UniProtKB/Swiss-Prot P12110: Variant p.Ser399Asn

Collagen alpha-2(VI) chain
Gene: COL6A2
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Variant information Variant position:

399 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 Serine (S) to Asparagine (N) at position 399 (S399N, p.Ser399Asn). 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 small size and polar (S) to medium size and polar (N) 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
Other resources:

Links to websites of interest for the variant.

Variant rs2839110 [ dbSNP | Ensembl ]

Sequence information Variant position:

399 The position of the amino-acid change on the UniProtKB canonical protein sequence.
Protein sequence length:

1019 The length of the canonical sequence.
Location on the sequence:

GRRGPPGEIGAKGSKGYQGN S GAPGSPGVKGAKGGPGPRGP 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                         GRRGPPGEIGAKGSKGYQGNSGAPGSPGVKGAKGGPGPRGP

Mouse                         GRRGPPGDPGDKGSKGYQGNNGAPGSPGVKGGKGGPGPRGP

Chicken                       GRSGPPGPPGEKGSPGIPGNPGAQGPGGTKGRKGETGPPGP

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	21 – 1019	Collagen alpha-2(VI) chain
Region	257 – 590	Triple-helical region
Region	257 – 588	Disordered

Literature citations
Submission
Chu M.-L.;
Cited for: NUCLEOTIDE SEQUENCE [MRNA] (ISOFORM 2C2); SEQUENCE REVISION; VARIANTS ASN-227; ASN-399 AND HIS-680; 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] (ISOFORM 2C2); VARIANT ASN-399; The exon organization of the triple-helical coding regions of the human alpha 1(VI) and alpha 2(VI) collagen genes is highly similar.
Saitta B.; Wang Y.-M.; Renkart L.; Zhang R.-Z.; Pan T.-C.; Timpl R.; Chu M.-L.;
Genomics 11:145-153(1991)
Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA] OF 246-590; VARIANT ASN-399; Dominant collagen VI mutations are a common cause of Ullrich congenital muscular dystrophy.
Baker N.L.; Moergelin M.; Peat R.; Goemans N.; North K.N.; Bateman J.F.; Lamande S.R.;
Hum. Mol. Genet. 14:279-293(2005)
Cited for: VARIANTS UCMD1B PRO-837 AND ASN-897 DEL; CHARACTERIZATION OF VARIANTS UCMD1B PRO-837 AND ASN-897 DEL; VARIANTS ASN-227; ASN-399 AND HIS-680; Automated genomic sequence analysis of the three collagen VI genes: applications to Ullrich congenital muscular dystrophy and Bethlem myopathy.
Lampe A.K.; Dunn D.M.; von Niederhausern A.C.; Hamil C.; Aoyagi A.; Laval S.H.; Marie S.K.; Chu M.-L.; Swoboda K.; Muntoni F.; Bonnemann C.G.; Flanigan K.M.; Bushby K.M.D.; Weiss R.B.;
J. Med. Genet. 42:108-120(2005)
Cited for: VARIANTS BTHLM1B SER-700 AND ARG-777; VARIANTS UCMD1B ARG-283; HIS-498; ARG-531; ARG-777 AND SER-876; VARIANTS LYS-106; ASN-227; ASN-399; GLN-489; SER-518; HIS-680; CYS-724; HIS-784; GLY-804; GLN-853 AND ARG-935; Molecular consequences of dominant Bethlem myopathy collagen VI mutations.
Baker N.L.; Moergelin M.; Pace R.A.; Peat R.A.; Adams N.E.; Gardner R.J.; Rowland L.P.; Miller G.; De Jonghe P.; Ceulemans B.; Hannibal M.C.; Edwards M.; Thompson E.M.; Jacobson R.; Quinlivan R.C.M.; Aftimos S.; Kornberg A.J.; North K.N.; Bateman J.F.; Lamande S.R.;
Ann. Neurol. 62:390-405(2007)
Cited for: VARIANT BTHLM1B LEU-932; VARIANTS ASN-227; ASN-399; HIS-680 AND ARG-895;

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.