SMTL ID : 1i3r.1 (6 other biounits)

CRYSTAL STRUCTURE OF A MUTANT IEK CLASS II MHC MOLECULE

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.40 Å

Oligo State

hetero-4-4-mer

Ligands

4 x NAG- NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)

NAG-NAG.1: 4 residues within 4Å: Chain A: N.118, D.166, H.167, W.168 No protein-ligand interaction detected (PLIP) NAG-NAG.2: 4 residues within 4Å: Chain C: N.118, D.166, H.167, W.168 No protein-ligand interaction detected (PLIP) NAG-NAG.3: 4 residues within 4Å: Chain E: N.118, D.166, H.167, W.168 No protein-ligand interaction detected (PLIP) NAG-NAG.4: 4 residues within 4Å: Chain G: N.118, D.166, H.167, W.168 No protein-ligand interaction detected (PLIP)

8 x NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)

NAG.5: 3 residues within 4Å: Chain A: N.78 Chain B: V.24 Chain D: V.173 2 PLIP interactions: 1 interactions with chain D, 1 interactions with chain A Hydrophobic interactions: D:V.173 Hydrogen bonds: A:N.78 NAG.6: 3 residues within 4Å: Chain B: Y.48, N.49, Q.52 3 PLIP interactions: 3 interactions with chain B Hydrophobic interactions: B:Y.48, B:N.49 Hydrogen bonds: B:Q.52 NAG.7: 2 residues within 4Å: Chain C: N.78 Chain D: V.24 No protein-ligand interaction detected (PLIP) NAG.8: 2 residues within 4Å: Chain D: N.49, Q.52 3 PLIP interactions: 1 interactions with chain C, 2 interactions with chain D Water bridges: C:E.3, D:T.51 Hydrogen bonds: D:Q.52 NAG.9: 3 residues within 4Å: Chain E: N.78 Chain F: V.24 Chain H: V.173 3 PLIP interactions: 1 interactions with chain E, 1 interactions with chain H, 1 interactions with chain F Hydrogen bonds: E:N.78 Hydrophobic interactions: H:V.173 Water bridges: F:G.26 NAG.10: 2 residues within 4Å: Chain F: N.49, Q.52 2 PLIP interactions: 2 interactions with chain F Water bridges: F:N.49, F:N.49 NAG.11: 3 residues within 4Å: Chain F: V.173 Chain G: N.78 Chain H: V.24 3 PLIP interactions: 2 interactions with chain G, 1 interactions with chain F Hydrogen bonds: G:N.78, G:N.78 Hydrophobic interactions: F:V.173 NAG.12: 5 residues within 4Å: Chain F: D.73 Chain H: Y.48, N.49, Q.52, R.53 3 PLIP interactions: 3 interactions with chain H Hydrophobic interactions: H:Y.48 Hydrogen bonds: H:N.49, H:Q.52

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Wilson, N. et al., Mutations changing the kinetics of class II MHC peptide exchange. Immunity (2001)

Release Date

2001-06-20

Peptides

H-2 CLASS II HISTOCOMPATIBILITY ANTIGEN, E-K ALPHA CHAIN: ACEG
FUSION PROTEIN CONSISTING OF MHC E-BETA-K PRECURSOR, GLYCINE RICH LINKER, AND HEMOGLOBIN BETA-2 CHAIN: BDFH

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

C
C

E
E

G
G

B
B

D
D

F
F

H
H

H-2 CLASS II HISTOCOMPATIBILITY ANTIGEN, E-K ALPHA CHAIN

FUSION PROTEIN CONSISTING OF MHC E-BETA-K PRECURSOR, GLYCINE RICH LINKER, AND HEMOGLOBIN BETA-2 CHAIN

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