UniProtKB/SwissProt variant VAR

Variant information

Variant position:

246

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

Type of variant:

US

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 Arginine (R) to Histidine (H) at position 246 (R246H, p.Arg246His).

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 large size and basic (R) to medium size and polar (H)

The physico-chemical property of the reference and variant residues and the change implicated.

BLOSUM score:

0

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:

Found in a patient affected by oligo-astheno-teratozoospermia also carrying Y-276 on the same allele; unknown pathological significance.

Any additional useful information about the variant.

Other resources:

Links to websites of interest for the variant.

Variant rs587777767 [ dbSNP | Ensembl ]

Sequence information

Variant position:

246

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

Protein sequence length:

292

The length of the canonical sequence.

Location on the sequence:

LYTTHILKGPDGRVLCPVLR R YTCPLCGASGDNAHTIKYCP

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                         LYTTHILKGPDGRVLCPVLRRYTCPLCGASGDNAHTIKYCP

Mouse                         LYTTHILKGPDGRVLCPVLRRYTCPLCGASGDNAHTIKYCP

Xenopus laevis                LYTSHRLRALDGRVLCPVLRGYTCPLCGANGDWAHTMRYCP

Xenopus tropicalis            LYSSHRLRAPDGRVLCPVLRGYTCPLCGANGDWAHTMRYCP

Zebrafish                     VYGSHVLKTPDGRVVCPILRAYTCPLCSANGDNAHTIKYCP

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 – 292	Nanos homolog 1
Zinc finger	213 – 267	Nanos-type
Metal binding	230 – 230	Zinc 1
Metal binding	241 – 241	Zinc 1
Metal binding	249 – 249	Zinc 2
Metal binding	252 – 252	Zinc 2
Metal binding	260 – 260	Zinc 2
Metal binding	265 – 265	Zinc 2

Literature citations

Mutations of NANOS1, a human homologue of the Drosophila morphogen, are associated with a lack of germ cells in testes or severe oligo-astheno-teratozoospermia.
Kusz-Zamelczyk K.; Sajek M.; Spik A.; Glazar R.; Jedrzejczak P.; Latos-Bielenska A.; Kotecki M.; Pawelczyk L.; Jaruzelska J.;
J. Med. Genet. 50:187-193(2013)
Cited for: VARIANTS SPGF12 SER-78 DEL AND ALA-173 DEL; VARIANTS THR-34; HIS-246 AND TYR-276;

UniProtKB/Swiss-Prot variant pages

UniProtKB/Swiss-Prot Q8WY41: Variant p.Arg246His