Mitochondrial Cytochrome c Oxidase Subunit 1 Sequence Variation in Prostate Cancer

Table 3

Missense mutations’ computation methods and prediction of phenotypic effect.

Nucleotide position	Amino acid	^*PolyPhen	^†nsSNP analyzer	^‡PMut	^‡PMut reliability
C5911T	A3V	Benign	Neutral	Neutral	3
G5913A	D4N	Benign	Neutral	Neutral	4
A5935G	N11S	Probably damaging	Disease	Pathological	1
G5949A	G16X	—	—	—	—
G5973A	A24T	Benign	Neutral	Pathological	6
A6040G	N46S	Benign	Neutral	Pathological	1
G6081A	A60T	Benign	Neutral	Pathological	7
T6124C	M74T	Probably damaging	Disease	Pathological	9
G6150A	V83I	Benign	Neutral	Neutral	5
T6253C	M117T	Benign	Neutral	Pathological	7
G6261A	A120T	Benign	Neutral	Pathological	7
G6267A	A122T	Benign	Neutral	Pathological	5
G6285A	V128I	Benign	Disease	Neutral	2
C6340T	T146I	Benign	Disease	Pathological	9
G6366A	V155I	Benign	Neutral	Neutral	4
G6480A	V193I	Benign	Neutral	Neutral	3
A6663G	I254V	Benign	Neutral	Neutral	7
A6891G	S330G	Benign	Neutral	Neutral	6
G6924T	A341S	Benign	Neutral	Pathological	1
G7041A	V380I	Benign	Disease	Neutral	4
T7080C	F393L	Benign	Disease	Pathological	6
A7083G	I395V	—	—	—	—
A7146G	T415A	Benign	Neutral	Neutral	3
C7147T	T415I⋯V^*	Benign	Neutral	Pathological	6
A7158G	I419V	Benign	Neutral	Neutral	8
A7299G	M466V	Benign	Neutral	Pathological	4
T7354C	M484T	Benign	Neutral	Pathological	0
A7305C	M468L	Benign	Neutral	Pathological	0
T7389C	Y496H	Benign	Neutral	Neutral	5
G7444A	X514K	—	—	—	—

^‡PMut: the method indicates neutral or pathological and provides a reliability index ranging between 0 (low) and 9 (very reliable).
^∗PolyPhen2: this method indicates probably damaging (protein function deemed affected with high confidence), possibly damaging (protein function supposedly affected), benign (most likely lacking any phenotypic effect), and unknown (lack of data do not allow PolyPhen to make prediction).
^†nsSNP analyzer: prediction indicates neutral or disease.