UniProtKB/Swiss-Prot P54098: Variant p.Arg546Cys

DNA polymerase subunit gamma-1
Gene: POLG
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Variant information Variant position:

546 The position of the amino-acid change on the UniProtKB canonical protein sequence.
Type of variant:

LB/B The variants are classified into three categories: LP/P, LB/B and US.

LP/P: likely pathogenic or pathogenic.
LB/B: likely benign or benign.
US: uncertain significance

Residue change:

From Arginine (R) to Cysteine (C) at position 546 (R546C, p.Arg546Cys). Indicates the amino acid change of the variant. The one-letter and three-letter codes for amino acids used in UniProtKB/Swiss-Prot are those adopted by the commission on Biochemical Nomenclature of the IUPAC-IUB.
Physico-chemical properties:

Change from large size and basic (R) to medium size and polar (C) The physico-chemical property of the reference and variant residues and the change implicated.
BLOSUM score:

-3 The score within a Blosum matrix for the corresponding wild-type to variant amino acid change. The log-odds score measures the logarithm for the ratio of the likelihood of two amino acids appearing by chance. The Blosum62 substitution matrix is used. This substitution matrix contains scores for all possible exchanges of one amino acid with another:

Lowest score: -4 (low probability of substitution).
Highest score: 11 (high probability of substitution).

More information can be found on the following page
Polymorphism:

The poly-Gln region seems to be polymorphic. Additional information on the polymorphism described.
Other resources:

Links to websites of interest for the variant.

Variant rs2307447 [ dbSNP | Ensembl ]

Sequence information Variant position:

546 The position of the amino-acid change on the UniProtKB canonical protein sequence.
Protein sequence length:

1239 The length of the canonical sequence.
Location on the sequence:

DQEDLGPCSEEEEFQQDVMA R ACLQKLKGTTELLPKRPQHL The residue change on the sequence. Unless the variant is located at the beginning or at the end of the protein sequence, both residues upstream (20) and downstream (20) of the variant will be shown.
Residue conservation:

The multiple alignment of the region surrounding the variant against various orthologous sequences.

Human                         DQEDLGPCSEEEEFQQDVMARACLQKLK-GTTELLPKRPQHL

Mouse                         DQEDPGPPSEEEELQRSVTAHNRLQQLR-STTDLLPKRPQH

Rat                           DQEDPGPPSEEEELQQNIMAHTRLQQLK-STTDLLPKRPQH

Xenopus laevis                HNEDPGPPTEKEESR-PSMGKLYLEDLKLKTLPLLPKRNQH

Drosophila                    ELKDSGNTPEERRLQ------AKFQHLY-DQQALLPARRPL

Sequence annotation in neighborhood:

The regions or sites of interest surrounding the variant. In general the features listed are posttranslational modifications, binding sites, enzyme active sites, local secondary structure or other characteristics reported in the cited references. The "Sequence annotation in neighborhood" lines have a fixed format:

Type: the type of sequence feature.
Positions: endpoints of the sequence feature.
Description: contains additional information about the feature.

Type	Positions	Description
Chain	1 – 1239	DNA polymerase subunit gamma-1
Region	510 – 571	Accessory-interacting determinant
Mutagenesis	543 – 558	Missing. Markedly decreases the stimulation by POLG2, resulting in impaired processive DNA synthesis.
Mutagenesis	549 – 549	L -> N. Decreases processive DNA synthesis.
Mutagenesis	552 – 552	L -> N. Decreases processive DNA synthesis.
Mutagenesis	553 – 553	K -> N. Decreases processive DNA synthesis.
Helix	538 – 553

Literature citations
Submission
NIEHS SNPs program;
Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA]; VARIANTS GLN-55 INS; GLN-193; CYS-546; LYS-662; TRP-1142; GLY-1143; CYS-1146 AND HIS-1236;

Disclaimer: Any medical or genetic information present in this entry is provided for research, educational and informational purposes only. They are not in any way intended to be used as a substitute for professional medical advice, diagnostic, treatment or care.