UniProtKB/Swiss-Prot P34741: Variant p.Ala59Thr

• Variant information
• Sequence information
• Literature citations
• All

Variant information

Variant position: 59 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 Alanine (A) to Threonine (T) at position 59 (A59T, p.Ala59Thr). 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 hydrophobic (A) to medium size and polar (T) The physico-chemical property of the reference and variant residues and the change implicated.
BLOSUM score: 0 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 rs3816208 [ dbSNP | Ensembl ]

Sequence information

Variant position: 59 The position of the amino-acid change on the UniProtKB canonical protein sequence.
Protein sequence length: 201 The length of the canonical sequence.
Location on the sequence: EASGVYPIDDDDYASASGSG A DEDVESPELTTSRPLPKILL 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	19 – 201	Syndecan-2
Topological domain	19 – 144	Extracellular
Region	42 – 70	Disordered
Glycosylation	41 – 41	O-linked (Xyl...) (glycosaminoglycan) serine
Glycosylation	55 – 55	O-linked (Xyl...) (glycosaminoglycan) serine
Glycosylation	57 – 57	O-linked (Xyl...) (glycosaminoglycan) serine

Literature citations

Signal sequence and keyword trap in silico for selection of full-length human cDNAs encoding secretion or membrane proteins from oligo-capped cDNA libraries.
Otsuki T.; Ota T.; Nishikawa T.; Hayashi K.; Suzuki Y.; Yamamoto J.; Wakamatsu A.; Kimura K.; Sakamoto K.; Hatano N.; Kawai Y.; Ishii S.; Saito K.; Kojima S.; Sugiyama T.; Ono T.; Okano K.; Yoshikawa Y.; Aotsuka S.; Sasaki N.; Hattori A.; Okumura K.; Nagai K.; Sugano S.; Isogai T.;
DNA Res. 12:117-126(2005)
Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA]; VARIANT THR-59;