UniProtKB/Swiss-Prot P08123: Variant p.Thr59Pro

Collagen alpha-2(I) chain
Gene: COL1A2
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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 Threonine (T) to Proline (P) at position 59 (T59P, p.Thr59Pro). 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 (P) 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 rs1800221 [ dbSNP | Ensembl ]

Sequence information Variant position:

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

1366 The length of the canonical sequence.
Location on the sequence:

GPRGERGPPGPPGRDGEDGP T GPPGPPGPPGPPGLGGNFAA 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                         GPRGERGPPGPPGRDGEDGPTGPP------GPPGPPGPPGLGGNFAA

                              GPRGERGPPGPPGRDGDDGIPGPP------GPPGPPGPPGL

Mouse                         GPRGQRGPAGPRGRDGVDGPMGPPGPPGSPGPPGSPAPPGL

Rat                           GPRGQRGPAGPRGRDGVDGPVGPPGPPGAPGPPGPPGPPGL

Bovine                        GPRGERGPPGPPGRDGDDGIPGPP------GPPGPPGPPGL

Chicken                       GPQGERGPPGPPGRDGED---GPP------GPPGPPGPPGL

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
Propeptide	23 – 79	N-terminal propeptide
Region	28 – 1130	Disordered
Compositional bias	43 – 72	Pro residues
Modified residue	47 – 47	4-hydroxyproline
Modified residue	50 – 50	4-hydroxyproline
Modified residue	62 – 62	4-hydroxyproline
Modified residue	65 – 65	4-hydroxyproline
Modified residue	68 – 68	4-hydroxyproline
Modified residue	71 – 71	4-hydroxyproline

Literature citations
Analysis of the promoter region and the N-propeptide domain of the human pro alpha 2(I) collagen gene.
Dickson L.A.; de Wet W.; Di Liberto M.; Weil D.; Ramirez F.;
Nucleic Acids Res. 13:3427-3438(1985)
Cited for: NUCLEOTIDE SEQUENCE [MRNA] OF 1-93; VARIANT PRO-59;

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.