SMTL ID : 6r0e.1

Structure of F11TCR in complex with DR1 MHC Class II presenting PKYVKQNTLKLAT

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.91 Å

Oligo State

hetero-1-1-1-1-1-mer

Ligands

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

EDO.1: 2 residues within 4Å: Chain B: T.4, R.5 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:T.4 EDO.2: 5 residues within 4Å: Chain B: R.26, R.40, D.42, V.45, R.49 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:R.26, B:R.40 EDO.3: 3 residues within 4Å: Chain D: H.109, K.159, V.161 1 PLIP interactions: 1 interactions with chain D Water bridges: D:K.159 EDO.4: 6 residues within 4Å: Chain D: L.7, V.11, L.20, L.21, R.22, T.106 4 PLIP interactions: 4 interactions with chain D Hydrogen bonds: D:L.7, D:L.20, D:R.22, D:T.106 EDO.5: 6 residues within 4Å: Chain D: N.113, I.114, Q.115, N.116, F.169, K.170 5 PLIP interactions: 5 interactions with chain D Hydrogen bonds: D:N.113, D:Q.115, D:N.116, D:N.116, D:K.170 EDO.9: 4 residues within 4Å: Chain E: P.7, R.8, N.9, Y.211 3 PLIP interactions: 3 interactions with chain E Hydrogen bonds: E:R.8, E:N.9, E:N.9

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

SO4.6: 8 residues within 4Å: Chain B: Q.71, T.78 Chain D: P.30, P.31, Y.32, T.51, S.52, Q.96 4 PLIP interactions: 3 interactions with chain D, 1 interactions with chain B Hydrogen bonds: D:S.52, D:S.52, B:T.78 Water bridges: D:Q.96

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

PEG.7: 8 residues within 4Å: Chain D: K.132, S.133, Y.155, W.177, N.179 Chain E: L.142, T.144, E.175 3 PLIP interactions: 2 interactions with chain D, 1 interactions with chain E Hydrogen bonds: D:K.132, D:S.133, E:E.175 PEG.8: 3 residues within 4Å: Chain E: V.162, H.163, S.164 4 PLIP interactions: 1 interactions with chain D, 3 interactions with chain E Water bridges: D:S.166, E:S.164 Hydrogen bonds: E:H.163, E:S.164

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Greenshields-Watson, A. et al., CD4+T Cells Recognize Conserved Influenza A Epitopes through Shared Patterns of V-Gene Usage and Complementary Biochemical Features. Cell Rep (2020)

Release Date

2020-07-15

Peptides

HLA class II histocompatibility antigen, DR alpha chain: A
HLA class II histocompatibility antigen, DRB1-1 beta chain: B
Hemagglutinin: C
F11-TCR Alpha Chain: D
F11-TCR Beta Chain: E

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
AAA

B
BBB

C
CCC

D
DDD

E
EEE

HLA class II histocompatibility antigen, DR alpha chain

HLA class II histocompatibility antigen, DRB1-1 beta chain

Hemagglutinin

F11-TCR Alpha Chain

F11-TCR Beta Chain

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