UniProtKB/Swiss-Prot Q16281: Variant p.Trp335Cys

Cyclic nucleotide-gated channel alpha-3
Gene: CNGA3
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Variant information Variant position:

335 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 Tryptophan (W) to Cysteine (C) at position 335 (W335C, p.Trp335Cys). 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 (W) to medium size and polar (C) 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

Sequence information Variant position:

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

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

HWNACIYFAISKFIGFGTDS W VYPNISIPEHGRLSRKYIYS 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                         HWNACIYFAISKFIGFGTDSWVYPNISIPEHGRLSRKYIYS

Mouse                         HWNACIYFAISKFIGFGTDSWVYPNTSKPEYARLSRKYIYS

Rat                           HWNACIYFAISKFIGFGTDSWVYPNTSKPEYGRLSRKYIYS

Bovine                        HWNACIYFAISKFIGFGTDSWVYPNVSNPEYGRLSRKYIYS

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 – 694	Cyclic nucleotide-gated channel alpha-3
Topological domain	322 – 347	Extracellular
Region	298 – 406	Ion conduction pathway
Glycosylation	339 – 339	N-linked (GalNAc...) asparagine
Beta strand	332 – 336

Literature citations
Diagnostic exome sequencing in persons with severe intellectual disability.
de Ligt J.; Willemsen M.H.; van Bon B.W.; Kleefstra T.; Yntema H.G.; Kroes T.; Vulto-van Silfhout A.T.; Koolen D.A.; de Vries P.; Gilissen C.; del Rosario M.; Hoischen A.; Scheffer H.; de Vries B.B.; Brunner H.G.; Veltman J.A.; Vissers L.E.;
N. Engl. J. Med. 367:1921-1929(2012)
Cited for: VARIANT CYS-335;

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.