UniProtKB/SwissProt variant VAR

Variant information

Variant position:

178

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

Type of variant:

LB/B

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 Methionine (M) to Threonine (T) at position 178 (M178T, p.Met178Thr).

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 hydrophobic (M) to medium size and polar (T)

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

BLOSUM score:

-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

Polymorphism:

The T-kinin peptide is missing residues 378 to 380, probably as a result of a naturally occurring variant. The complete sequence of the T-kinin peptide is therefore ISRPPGFSPFR. This peptide is associated with malignant tumors but not with benign ones.

Additional information on the polymorphism described.

Other resources:

Links to websites of interest for the variant.

Variant rs1656922 [ dbSNP | Ensembl ]

Sequence information

Variant position:

178

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

Protein sequence length:

644

The length of the canonical sequence.

Location on the sequence:

PILRHGIQYFNNNTQHSSLF M LNEVKRAQRQVVAGLNFRIT

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                         PILRHGIQYFNNNTQHSSLFMLNEVKRAQRQVVAGLNFRIT

Mouse                         PVLKHSIEHFNNNTDHSHLFTLRKVKSAHRQVVAGLNFDIT

Rat                           PVLKHAVEHFNNNTKHTHLFALGEVKSADRQVVAGMNYQII

Bovine                        PVLRYAIQYFNNNTSHSHLFDLKEVKRAQRQVVSGWNYEVN

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	19 – 644	Kininogen-1
Chain	19 – 380	Kininogen-1 heavy chain
Domain	151 – 254	Cystatin kininogen-type 2
Glycosylation	169 – 169	N-linked (GlcNAc...) asparagine
Disulfide bond	28 – 614	Interchain (between heavy and light chains)

Literature citations

Submission
Totoki Y.; Toyoda A.; Takeda T.; Sakaki Y.; Tanaka A.; Yokoyama S.;
Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORM LMW); VARIANT THR-178;

Submission
SeattleSNPs variation discovery resource;
Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA]; VARIANTS SER-163; THR-178 AND PRO-212;

Submission
Mural R.J.; Istrail S.; Sutton G.G.; Florea L.; Halpern A.L.; Mobarry C.M.; Lippert R.; Walenz B.; Shatkay H.; Dew I.; Miller J.R.; Flanigan M.J.; Edwards N.J.; Bolanos R.; Fasulo D.; Halldorsson B.V.; Hannenhalli S.; Turner R.; Yooseph S.; Lu F.; Nusskern D.R.; Shue B.C.; Zheng X.H.; Zhong F.; Delcher A.L.; Huson D.H.; Kravitz S.A.; Mouchard L.; Reinert K.; Remington K.A.; Clark A.G.; Waterman M.S.; Eichler E.E.; Adams M.D.; Hunkapiller M.W.; Myers E.W.; Venter J.C.;
Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]; VARIANT THR-178;

UniProtKB/Swiss-Prot variant pages

UniProtKB/Swiss-Prot P01042: Variant p.Met178Thr