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UniProtKB/Swiss-Prot Q9BQ51: Variant p.Phe229Ser

Programmed cell death 1 ligand 2
Gene: PDCD1LG2
Variant information

Variant position:  229
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 Phenylalanine (F) to Serine (S) at position 229 (F229S, p.Phe229Ser).
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 aromatic (F) to small size and polar (S)
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

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



Sequence information

Variant position:  229
The position of the amino-acid change on the UniProtKB canonical protein sequence.

Protein sequence length:  273
The length of the canonical sequence.

Location on the sequence:   LQSQMEPRTHPTWLLHIFIP  F CIIAFIFIATVIALRKQLCQ
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                         LQSQMEPRTHPTWLLHIFIPFCIIAFIFIATVIALRKQLCQ

Mouse                         PLSRMEPKVPRTWPLHVFIPACTIALIFLAIVIIQRKRI--

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.

TypePositionsDescription
Chain 20 – 273 Programmed cell death 1 ligand 2
Transmembrane 221 – 241 Helical
Alternative sequence 183 – 273 Missing. In isoform 3.


Literature citations

B7-DC, a new dendritic cell molecule with potent costimulatory properties for T cells.
Tseng S.-Y.; Otsuji M.; Gorski K.; Huang X.; Slansky J.E.; Pai S.I.; Shalabi A.; Shin T.; Pardoll D.M.; Tsuchiya H.;
J. Exp. Med. 193:839-846(2001)
Cited for: NUCLEOTIDE SEQUENCE [MRNA] (ISOFORM 1); INDUCTION; VARIANT SER-229;

PD-L2 is a second ligand for PD-1 and inhibits T cell activation.
Latchman Y.; Wood C.R.; Chernova T.; Chaudhary D.; Borde M.; Chernova I.; Iwai Y.; Long A.J.; Brown J.A.; Nunes R.; Greenfield E.A.; Bourque K.; Boussiotis V.A.; Carter L.L.; Carreno B.M.; Malenkovich N.; Nishimura H.; Okazaki T.; Honjo T.; Sharpe A.H.; Freeman G.J.;
Nat. Immunol. 2:261-268(2001)
Cited for: NUCLEOTIDE SEQUENCE [MRNA] (ISOFORM 1); TISSUE SPECIFICITY; INDUCTION; VARIANT SER-229;

Cloning and identification of two novel splice variants of human PD-L2.
He X.-H.; Liu Y.; Xu L.-H.; Zeng Y.-Y.;
Acta Biochim. Biophys. Sin. 36:284-289(2004)
Cited for: NUCLEOTIDE SEQUENCE [MRNA] (ISOFORMS 1; 2 AND 3); SUBCELLULAR LOCATION (ISOFORMS 1; 2 AND 3); VARIANT SER-229;

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 1); VARIANT SER-229;

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.