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UniProtKB/Swiss-Prot variant pages

UniProtKB/Swiss-Prot Q9Y678: Variant p.Lys652Glu

Coatomer subunit gamma-1
Gene: COPG1
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Variant information Variant position: help 652 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 Lysine (K) to Glutamate (E) at position 652 (K652E, p.Lys652Glu). 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 (K) to medium size and acidic (E) The physico-chemical property of the reference and variant residues and the change implicated.
BLOSUM score: help 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
Variant description: help In IMD128; likely pathogenic; decreased retrograde Golgi-to-ER protein transport. Any additional useful information about the variant.


Sequence information Variant position: help 652 The position of the amino-acid change on the UniProtKB canonical protein sequence.
Protein sequence length: help 874 The length of the canonical sequence.
Location on the sequence: help SSPEPVALTESETEYVIRCT K HTFTNHMVFQFDCTNTLNDQ 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                         SSPEPVALTESETEYVIRCTKHTFTNHMVFQFDCTNTLNDQ

Mouse                         SSPEPVALTESETEYVIRCTKHTFSDHLVFQFDCTNTLNDQ

Rat                           SSPEPVALTESETEYVIRCTKHTFSDHLVFQFDCTNTLNDQ

Bovine                        SSPEPVALTESETEYVIRCTKHTFTDHMVFQFDCTNTLNDQ
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 – 874 Coatomer subunit gamma-1
Region 609 – 874 Interaction with ZNF289/ARFGAP2
Beta strand 644 – 654



Literature citations
Combined immunodeficiency due to a mutation in the gamma1 subunit of the coat protein I complex.
Bainter W.; Platt C.D.; Park S.Y.; Stafstrom K.; Wallace J.G.; Peters Z.T.; Massaad M.J.; Becuwe M.; Salinas S.A.; Jones J.; Beaussant-Cohen S.; Jaber F.; Yang J.S.; Walther T.C.; Orange J.S.; Rao C.; Rakoff-Nahoum S.; Tsokos M.; Naseem S.U.R.; Al-Tamemi S.; Chou J.; Hsu V.W.; Geha R.S.;
J. Clin. Invest. 131:0-0(2021)
Cited for: VARIANT IMD128 GLU-652; INVOLVEMENT IN IMD128; CHARACTERIZATION OF VARIANT IMD128 GLU-652; SUBUNIT;
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.