SMTL ID : 3fqn.1

Phosphorylation of self-peptides alters Human Leukocyte Antigen Class I-restricted antigen presentation and generates tumor specific epitopes

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.65 Å

Oligo State

hetero-1-1-1-mer

Ligands

6 x CD: CADMIUM ION(Non-covalent)

CD.1: 2 residues within 4Å: Chain A: D.30, E.212 5 PLIP interactions: 2 interactions with chain A, 3 Ligand-Water interactions Metal complexes: A:D.30, A:E.212, H2O.2, H2O.13, H2O.14 CD.2: 2 residues within 4Å: Chain A: G.1, H.3 4 PLIP interactions: 2 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:G.1, A:H.3, H2O.5, H2O.10 CD.3: 2 residues within 4Å: Chain A: H.197, E.198 4 PLIP interactions: 2 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:H.197, A:E.198, H2O.4, H2O.7 CD.4: 1 residues within 4Å: Chain A: H.191 2 PLIP interactions: 2 interactions with chain A Metal complexes: A:H.191, A:H.191 CD.8: 1 residues within 4Å: Chain B: H.50 5 PLIP interactions: 1 interactions with chain B, 4 Ligand-Water interactions Metal complexes: B:H.50, H2O.8, H2O.17, H2O.18, H2O.18 CD.10: 3 residues within 4Å: Chain A: H.70, Y.99 Chain C: D.3 2 PLIP interactions: 1 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:H.70, H2O.4

2 x MG: MAGNESIUM ION(Non-covalent)

MG.5: 3 residues within 4Å: Chain A: H.151, A.153, E.154 No protein-ligand interaction detected (PLIP) MG.6: 2 residues within 4Å: Chain A: E.19, Q.72 3 PLIP interactions: 2 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:E.19, A:E.19, H2O.2

2 x GOL: GLYCEROL(Non-functional Binders)

GOL.7: 6 residues within 4Å: Chain A: R.6, F.8, Y.27, D.29, D.30 Chain B: Y.62 3 PLIP interactions: 1 interactions with chain B, 2 interactions with chain A Hydrogen bonds: B:Y.62, A:R.6, A:D.30 GOL.9: 8 residues within 4Å: Chain A: R.14, R.21, I.23 Chain B: S.32, D.33, H.50, L.53, L.63 6 PLIP interactions: 2 interactions with chain A, 4 interactions with chain B Hydrogen bonds: A:R.14, B:D.33 Water bridges: A:R.21, B:I.34, B:H.50, B:S.51

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Petersen, J. et al., Phosphorylated self-peptides alter human leukocyte antigen class I-restricted antigen presentation and generate tumor-specific epitopes. Proc.Natl.Acad.Sci.Usa (2009)

Release Date

2009-03-03

Peptides

HLA class I histocompatibility antigen, A-2 alpha chain: A
Beta-2-microglobulin: B
peptide 30-39 from beta-Catenin: YLDSGIHSGA: C

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

HLA class I histocompatibility antigen, A-2 alpha chain

Beta-2-microglobulin

peptide 30-39 from beta-Catenin: YLDSGIHSGA

Related Entries With Identical Sequence