UniProtKB/SwissProt variant VAR

Variant information

Variant position:

62

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 Aspartate (D) to Asparagine (N) at position 62 (D62N, p.Asp62Asn).

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 acidic (D) to medium size and polar (N)

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 LISX1 and SBHX.

Any additional useful information about the variant.

Other resources:

Links to websites of interest for the variant.

Variant rs104894779 [ dbSNP | Ensembl ]

Sequence information

Variant position:

62

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

Protein sequence length:

365

The length of the canonical sequence.

Location on the sequence:

TLQALSNEKKAKKVRFYRNG D RYFKGIVYAVSSDRFRSFDA

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                         TLQALSNEKKAKKVRFYRNGDRYF-KGIVYAVSSDRFRSFDA

Mouse                         TLQALSNEKKAKKVRFYRNGDRYF-KGIVYAVSSDRFRSFD

Rat                           TLQALSNEKKAKKVRFYRNGDRYF-KGIVYAVSSDRFRSFD

Slime mold                    ---GLQTDKSARVI-LFRNGDRYHVEGVHCLVHSSKFKTFD

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	1 – 365	Neuronal migration protein doublecortin
Domain	53 – 139	Doublecortin 1
Modified residue	47 – 47	Phosphoserine; by MARK1 and PKA
Modified residue	70 – 70	Phosphotyrosine; by ABL
Modified residue	74 – 74	Phosphoserine; by PKC

Literature citations

A novel CNS gene required for neuronal migration and involved in X-linked subcortical laminar heterotopia and lissencephaly syndrome.
Des Portes V.; Pinard J.-M.; Billuart P.; Vinet M.-C.; Koulakoff A.; Carrie A.; Gelot A.; Dupuis E.; Motte J.; Berwald-Netter Y.; Catala M.; Kahn A.; Beldjord C.; Chelly J.;
Cell 92:51-61(1998)
Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA / MRNA] (ISOFORM 2); ALTERNATIVE SPLICING; VARIANTS LISX1 ASN-62; HIS-125 AND TRP-192;

UniProtKB/Swiss-Prot variant pages

UniProtKB/Swiss-Prot O43602: Variant p.Asp62Asn