SMTL ID : 5ni9.1

Crystal structure of HLA-DRB1*04:01 with the alpha-enolase peptide 326-340

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.33 Å

Oligo State

hetero-1-1-1-mer

Ligands

1 x MRD: (4R)-2-METHYLPENTANE-2,4-DIOL(Non-functional Binders)

MRD.1: 7 residues within 4Å: Chain A: H.33, V.42, W.43, R.44, S.133, E.134, Y.150 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:S.133 Water bridges: A:E.30, A:H.33, A:S.133

2 x URE: UREA(Non-functional Binders)

URE.2: 2 residues within 4Å: Chain A: D.162, H.177 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:D.162, A:D.162, A:H.177 Water bridges: A:D.162 URE.4: 4 residues within 4Å: Chain B: R.23, V.24, V.75, R.80 6 PLIP interactions: 6 interactions with chain B Hydrogen bonds: B:V.24, B:V.24, B:R.80, B:R.80 Water bridges: B:R.23, B:D.76

2 x MPD: (4S)-2-METHYL-2,4-PENTANEDIOL(Non-functional Binders)

MPD.3: 6 residues within 4Å: Chain B: S.126, I.127, E.128, E.176, H.177, P.178 2 PLIP interactions: 2 interactions with chain B Water bridges: B:H.177, B:H.177 MPD.5: 6 residues within 4Å: Chain B: Q.70, T.77 Chain C: A.4, K.5, A.6, V.7 6 PLIP interactions: 5 interactions with chain C, 1 interactions with chain B Hydrophobic interactions: C:A.4, B:Q.70 Hydrogen bonds: C:K.5, C:V.7 Water bridges: C:K.5, C:K.5

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Pieper, J. et al., Memory T cells specific to citrullinated alpha-enolase are enriched in the rheumatic joint. J. Autoimmun. (2018)

Release Date

2018-06-13

Peptides

HLA class II histocompatibility antigen, DR alpha chain: A
HLA class II histocompatibility antigen, DRB1-4 beta chain: B
Alpha-enolase: C

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

HLA class II histocompatibility antigen, DR alpha chain

HLA class II histocompatibility antigen, DRB1-4 beta chain

Alpha-enolase

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