SMTL ID : 7lfl.1

MODEL OF MHC CLASS Ib H2-M3 WITH MOUSE ND1 N-TERMINAL HEPTAPEPTIDE, VAL MUTANT, MONOCLINIC CELL, REFINED AT 1.60 ANGSTROMS RESOLUTION

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.60 Å

Oligo State

hetero-1-1-mer

Ligands

1 x FME- PHE- PHE- ILE- ASN- VAL- LEU: Heptapeptide from NADH-ubiquinone oxidoreductase chain 1(Non-covalent)

FME-PHE-PHE-ILE-ASN-VAL-LEU.1: 34 residues within 4Å: Chain A: Y.7, H.9, Y.22, S.24, Q.34, C.36, L.63, K.66, V.67, I.70, S.73, A.74, N.77, T.80, L.81, Y.84, L.95, W.97, V.99, Y.114, A.116, Y.123, I.124, W.133, V.139, I.142, T.143, R.146, L.147, T.152, Y.155, F.156, Y.159, E.163 27 PLIP interactions: 27 interactions with chain A Hydrophobic interactions: A:K.66, A:T.80, A:L.81, A:Y.84, A:Y.123, A:W.133, A:V.139, A:I.142, A:T.143, A:L.147, A:F.156, A:Y.159 Hydrogen bonds: A:H.9, A:N.77, A:N.77, A:N.77, A:N.77, A:W.97, A:Y.114, A:Y.114, A:T.143, A:R.146, A:Y.159, A:Y.159 Water bridges: A:T.80, A:T.80 pi-Stacking: A:W.97

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

NAG.2: 5 residues within 4Å: Chain A: R.83, N.86, Q.87, S.88, E.89 1 PLIP interactions: 1 interactions with chain A Water bridges: A:N.86

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Strand, A. et al., Structure and dynamics of major histocompatibility class Ib molecule H2-M3 complexed with mitochondrial-derived peptides. J.Biomol.Struct.Dyn. (2022)

Release Date

2021-07-14

Peptides

Histocompatibility 2, M region locus 3: A
Beta-2-microglobulin: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Histocompatibility 2, M region locus 3

Beta-2-microglobulin

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