SMTL ID : 3rwg.1

Rhesus macaque MHC class I molecule Mamu-B*17-MW9

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.10 Å

Oligo State

hetero-1-1-mer

Ligands

1 x MET- HIS- PRO- ALA- GLN- THR- SER- GLN- TRP: Nef MW9 peptide from Protein Nef(Non-covalent)

MET-HIS-PRO-ALA-GLN-THR-SER-GLN-TRP.1: 29 residues within 4Å: Chain A: M.5, Y.7, Y.9, S.24, E.45, Y.59, E.62, A.63, R.66, T.73, E.76, N.77, T.80, Y.84, I.95, K.97, Y.99, S.116, Y.123, T.143, K.146, W.147, N.150, Y.152, R.155, F.156, Y.159, W.167, Y.171 32 PLIP interactions: 32 interactions with chain A Hydrophobic interactions: A:R.66, A:T.73, A:N.77, A:I.95, A:I.95, A:Y.123, A:F.156, A:Y.159, A:Y.159 Hydrogen bonds: A:Y.7, A:S.24, A:R.66, A:N.77, A:T.80, A:T.80, A:Y.84, A:N.150, A:Y.152, A:Y.152, A:R.155, A:Y.171, A:Y.171 Water bridges: A:T.73, A:E.76, A:N.77, A:N.77, A:S.116, A:R.155, A:R.155, A:E.163 Salt bridges: A:K.146 pi-Stacking: A:Y.123

1 x XPE: 3,6,9,12,15,18,21,24,27-NONAOXANONACOSANE-1,29-DIOL(Non-covalent)

XPE.2: 8 residues within 4Å: Chain A: E.58, Y.59, E.62, R.66, E.166, W.167, R.170 Ligands: NA.3 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:E.166, A:R.170, A:R.170 Water bridges: A:R.170

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

NA.3: 1 residues within 4Å: Ligands: XPE.2 No protein-ligand interaction detected (PLIP)

2 x PEG: DI(HYDROXYETHYL)ETHER(Non-functional Binders)

PEG.4: 4 residues within 4Å: Chain A: R.17 Chain B: D.35, I.36, E.37 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:D.35, B:E.37 Water bridges: B:H.85, B:V.86 PEG.5: 7 residues within 4Å: Chain A: E.229, V.231, R.234, W.244 Chain B: Q.9, V.10, M.100 5 PLIP interactions: 2 interactions with chain B, 3 interactions with chain A Hydrogen bonds: B:V.10, B:M.100, A:E.229, A:R.234 Water bridges: A:R.202

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Wu, Y. et al., Structural basis of diverse peptide accommodation by the rhesus macaque MHC class I molecule Mamu-B*17: insights into immune protection from simian immunodeficiency virus. J.Immunol. (2011)

Release Date

2012-03-21

Peptides

Major histocompatibility complex class I: A
Beta-2-microglobulin: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Major histocompatibility complex class I

Beta-2-microglobulin

Related Entries With Identical Sequence