SMTL ID : 8ral.1

CL3E peptide bound to the I-Ab murine MHC class II receptor

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.10 Å

Oligo State

hetero-1-1-1-mer

Ligands

1 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: 3 residues within 4Å: Chain A: N.122, W.172 Ligands: GAL-NAG-MAN.2 No protein-ligand interaction detected (PLIP)

1 x GAL- NAG- MAN: alpha-D-mannopyranose-(1-1)-2-acetamido-2-deoxy-beta-D-glucopyranose-(4-2)-beta-D-galactopyranose(Non-functional Binders)

GAL-NAG-MAN.2: 1 residues within 4Å: Ligands: NAG-NAG.1 No protein-ligand interaction detected (PLIP)

2 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)

EDO.3: 3 residues within 4Å: Chain A: T.156, F.157, I.158 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:T.156, A:T.156 EDO.7: 1 residues within 4Å: Chain B: W.214 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:W.214

3 x NA: SODIUM ION(Non-functional Binders)

NA.4: 4 residues within 4Å: Chain A: I.14, Q.25, Y.26, T.27 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:Q.25, A:Q.25, A:T.27 NA.5: 3 residues within 4Å: Chain A: E.44, T.45, W.47 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:W.47 Water bridges: A:T.45, A:T.45 NA.6: 6 residues within 4Å: Chain A: P.100, V.101, L.102, Q.105, N.107, P.159 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:L.102, A:L.102, A:N.107

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Lopez-Sagaseta, J. et al., CL3E peptide bound to the I-Ab murine MHC class II receptor. To be published

Release Date

2024-11-06

Peptides

H-2 class II histocompatibility antigen, A-B alpha chain: A
H-2 class II histocompatibility antigen, A beta chain: B
CL3E peptide: C

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

H-2 class II histocompatibility antigen, A-B alpha chain

H-2 class II histocompatibility antigen, A beta chain

CL3E peptide