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UniProtKB/Swiss-Prot variant pages

UniProtKB/Swiss-Prot P04004: Variant p.Thr400Met

Vitronectin
Gene: VTN
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Variant information Variant position: help 400 The position of the amino-acid change on the UniProtKB canonical protein sequence.
Type of variant: help 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: help From Threonine (T) to Methionine (M) at position 400 (T400M, p.Thr400Met). 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 medium size and polar (T) to medium size and hydrophobic (M) 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

Other resources: help Links to websites of interest for the variant.


Sequence information Variant position: help 400 The position of the amino-acid change on the UniProtKB canonical protein sequence.
Protein sequence length: help 478 The length of the canonical sequence.
Location on the sequence: help RSQRGHSRGRNQNSRRPSRA T WLSLFSSEESNLGANNYDDY 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                         RSQRGHS--RG--RNQNSRRPSRATWLSLFSSEESNLGANNYDDY

Mouse                         RSRRGRGHRRS--QSSNSRRSSRSIWFSLFSSEESGLGTYN

Pig                           RSRRGRGRGRGHSRSQKSHRQSRSTWLPWFSSEETGPGGYN

Rabbit                        RSRYGRG------RSQNSRRLSRSISRLWFSSEEVSLGPYN

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 20 – 478 Vitronectin
Chain 399 – 478 Vitronectin V10 subunit
Modified residue 397 – 397 Phosphoserine; by PKA
Modified residue 417 – 417 Sulfotyrosine
Modified residue 420 – 420 Sulfotyrosine
Disulfide bond 293 – 430



Literature citations
Submission
SeattleSNPs variation discovery resource;
Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA]; VARIANTS SER-122; GLN-268 AND MET-400; The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC).
The MGC Project Team;
Genome Res. 14:2121-2127(2004)
Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA]; VARIANT MET-400;
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.