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UniProtKB/Swiss-Prot O14521: Variant p.Leu139Pro

Succinate dehydrogenase [ubiquinone] cytochrome b small subunit, mitochondrial
Gene: SDHD
Variant information

Variant position:  139
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 Leucine (L) to Proline (P) at position 139 (L139P, p.Leu139Pro).
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:  Similar physico-chemical property. Both residues are medium size and hydrophobic.
The physico-chemical property of the reference and variant residues and the change implicated.

BLOSUM score:  -3
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:  Paragangliomas 1 (PGL1) [MIM:168000]: A neural crest tumor usually derived from the chromoreceptor tissue of a paraganglion. PGL1 is a rare autosomal dominant disorder which is characterized by the development of mostly benign, highly vascular, slowly growing tumors in the head and neck. In the head and neck region, the carotid body is the largest of all paraganglia and is also the most common site of the tumors. {ECO:0000269|PubMed:10657297, ECO:0000269|PubMed:11343322, ECO:0000269|PubMed:11391796, ECO:0000269|PubMed:11391798, ECO:0000269|PubMed:15328326}. 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 PGL1.
Any additional useful information about the variant.

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



Sequence information

Variant position:  139
The position of the amino-acid change on the UniProtKB canonical protein sequence.

Protein sequence length:  159
The length of the canonical sequence.

Location on the sequence:   ALQKAAKAGLLALSALTFAG  L CYFNYHDVGICKAVAMLWKL
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                         ALQKAAKAGLLALSALTFAGLCYFNYHDVGICKAVAMLWKL-------------

Mouse                         TLPKAARAGLLALSALTFAGLCYFNYHDVGICRAVAMLWKL

Rat                           ALQKATKAGLLAVSALTFAGLCYFNYHDVGICRAVAMLWKL

Pig                           ALQKVAKAGLLALSAFTFAGLCYFNYHDVGICKAVAMLWKL

Bovine                        AVQKAAKTGLLVLSAFTFAGLCYFNYHDVGICKAVAMLWKL

Sheep                         AVQKAAKTGLLVLSAFTFAGLCYFNYHDVGICKAVAMLWKL

Chicken                       TPIKVANTGLYVLSAITFTGLCYFNYYDVGICKAVAMLWSI

Xenopus tropicalis            AKIKMANTSLFALSALTFAGLCYFNYHDVGICKAVSMLWSL

Caenorhabditis elegans        AAAKAAHVGVYLITGLLLGALLHFNTNDVGITKAFELVFSL

Drosophila                    VLPKVAHIALIIISVATLGGLFYFIQNDVGLANGIKRFWAI

Baker's yeast                 VWHKYAMYMLGLGSAVSLFGIYKLETENDGVVGLVKSLWDS

Fission yeast                 KLSPLMHWILRGCTVLTLIGVYEFNTNDIGLTEGIKKLWKS

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 57 – 159 Succinate dehydrogenase [ubiquinone] cytochrome b small subunit, mitochondrial
Transmembrane 121 – 142 Helical
Alternative sequence 56 – 158 HSGSKAASLHWTSERVVSVLLLGLLPAAYLNPCSAMDYSLAAALTLHGHWGLGQVVTDYVHGDALQKAAKAGLLALSALTFAGLCYFNYHDVGICKAVAMLWK -> HWALDKLLLTMFMGMPCRKLPRQGFWHFQ. In isoform 3.
Alternative sequence 106 – 143 GLGQVVTDYVHGDALQKAAKAGLLALSALTFAGLCYFN -> LECNGAILARHDLGSARSQLTATSAFRVQAILLPQPPK. In isoform 4.


Literature citations

Nearly all hereditary paragangliomas in the Netherlands are caused by two founder mutations in the SDHD gene.
Taschner P.E.M.; Jansen J.C.; Baysal B.E.; Bosch A.; Rosenberg E.H.; Broecker-Vriends A.H.J.T.; van Der Mey A.G.L.; van Ommen G.-J.B.; Cornelisse C.J.; Devilee P.;
Genes Chromosomes Cancer 31:274-281(2001)
Cited for: VARIANTS PGL1 TYR-92 AND PRO-139;

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.