UniProtKB/SwissProt variant VAR

Variant information

Variant position:

219

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 Isoleucine (I) to Threonine (T) at position 219 (I219T, p.Ile219Thr).

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 hydrophobic (I) to medium size and polar (T)

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

Variant description:

In HSAS; decrease in cell-matrix adhesion; decreased cell migration; no effect on the localization at the cell surface; no effect on cell proliferation, when transfected in pheochromocytoma PC12 cells; no effect on neurite outgrowth, when assayed in NGF-treated pheochromocytoma PC12 cells.

Any additional useful information about the variant.

Sequence information

Variant position:

219

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

Protein sequence length:

1257

The length of the canonical sequence.

Location on the sequence:

LTSDNHSDYICHAHFPGTRT I IQKEPIDLRVKATNSMIDRK

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                         LTSDNHSDYICHAHFPGTRTIIQKEPIDLRVKATNSMIDRK

Mouse                         LTSDNHSDYICNAHFPGTRTIIQKEPIDLRVKPTNSMIDRK

Rat                           LTSDNHSDYICNAHFPGTRTIIQKEPIDLRVKPTNSMIDRK

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	20 – 1257	Neural cell adhesion molecule L1
Topological domain	20 – 1120	Extracellular
Domain	139 – 226	Ig-like C2-type 2
Glycosylation	203 – 203	N-linked (GlcNAc...) asparagine

Literature citations

Identification of novel L1CAM mutations using fluorescence-assisted mismatch analysis.
Saugier-Veber P.; Martin C.; le Meur N.; Lyonnet S.; Munnich A.; David A.; Henocq A.; Heron D.; Jonveaux P.; Odent S.; Manouvrier S.; Moncla A.; Morichon N.; Philip N.; Satge D.; Tosi M.; Frebourg T.;
Hum. Mutat. 12:259-266(1998)
Cited for: VARIANTS HSAS/MASA ARG-335 AND CYS-473; VARIANTS HSAS THR-219; CYS-386 AND LEU-1224;

L1CAM and its cell-surface mutants: new mechanisms and effects relevant to the physiology and pathology of neural cells.
Tagliavacca L.; Colombo F.; Racchetti G.; Meldolesi J.;
J. Neurochem. 124:397-409(2013)
Cited for: CHARACTERIZATION OF VARIANTS MASA GLN-210 AND LYS-309; CHARACTERIZATION OF VARIANTS HSAS THR-219 AND CYS-264; CHARACTERIZATION OF VARIANT HSAS/MASA LEU-941; SUBCELLULAR LOCATION;

UniProtKB/Swiss-Prot variant pages

UniProtKB/Swiss-Prot P32004: Variant p.Ile219Thr