SMTL ID : 6gb6.2 (1 other biounit)

Structure of H-2Kb with dipeptide GL

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.78 Å

Oligo State

hetero-1-1-mer

Ligands

3 x GOL: GLYCEROL(Non-functional Binders)

GOL.1: 4 residues within 4Å: Chain A: V.9, N.70, F.74, Q.114 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:S.99, A:S.99, A:Q.114 Water bridges: A:N.70 GOL.2: 9 residues within 4Å: Chain A: L.5, Y.7, R.62, E.63, K.66, Y.159, T.163, W.167, Y.171 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:Y.7, A:Y.7, A:R.62, A:Y.159, A:Y.171, A:Y.171 GOL.5: 7 residues within 4Å: Chain A: R.6, F.8, Y.27, D.30 Chain B: F.57, S.58, Y.64 4 PLIP interactions: 3 interactions with chain A, 1 interactions with chain B Hydrogen bonds: A:R.6, A:Y.27, A:D.30, B:Y.64

1 x GLY: GLYCINE(Non-covalent)

GLY.3: 3 residues within 4Å: Chain A: D.77, W.147 Ligands: LEU.4 2 PLIP interactions: 2 interactions with chain A Water bridges: A:D.77, A:D.77

1 x LEU: LEUCINE(Non-covalent)

LEU.4: 8 residues within 4Å: Chain A: D.77, T.80, L.81, Y.84, Y.116, T.143, W.147 Ligands: GLY.3 8 PLIP interactions: 1 Ligand-Ligand interactions, 7 interactions with chain A Hydrogen bonds: L.4, A:D.77, A:Y.84 Hydrophobic interactions: A:L.81, A:Y.116, A:W.147 Water bridges: A:D.77, A:D.77

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Hafstrand, I. et al., Successive crystal structure snapshots suggest the basis for MHC class I peptide loading and editing by tapasin. Proc.Natl.Acad.Sci.USA (2019)

Release Date

2019-03-06

Peptides

H-2 class I histocompatibility antigen, K-B alpha chain: A
Beta-2-microglobulin: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
D

B
E

H-2 class I histocompatibility antigen, K-B alpha chain

Beta-2-microglobulin

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