UniProtKB/SwissProt variant VAR

Variant information

Variant position:

401

The position of the amino-acid change on the UniProtKB canonical protein sequence.

Type of variant:

Disease [Disclaimer]

The variants are classified into three categories: Disease, Polymorphism and Unclassified.

Disease: Variants implicated in disease according to literature reports.
Polymorphism: Variants not reported to be implicated in disease.
Unclassified: Variants with uncertain implication in disease according to literature reports. Evidence against or in favor of a pathogenic role is limited and/or conflicting.

Residue change:

From Glycine (G) to Cysteine (C) at position 401 (G401C, p.Gly401Cys).

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 glycine (G) 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

Involvement in disease:

Osteogenesis imperfecta 4 (OI4) [MIM:166220]: An autosomal dominant form of osteogenesis imperfecta, a connective tissue disorder characterized by low bone mass, bone fragility and susceptibility to fractures after minimal trauma. Disease severity ranges from very mild forms without fractures to intrauterine fractures and perinatal lethality. Extraskeletal manifestations, which affect a variable number of patients, are dentinogenesis imperfecta, hearing loss, and blue sclerae. OI4 is characterized by moderately short stature, mild to moderate scoliosis, grayish or white sclera and dentinogenesis imperfecta. {ECO:0000269|PubMed:16786509, ECO:0000269|PubMed:16879195, ECO:0000269|PubMed:1770532, ECO:0000269|PubMed:17875077, ECO:0000269|PubMed:1988452, ECO:0000269|PubMed:2745420, ECO:0000269|PubMed:7691343, ECO:0000269|PubMed:7982948, ECO:0000269|PubMed:8094076, ECO:0000269|PubMed:8339541, ECO:0000269|PubMed:9600458}. Note=The disease is caused by mutations affecting the gene represented in this entry.

The name and a short description of the disease associated with the variant. For more information about the disease, the user can refer to OMIM, following the link provided after the disease acronym.

Variant description:

In OI4.

Any additional useful information about the variant.

Sequence information

Variant position:

401

The position of the amino-acid change on the UniProtKB canonical protein sequence.

Protein sequence length:

1464

The length of the canonical sequence.

Location on the sequence:

AAGPAGNPGADGQPGAKGAN G APGIAGAPGFPGARGPSGPQ

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                         AAGPAGNPGADGQPGAKGANGAPGIAGAPGFPGARGPSGPQ

                              AAGPAGNPGADGQPGAKGANGAPGIAGAPGFPGARGPSGPQ

Mouse                         AAGPAGNPGADGQPGAKGANGAPGIAGAPGFPGARGPSGPQ

Rat                           AAGPAGNPGADGQPGAKGANGAPGIAGAPGFPGARGPSGPQ

Bovine                        AAGPAGNPGADGQPGAKGANGAPGIAGAPGFPGARGPSGPQ

Chicken                       AAGPAGNPGADGQPGAKGATGAPGIAGAPGFPGARGPSGPQ

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	162 – 1218	Collagen alpha-1(I) chain
Region	179 – 1192	Triple-helical region
Modified residue	388 – 388	4-hydroxyproline
Modified residue	394 – 394	4-hydroxyproline
Modified residue	403 – 403	4-hydroxyproline
Modified residue	409 – 409	4-hydroxyproline
Modified residue	412 – 412	4-hydroxyproline

Literature citations

No reference for the current variant in UniProtKB/Swiss-Prot.

UniProtKB/Swiss-Prot variant pages

UniProtKB/Swiss-Prot P02452: Variant p.Gly401Cys