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Table 3 Comparison of PAH enzyme activities reported in a meta-analysis publication Himmelreich et al. [72], the PAH locus-specific database (PAHvdb), and the PAH Variant Curation Expert Panel (VCEP) variant evidence for PS3 criteria

From: Comparative analysis of functional assay evidence use by ClinGen Variant Curation Expert Panels

PAH Variant

Percentage of enzyme activity by source

cDNA

Protein

Himmelreich et al. [72] (PMID: 30037505)

PAHvdb

VCEP evidence for PS3 assertion

Literature Review

Assay*

c.194T>C

p.(Ile65Thr)

26, 27, 33, 48, 60

 

33

25

c.311C>A

p.(Ala104Asp)

67

77

27

26

c.473G>A

p.(Arg158Gln)

2, 5, 9, 10, 29

 

10

0.2–1.8

c.533A>G

p.(Glu178Gly)

31

 

39

39

c.721C>T

p.(Arg241Cys)

25

57

25

25

c.754C>T

p.(Arg252Trp)

0, 0

15

0

1

c.755G>A

p.(Arg252Gln)

24

 

3

3

c.782G>A

p.(Arg261Gln)

27, 30, 43, 47, 52

23

44

15–30

c.842C>T

p.(Pro281Leu)

0, 1, 1

 

2

2

c.898G>T

p.(Ala300Ser)

32

65

31

31

c.916A>G

p.(Ile306Val)

12

25

39

18

c.926C>T

p.(Ala309Val)

70

12

42

30

c.1162G>A

p.(Val388Met)

15, 23, 43

83

28

15

c.1208C>T

p.(Ala403Val)

32, 100

33

66

43

c.1222C>T

p.(Arg408Trp)

0, 1, 3, 5

2

2

1.3–1.85

c.1223G>A

p.(Arg408Gln)

9, 33, 55, 84

41

46

46

c.1238G>C

p.(Arg413Pro)

2

11

35

< 3

c.1241A>G

p.(Tyr414Cys)

28, 38, 50, 80

 

57

50

  1. Italicized values indicate measured enzyme activity levels above the > 50% enzyme activity range specified by the VCEP and in direct conflict with the VCEP-cited enzyme activity value in support of PS3 assertion
  2. *Results generated in a PAH enzyme activity assay conducted in Himmelreich et al. [72] (PMID: 30037505). Other results were derived as part of the literature review conducted in Himmelreich et al. [72]
  3. Enzyme activity result generated by PAH expression in E. coli. All other results were generated by PAH expression in COS cells