UniProtKB/Swiss-Prot P02647: Variant p.Ala61Thr

Apolipoprotein A-I
Gene: APOA1
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Variant information Variant position:

61 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 61 (A61T, p.Ala61Thr). 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
Polymorphism:

Genetic variations in APOA1 can result in APOA1 deficiency and are associated with low levels of HDL cholesterol [MIM:107680]. Additional information on the polymorphism described.
Other resources:

Links to websites of interest for the variant.

Variant rs12718465 [ dbSNP | Ensembl ]

Sequence information Variant position:

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

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

VYVDVLKDSGRDYVSQFEGS A LGKQLNLKLLDNWDSVTSTF 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                         VYVDVLKDSGRDYVSQFEGSALGKQLNLKLLDNWDSVTSTF

Gorilla                       VYVDVLKDSGRDYVSQFEGSALGKQLNLKLLDNWDSVTSTF

                              VYVDAVKDSGRDYVAQFEASALGKQLNLKLLDNWDSLSSTV

Rhesus macaque                VYVEALKDSGKDYVSQFEGSALGKQLNLKLLDNWDSVTSTV

Chimpanzee                    VYVDVLKDSGRDYVSQFEGSALGKQLNLKLLDNWDSVTSTF

Mouse                         VYVDAVKDSGRDYVSQFESSSLGQQLNLNLLENWDTLGSTV

Rat                           VYVDAVKDSGRDYVSQFESSTLGKQLNLNLLDNWDTLGSTV

Pig                           VYVDAIKDSGRDYVAQFEASALGKHLNLKLLDNWDSLGSTF

Bovine                        VYVEAIKDSGRDYVAQFEASALGKQLNLKLLDNWDTLASTL

Rabbit                        VYVDTVKDSGREYVAQFEASAFGKQLNLKLLDNWDSLSSTV

Chicken                       VYLETVKASGKDAIAQFESSAVGKQLDLKLADNLDTLSAAA

Zebrafish                     VYLNQVKDQAEKALDNLDGTDY-EQYKLQLSESLTKLQEYA

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 – 267	Proapolipoprotein A-I
Chain	25 – 267	Apolipoprotein A-I
Chain	25 – 266	Truncated apolipoprotein A-I
Modified residue	53 – 53	3'-chlorotyrosine; alternate
Modified residue	53 – 53	3'-nitrotyrosine; alternate
Mutagenesis	42 – 42	Y -> F. Abolished chlorination and nitration without preventing inhibition in presence of myeloproxidase; when associated with F-53, F-124, F-139, F-190, F-216 and F-260.
Mutagenesis	53 – 53	Y -> F. Abolished chlorination and nitration without preventing inhibition in presence of myeloproxidase; when associated with F-42, F-124, F-139, F-190, F-216 and F-260.
Helix	61 – 65

Literature citations
The effects of scale: variation in the APOA1/C3/A4/A5 gene cluster.
Fullerton S.M.; Buchanan A.V.; Sonpar V.A.; Taylor S.L.; Smith J.D.; Carlson C.S.; Salomaa V.; Stengaard J.H.; Boerwinkle E.; Clark A.G.; Nickerson D.A.; Weiss K.M.;
Hum. Genet. 115:36-56(2004)
Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA]; VARIANT THR-61;
Apolipoprotein A-I deficiency due to a codon 84 nonsense mutation of the apolipoprotein A-I gene.
Matsunaga T.; Hiasa Y.; Yanagi H.; Maeda T.; Hattori N.; Yamakawa K.; Yamanouchi Y.; Tanaka I.; Obara T.; Hamaguchi H.;
Proc. Natl. Acad. Sci. U.S.A. 88:2793-2797(1991)
Cited for: VARIANT FHA2 108-GLN--GLN-267 DEL; CHARACTERIZATION OF VARIANT FHA2 108-GLN--GLN-267 DEL; VARIANT THR-61;

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.