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UniProtKB/Swiss-Prot P08100: Variant p.Thr17Met

Rhodopsin
Gene: RHO
Chromosomal location: 3q21-q24
Variant information

Variant position:  17
The position of the amino-acid change on the UniProtKB canonical protein sequence.

Type of variant:  Disease [Disclaimer]
The variants are classified into three categories: Disease, Polymorphism and Unclassified.
  • Disease: Variants implicated in disease according to literature reports.
  • Polymorphism: Variants not reported to be implicated in disease.
  • Unclassified: Variants with uncertain implication in disease according to literature reports. Evidence against or in favor of a pathogenic role is limited and/or conflicting.

Residue change:  From Threonine (T) to Methionine (M) at position 17 (T17M, p.Thr17Met).
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 polar (T) to medium size and hydrophobic (M)
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

Involvement in disease:  Retinitis pigmentosa 4 (RP4) [MIM:613731]: A retinal dystrophy belonging to the group of pigmentary retinopathies. Retinitis pigmentosa is characterized by retinal pigment deposits visible on fundus examination and primary loss of rod photoreceptor cells followed by secondary loss of cone photoreceptors. Patients typically have night vision blindness and loss of midperipheral visual field. As their condition progresses, they lose their far peripheral visual field and eventually central vision as well. {ECO:0000269|PubMed:12566452, ECO:0000269|PubMed:1302614, ECO:0000269|PubMed:1391967, ECO:0000269|PubMed:1833777, ECO:0000269|PubMed:1840561, ECO:0000269|PubMed:1862076, ECO:0000269|PubMed:1897520, ECO:0000269|PubMed:1985460, ECO:0000269|PubMed:19934218, ECO:0000269|PubMed:19960070, ECO:0000269|PubMed:2137202, ECO:0000269|PubMed:2215617, ECO:0000269|PubMed:22334370, ECO:0000269|PubMed:2239971, ECO:0000269|PubMed:7633434, ECO:0000269|PubMed:7981701, ECO:0000269|PubMed:7987326, ECO:0000269|PubMed:7987331, ECO:0000269|PubMed:8045708, ECO:0000269|PubMed:8076945, ECO:0000269|PubMed:8081400, ECO:0000269|PubMed:8088850, ECO:0000269|PubMed:8317502, ECO:0000269|PubMed:8353500, ECO:0000269|PubMed:8554077, ECO:0000269|PubMed:9452035}. Note=The disease is caused by mutations affecting the gene represented in this entry.
The name and a short description of the disease associated with the variant. For more information about the disease, the user can refer to OMIM, following the link provided after the disease acronym.

Variant description:  In RP4.
Any additional useful information about the variant.

Other resources:  
Links to websites of interest for the variant.



Sequence information

Variant position:  17
The position of the amino-acid change on the UniProtKB canonical protein sequence.

Protein sequence length:  348
The length of the canonical sequence.

Location on the sequence:   MNGTEGPNFYVPFSNA  T GVVRSPFEYPQYYLAEPWQF
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                         MNGTEGPNFYVPFSNATGVVRSPFEYPQYYLAEPWQF

                              MNGTEGPNFYVPFSNKTGVVRSPFEYPQYYLAEPWQF

Mouse                         MNGTEGPNFYVPFSNVTGVVRSPFEQPQYYLAEPWQF

Rat                           MNGTEGPNFYVPFSNITGVVRSPFEQPQYYLAEPWQF

Pig                           MNGTEGPNFYVPFSNKTGVVRSPFEYPQYYLAEPWQF

Bovine                        MNGTEGPNFYVPFSNKTGVVRSPFEAPQYYLAEPWQF

Rabbit                        MNGTEGPDFYIPMSNQTGVVRSPFEYPQYYLAEPWQF

Sheep                         MNGTEGPNFYVPFSNKTGVVRSPFEAPQYYLAEPWQF

Cat                           MNGTEGPNFYVPFSNKTGVVRSPFEYPQYYLAEPWQF

Chicken                       MNGTEGQDFYVPMSNKTGVVRSPFEYPQYYLAEPWKF

Xenopus laevis                MNGTEGPNFYVPMSNKTGVVRSPFDYPQYYLAEPWQY

Zebrafish                     MNGTEGPAFYVPMSNATGVVRSPYEYPQYYLVAPWAY

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.

TypePositionsDescription
Chain 1 – 348 Rhodopsin
Topological domain 1 – 36 Extracellular
Modified residue 1 – 1 N-acetylmethionine
Glycosylation 2 – 2 N-linked (GlcNAc...) asparagine
Glycosylation 15 – 15 N-linked (GlcNAc...) asparagine
Beta strand 16 – 18


Literature citations

Identification of novel rhodopsin mutations associated with retinitis pigmentosa by GC-clamped denaturing gradient gel electrophoresis.
Sheffield V.C.; Fishman G.A.; Beck J.S.; Kimura A.E.; Stone E.M.;
Am. J. Hum. Genet. 49:699-706(1991)
Cited for: VARIANTS RP4 MET-17; HIS-23; ARG-58; SER-182 AND LEU-267;

Point mutations of rhodopsin gene found in Japanese families with autosomal dominant retinitis pigmentosa (ADRP).
Fujiki K.; Hotta Y.; Hayakawa M.; Sakuma H.; Shiono T.; Noro M.; Sakuma T.; Tamai M.; Hikiji K.; Kawaguchi R.; Hoshi A.; Nakajima A.; Kanai A.;
Jpn. J. Hum. Genet. 37:125-132(1992)
Cited for: VARIANTS RP4 MET-17 AND LEU-347;

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.