UniProtKB/SwissProt variant VAR

Variant information

Variant position:

198

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

Type of variant:

LP/P [Disclaimer]

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 Phenylalanine (F) to Serine (S) at position 198 (F198S, p.Phe198Ser).

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 large size and aromatic (F) to small size and polar (S)

The physico-chemical property of the reference and variant residues and the change implicated.

BLOSUM score:

-2

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

Variant description:

In ILD2; the mutant protein is retained in the endoplasmic reticulum and is not secreted.

Any additional useful information about the variant.

Other resources:

Links to websites of interest for the variant.

Variant rs121917738 [ dbSNP | Ensembl ]

Sequence information

Variant position:

198

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

Protein sequence length:

248

The length of the canonical sequence.

Location on the sequence:

VKKYNTYAYVGLTEGPSPGD F RYSDGTPVNYTNWYRGEPAG

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	21 – 248	Pulmonary surfactant-associated protein A2
Domain	132 – 248	C-type lectin
Glycosylation	207 – 207	N-linked (GlcNAc...) asparagine
Disulfide bond	155 – 246

Literature citations

Genetic defects in surfactant protein A2 are associated with pulmonary fibrosis and lung cancer.
Wang Y.; Kuan P.J.; Xing C.; Cronkhite J.T.; Torres F.; Rosenblatt R.L.; DiMaio J.M.; Kinch L.N.; Grishin N.V.; Garcia C.K.;
Am. J. Hum. Genet. 84:52-59(2009)
Cited for: VARIANTS ASN-9; TRP-12; LEU-50; PRO-91 AND LYS-223; VARIANTS ILD2 SER-198 AND VAL-231;

Germline SFTPA1 mutation in familial idiopathic interstitial pneumonia and lung cancer.
Nathan N.; Giraud V.; Picard C.; Nunes H.; Dastot-Le Moal F.; Copin B.; Galeron L.; De Ligniville A.; Kuziner N.; Reynaud-Gaubert M.; Valeyre D.; Couderc L.J.; Chinet T.; Borie R.; Crestani B.; Simansour M.; Nau V.; Tissier S.; Duquesnoy P.; Mansour-Hendili L.; Legendre M.; Kannengiesser C.; Coulomb-L'Hermine A.; Gouya L.; Amselem S.; Clement A.;
Hum. Mol. Genet. 25:1457-1467(2016)
Cited for: CHARACTERIZATION OF VARIANT ILD2 SER-198; SUBCELLULAR LOCATION;

UniProtKB/Swiss-Prot variant pages

UniProtKB/Swiss-Prot Q8IWL1: Variant p.Phe198Ser