UniProtKB/Swiss-Prot P98161: Variant p.Thr2582Met

Polycystin-1
Gene: PKD1
Feedback?

Variant information Variant position:

2582 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 Threonine (T) to Methionine (M) at position 2582 (T2582M, p.Thr2582Met). 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 medium size and polar (T) to medium size and hydrophobic (M) 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
Other resources:

Links to websites of interest for the variant.

Variant rs2432405 [ dbSNP | Ensembl ]

Sequence information Variant position:

2582 The position of the amino-acid change on the UniProtKB canonical protein sequence.
Protein sequence length:

4303 The length of the canonical sequence.
Location on the sequence:

AVVALNRSLAITLPEPNGSA T GLTVWLHGLTASVLPGLLRQ 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                         AVVALNRSLAITLPEPNGSATGLTVWLHGLTASVLPGLLRQ

Mouse                         AVVALNRSLTIVLPEPSGNPADLVPWLHSLTASVLPGLLKQ

Caenorhabditis elegans        ILSNTQDFLTN----------------NGMTMT--------

Slime mold                    ----------------------------GL-----------

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	24 – 4303	Polycystin-1
Topological domain	24 – 3074	Extracellular
Domain	2146 – 2833	REJ
Glycosylation	2567 – 2567	N-linked (GlcNAc...) asparagine
Glycosylation	2578 – 2578	N-linked (GlcNAc...) asparagine

Literature citations
Novel PKD1 deletions and missense variants in a cohort of Hellenic polycystic kidney disease families.
Bouba I.; Koptides M.; Mean R.; Costi C.-E.; Demetriou K.; Georgiou I.; Pierides A.; Siamopoulos K.; Deltas C.C.;
Eur. J. Hum. Genet. 9:677-684(2001)
Cited for: VARIANTS PKD1 LEU-2471; LEU-2519; GLY-2579 DEL; LEU-2613 DEL; ILE-2649 AND PHE-2978 DEL; VARIANTS MET-2582; ARG-2638; ASN-2972 AND LEU-3066;

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.