689 0.660
5 2j7uA 0.615 1.87 0.677 0.631
6 1s4fA 0.517 3.62 0.139 0.568
7 2cjqA 0.516 3.57 0.151 0.570
8 2hcsA 0.512 2.41 0.694 0.534
9 1yvxA 0.501 4.16 0.148 0.566
10 3cj0B 0.497 4.24 0.132 0.564
  1. aRanking of proteins is based on TM-score of the structural alignment between the query structure and known structures in the PDB library
  2. bDigital object identifier of the top 10 proteins deposited in the PDB library which have the closest structural similarity to the ZIKV conosensus NS5;
  3. cAlignment score with the most similar protein structure found in PDB library;
  4. dRoot-mean-square deviation of atomic positions (root-mean-square deviation, RMSD) between residues that are structurally aligned by TM-align
  5. ePercentage of sequence identity in the structurally aligned region;
  6. fCov represents the coverage of the alignment by TM-align and is equal to the number of structurally aligned residues divided by length of the query protein