ClinVar Miner

Submissions for variant NM_000298.6(PKLR):c.1067T>G (p.Met356Arg) (rs752423472)

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Total submissions: 1
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Submitter RCV SCV Clinical significance Condition Last evaluated Review status Method Comment
Diagnostica di Laboratorio,Fondazione Policlinico Gemelli RCV000768418 SCV000897719 likely pathogenic Pyruvate kinase deficiency of red cells no assertion criteria provided clinical testing The c.1067T>G variant causing the replacement of the apolar Methionin (M) to the basic polar Arginine (R) at aa position 356 (p.Met356Arg). We found this variant in 1 Turkish patient and his father, segregated with chronic non-spherocytic hemolytic anemia and was absent from 200 alleles studied. Additionally, computational variant analysis (CVA) of the mutant enzyme demonstrated a deleterious effect associated to p.(Met356Arg) variant. The Met356 is buried in a hydrophobic environment provided by the residues Phe323, Ile314, Ala352 and Val335. When the interaction between Met356 and Ala352 is destroyed from replacement by Arg356 and a novel hydrogen bond involving the NH2 nitrogen atom of Arg356 and backbone oxygen atom of Ile314 is established, the network of residues, mainly van der Waals interactions, is partially abolished. These changes and the altered pattern of interactions that the p.(Met356Arg) replacement brings about, might affect the catalytic Glu315 orientation. In summary, the Met356Arg variant meets our criteria to be classified as likely pathogenic.

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