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UniProtKB/Swiss-Prot Q8IWS0: Variant p.Cys99Phe

PHD finger protein 6
Gene: PHF6
Chromosomal location: Xq26.3
Variant information

Variant position:  99
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 Cysteine (C) to Phenylalanine (F) at position 99 (C99F, p.Cys99Phe).
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 (C) to large size and aromatic (F)
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

Involvement in disease:  Boerjeson-Forssman-Lehmann syndrome (BFLS) [MIM:301900]: A X-linked recessive disorder characterized by moderate to severe mental retardation, epilepsy, hypogonadism, hypometabolism, obesity with marked gynecomastia, swelling of subcutaneous tissue of the face, narrow palpebral fissure and large but not deformed ears. {ECO:0000269|PubMed:12415272, ECO:0000269|PubMed:23229552, ECO:0000269|PubMed:23906836}. 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 BFLS; Loss of interaction with UBTF.
Any additional useful information about the variant.

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



Sequence information

Variant position:  99
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:   KLMCSLCHCPGATIGCDVKT  C HRTYHYHCALHDKAQIREKP
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                         KLMCSLCHCPGATIGCDVKTCHRTYHYHCALHDKAQIREKP

Mouse                         KLMCSLCHCPGATIGCDVKTCHRTYHYHCALHDKAQIREKP

Bovine                        KLMCSLCHCPGATIGCDVKTCHRTYHYHCALHDKAQIREKP

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 2 – 365 PHD finger protein 6
Zinc finger 80 – 132 PHD-type 1
Region 14 – 132 Extended PHD1 domain (ePHD1)


Literature citations

Mutations in PHF6 are associated with Boerjeson-Forssman-Lehmann syndrome.
Lower K.M.; Turner G.; Kerr B.A.; Mathews K.D.; Shaw M.A.; Gedeon A.K.; Schelley S.; Hoyme H.E.; White S.M.; Delatycki M.B.; Lampe A.K.; Clayton-Smith J.; Stewart H.; van Ravenswaay C.M.A.; de Vries B.B.A.; Cox B.; Grompe M.; Ross S.; Thomas P.; Mulley J.C.; Gecz J.;
Nat. Genet. 32:661-665(2002)
Cited for: NUCLEOTIDE SEQUENCE [MRNA] (ISOFORM 1); TISSUE SPECIFICITY; SUBCELLULAR LOCATION; ALTERNATIVE SPLICING; VARIANTS BFLS TYR-45; PHE-99; ARG-229; GLU-234 AND GLY-257;

PHF6 regulates cell cycle progression by suppressing ribosomal RNA synthesis.
Wang J.; Leung J.W.; Gong Z.; Feng L.; Shi X.; Chen J.;
J. Biol. Chem. 288:3174-3183(2013)
Cited for: FUNCTION; SUBCELLULAR LOCATION; INTERACTION WITH UBTF; CHARACTERIZATION OF VARIANTS BFLS TYR-45 AND PHE-99;

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.