UniProtKB/Swiss-Prot Q9H9Y6: Variant p.Ser682Arg

• Variant information
• Sequence information
• Literature citations
• All

Variant information

Variant position: 682 The position of the amino-acid change on the UniProtKB canonical protein sequence.
Type of variant: US 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 Serine (S) to Arginine (R) at position 682 (S682R, p.Ser682Arg). 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 small size and polar (S) to large size and basic (R) The physico-chemical property of the reference and variant residues and the change implicated.
BLOSUM score: -1 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
Variant description: In TCS4; uncertain significance. Any additional useful information about the variant.
Other resources: Links to websites of interest for the variant.

• Variant rs1684443250 [ dbSNP | Ensembl ]

Sequence information

Variant position: 682 The position of the amino-acid change on the UniProtKB canonical protein sequence.
Protein sequence length: 1135 The length of the canonical sequence.
Location on the sequence: FPHSLLSVIANFIPFSDHNQ S PRNMYQCQMGKQTMGFPLLT 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.
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 – 1135	DNA-directed RNA polymerase I subunit RPA2
Site	687 – 687	Active site gating; blocks backward movement of nascent RNA
Helix	682 – 691

Literature citations

POLR1B and neural crest cell anomalies in Treacher Collins syndrome type 4.
Sanchez E.; Laplace-Builhe B.; Mau-Them F.T.; Richard E.; Goldenberg A.; Toler T.L.; Guignard T.; Gatinois V.; Vincent M.; Blanchet C.; Boland A.; Bihoreau M.T.; Deleuze J.F.; Olaso R.; Nephi W.; Luedecke H.J.; Verheij J.B.G.M.; Moreau-Lenoir F.; Denoyelle F.; Riviere J.B.; Laplanche J.L.; Willing M.; Captier G.; Apparailly F.; Wieczorek D.; Collet C.; Djouad F.; Genevieve D.;
Genet. Med. 22:547-556(2020)
Cited for: INVOLVEMENT IN TCS4; VARIANTS TCS4 ARG-682; CYS-1003 AND SER-1003;