UniProtKB/SwissProt variant VAR

Variant information

Variant position:

60

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

Type of variant:

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:

From Histidine (H) to Tyrosine (Y) at position 60 (H60Y, p.His60Tyr).

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 (H) to large size and aromatic (Y)

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

Variant description:

In HTOCD.

Any additional useful information about the variant.

Other resources:

Links to websites of interest for the variant.

Variant rs387907230 [ dbSNP | Ensembl ]

Sequence information

Variant position:

60

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

Protein sequence length:

1549

The length of the canonical sequence.

Location on the sequence:

ITFPILFIGWGSQSSKVQIH H NTWLHFPGHNLRWILTFALL

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                         ITFPILFIGWGSQSSKVQIHHNTWLHFPGHNLRWILTFALL

Mouse                         ITFPILFIGWGSQSSKVQIHHNTWLHFPGHNLRWILTFALL

Rat                           ITFPILFIGWGSQSSKVQIHHNTWLHFPGHNLRWILTFALL

Rabbit                        ITFPILFIGWGSQSSKVQIHHNTWLHFPGHNLRWILTFALL

Slime mold                    -----------EEDKEEEIKDKKVLS---------------

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.

Type	Positions	Description
Chain	1 – 1549	ATP-binding cassette sub-family C member 9
Topological domain	52 – 72	Cytoplasmic

Literature citations

Dominant missense mutations in ABCC9 cause Cantu syndrome.
Harakalova M.; van Harssel J.J.; Terhal P.A.; van Lieshout S.; Duran K.; Renkens I.; Amor D.J.; Wilson L.C.; Kirk E.P.; Turner C.L.; Shears D.; Garcia-Minaur S.; Lees M.M.; Ross A.; Venselaar H.; Vriend G.; Takanari H.; Rook M.B.; van der Heyden M.A.; Asselbergs F.W.; Breur H.M.; Swinkels M.E.; Scurr I.J.; Smithson S.F.; Knoers N.V.; van der Smagt J.J.; Nijman I.J.; Kloosterman W.P.; van Haelst M.M.; van Haaften G.; Cuppen E.;
Nat. Genet. 44:793-796(2012)
Cited for: VARIANTS HTOCD TYR-60; GLU-207; CYS-380; LEU-432; PRO-1020; SER-1039; TYR-1054; HIS-1116; CYS-1116; GLN-1154 AND TRP-1154; CHARACTERIZATION OF VARIANTS HTOCD LEU-432; HIS-1116 AND GLN-1154;

UniProtKB/Swiss-Prot variant pages

UniProtKB/Swiss-Prot O60706: Variant p.His60Tyr