Table 4 TM-score, RMSD value, GMQE score, QMEAN Z-score, ERRAT value, and PROCHECK Ramachandran plot analysis of the selected protein models.

From: Functional and structural analysis of non-synonymous single nucleotide polymorphisms (nsSNPs) in the MYB oncoproteins associated with human cancer

Protein

Model

TM-align

SWISS-MODEL

ERRAT

PROCHECK Ramachandran plot analysis

TM-scorea

RMSD

GMQE score

QMEAN Z-scoreb

ERRAT value (overall quality factor)c

Residues in most favoured regionsd

Residues in additional allowed regionsd

Residues in generously allowed regionsd

Residues in disallowed regionsd

MYB

+

Nil

Nil

Nil

Nil

97.222

120 (87.6%)

17 (12.4%)

0 (0.0%)

0 (0.0%)

G111S

1

0

0.15

0.55

99.3056

122 (88.4%)

15 (10.9%)

0 (0.0%)

1 (0.7%)

N183S

1

0

0.16

0.72

98.6111

122 (89.1%)

15 (10.9%)

0 (0.0%)

0 (0.0%)

MYBL1

+

Nil

Nil

Nil

Nil

97.9167

123 (89.1%)

15 (10.9%)

0 (0.0%)

0 (0.0%)

G122S

1

0

0.15

− 0.02

98.6014

123 (89.1%)

15 (10.9%)

0 (0.0%)

0 (0.0%)

MYBL2

+

Nil

Nil

Nil

Nil

96.5278

119 (86.2%)

19 (13.8%)

0 (0.0%)

0 (0.0%)

S178C

1

0

0.16

0.19

96.5278

118 (85.5%)

20 (14.5%)

0 (0.0%)

0 (0.0%)

  1. TM-score template modelling-score, RMSD root-mean-square deviation, GMQE global model quality estimation, QMEAN qualitative model energy analysis, + Wildtype.
  2. aRandom structural similarity (0.0 < TM-score < 0.30), both structures are within the same fold (0.50 < TM-score < 1.00).
  3. bLow quality model (QMEAN Z-score ≤ − 4.0).
  4. cReliable model (ERRAT value > 85%).
  5. dNumber of residues (percentage of residues).