SMTL ID : 4pg2.1

The crystal structure of H-2Db with a S-glutathionylated peptide

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.80 Å

Oligo State

hetero-1-1-mer

Ligands

1 x CYS- SER- LEU- TRP- ASN- GLY- PRO- HIS- LEU: CYS-SER-LEU-TRP-ASN-GLY-PRO-HIS-LEU(Non-covalent)

CYS-SER-LEU-TRP-ASN-GLY-PRO-HIS-LEU.1: 33 residues within 4Å: Chain A: M.5, Y.7, Y.45, E.63, Q.65, K.66, G.69, Q.70, W.73, V.76, S.77, N.80, L.81, Y.84, L.95, Q.97, S.99, L.114, F.116, Y.123, T.143, K.146, W.147, S.150, A.152, H.155, Y.156, Y.159, E.163, W.167, Y.171 Ligands: GSH.4, SO4.6 27 PLIP interactions: 27 interactions with chain A Hydrophobic interactions: A:W.73, A:W.73, A:L.81, A:L.95, A:L.114, A:Y.123, A:W.147, A:A.152, A:Y.159 Hydrogen bonds: A:Y.7, A:Y.45, A:Y.45, A:E.63, A:Q.70, A:Q.70, A:S.77, A:N.80, A:Y.84, A:Q.97, A:Q.97, A:Y.123, A:T.143, A:K.146, A:Y.156, A:Y.159, A:Y.171 Salt bridges: A:K.146

4 x SO4: SULFATE ION(Non-functional Binders)

SO4.2: 4 residues within 4Å: Chain A: Q.87, H.93, E.119 Chain B: M.1 5 PLIP interactions: 4 interactions with chain A, 1 interactions with chain B Hydrogen bonds: A:Q.87, A:E.119, A:E.119, B:M.1 Salt bridges: A:H.93 SO4.3: 3 residues within 4Å: Chain A: E.166, W.167, R.170 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:W.167, A:R.170 SO4.5: 2 residues within 4Å: Chain A: D.238 Chain B: R.13 3 PLIP interactions: 2 interactions with chain B, 1 interactions with chain A Hydrogen bonds: B:H.14, A:D.238 Salt bridges: B:R.13 SO4.6: 3 residues within 4Å: Chain A: K.146 Ligands: CYS-SER-LEU-TRP-ASN-GLY-PRO-HIS-LEU.1, CYS-SER-LEU-TRP-ASN-GLY-PRO-HIS-LEU.1 1 PLIP interactions: 1 interactions with chain A Salt bridges: A:K.146

1 x GSH: GLUTATHIONE(Non-covalent)

GSH.4: 7 residues within 4Å: Chain A: R.62, E.63, K.66, E.163, W.167 Ligands: CYS-SER-LEU-TRP-ASN-GLY-PRO-HIS-LEU.1, CYS-SER-LEU-TRP-ASN-GLY-PRO-HIS-LEU.1 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:R.62, A:R.62, A:K.66, A:E.163 Salt bridges: A:R.62

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Trujillo, J.A. et al., The cellular redox environment alters antigen presentation. J.Biol.Chem. (2014)

Release Date

2014-09-10

Peptides

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

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
C

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

Beta-2-microglobulin

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