Expasy logo

UniProtKB/Swiss-Prot variant pages

UniProtKB/Swiss-Prot P18074: Variant p.Arg683Trp

General transcription and DNA repair factor IIH helicase subunit XPD
Gene: ERCC2
Feedback?
Variant information Variant position: help 683 The position of the amino-acid change on the UniProtKB canonical protein sequence.
Type of variant: help 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: help From Arginine (R) to Tryptophan (W) at position 683 (R683W, p.Arg683Trp). 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: help Change from large size and basic (R) to large size and aromatic (W) The physico-chemical property of the reference and variant residues and the change implicated.
BLOSUM score: help -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

Variant description: help In XP-D; vitamin D-mediated activation of CYP24A1 is impaired in patient fibroblasts due to altered TFIIH-dependent phosphorylation of ETS1, subsequent impaired cooperation of ETS1 with VDR and altered VDR recruitment to CYP24A1 promoter; damaged DNA opening by TFIIH is impeded. Any additional useful information about the variant.
Other resources: help Links to websites of interest for the variant.


Sequence information Variant position: help 683 The position of the amino-acid change on the UniProtKB canonical protein sequence.
Protein sequence length: help 760 The length of the canonical sequence.
Location on the sequence: help CVGRAIRGKTDYGLMVFADK R FARGDKRGKLPRWIQEHLTD 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: help The multiple alignment of the region surrounding the variant against various orthologous sequences.
Human                         CVGRAIRGKTDYGLMVFADKRFARGDKRGKLPRWIQEHLTD

Mouse                         CVGRAIRGKTDYGLMVFADKRFARADKRGKLPRWIQEHLTD

Bovine                        CVGRAIRGKTDYGLMVFADKRFARADKRGKLPRWIQEHLTD

Slime mold                    CVGRVIRGKSDYGIMIFADKRYNRLDKRNKLPQWILQFCQP

Sequence annotation in neighborhood: help 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 – 760 General transcription and DNA repair factor IIH helicase subunit XPD
Motif 682 – 695 Nuclear localization signal
Alternative sequence 430 – 760 Missing. In isoform 2.
Mutagenesis 675 – 675 G -> W. No longer interacts with GTF2H2/p44, has 5'-3' helicase activity.
Helix 682 – 685



Literature citations
Selective regulation of vitamin D receptor-responsive genes by TFIIH.
Drane P.; Compe E.; Catez P.; Chymkowitch P.; Egly J.-M.;
Mol. Cell 16:187-197(2004)
Cited for: FUNCTION; POSSIBLE PATHOLOGICAL MECHANISM OF VARIANT XP-D TRP-683; Distinct roles for the XPB/p52 and XPD/p44 subcomplexes of TFIIH in damaged DNA opening during nucleotide excision repair.
Coin F.; Oksenych V.; Egly J.M.;
Mol. Cell 26:245-256(2007)
Cited for: VARIANT TTD1 HIS-658; VARIANT XP-D TRP-683; VARIANT TTD1 TRP-722; MUTAGENESIS OF LYS-48;
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.