SMTL ID : 6fun.1

F11 T-Cell Receptor Recognising PKYVKQNTLKLAT Peptide Presented by HLA-DR*0101

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.58 Å

Oligo State

hetero-1-1-mer

Ligands

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

EDO.1: 1 residues within 4Å: Chain A: E.196 No protein-ligand interaction detected (PLIP) EDO.2: 6 residues within 4Å: Chain A: K.132, S.133, W.177, S.178 Chain B: F.124, L.142 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:S.133 Water bridges: A:K.132, A:S.133, A:W.177, A:S.178, A:N.179 EDO.3: 5 residues within 4Å: Chain A: Y.122, Q.123, P.201 Chain B: S.127, A.129 3 PLIP interactions: 1 interactions with chain A, 2 interactions with chain B Hydrogen bonds: A:Q.123, B:S.127 Water bridges: B:A.129 EDO.4: 5 residues within 4Å: Chain A: I.114, Q.115, N.116, F.169, K.170 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:Q.115, A:N.116, A:K.170, A:K.170 EDO.5: 8 residues within 4Å: Chain A: S.147, Q.148, I.156, A.188, F.189, N.190, N.191, S.192 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:S.147, A:N.191, A:S.192 Water bridges: A:N.187, A:A.188 EDO.6: 5 residues within 4Å: Chain A: E.64, A.65, E.66, H.75, T.77 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:E.64, A:E.64, A:E.66, A:H.75 Water bridges: A:E.66 EDO.7: 3 residues within 4Å: Chain A: H.109, D.158, K.159 2 PLIP interactions: 2 interactions with chain A Water bridges: A:D.158, A:D.158 EDO.8: 7 residues within 4Å: Chain A: L.111, P.112, I.114, D.141, S.142, K.159, N.172 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:P.112, A:K.159 Water bridges: A:E.15, A:I.114, A:K.159, A:N.172 EDO.11: 4 residues within 4Å: Chain B: W.219, Q.221, D.222, R.223 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:Q.221 Water bridges: B:K.225 EDO.12: 9 residues within 4Å: Chain A: D.98, K.99 Chain B: R.30, Y.32, S.93, D.94, E.95, S.96, Y.97 5 PLIP interactions: 1 interactions with chain A, 4 interactions with chain B Hydrogen bonds: A:D.98, B:Y.32, B:S.93, B:E.95, B:Y.97 EDO.13: 5 residues within 4Å: Chain B: L.113, N.114, E.218, W.219, T.220 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:T.220, B:T.220 Water bridges: B:D.112, B:L.113 EDO.14: 3 residues within 4Å: Chain B: V.162, H.163, S.164 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:H.163, B:S.164 EDO.15: 4 residues within 4Å: Chain B: R.35, D.37, R.43, N.83 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:R.35, B:R.43, B:R.43

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

SO4.9: 6 residues within 4Å: Chain A: V.146, S.147, Q.148, I.156, T.157, D.158 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:V.146, A:T.157, A:D.158 Water bridges: A:I.156, A:I.156, A:K.159 SO4.16: 6 residues within 4Å: Chain B: T.85, A.86, L.87, R.106, L.107, T.108 7 PLIP interactions: 7 interactions with chain B Hydrogen bonds: B:A.86, B:A.86, B:L.107 Water bridges: B:L.87, B:R.106, B:R.106 Salt bridges: B:R.106

1 x GOL: GLYCEROL(Non-functional Binders)

GOL.10: 5 residues within 4Å: Chain A: Q.2, E.95, Q.96, D.97 Chain B: Y.97 3 PLIP interactions: 1 interactions with chain B, 2 interactions with chain A Hydrogen bonds: B:Y.97, A:Q.96, A:D.97

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Holland, C.J. et al., In Silicoand Structural Analyses Demonstrate That Intrinsic Protein Motions Guide T Cell Receptor Complementarity Determining Region Loop Flexibility. Front Immunol (2018)

Release Date

2018-04-18

Peptides

Human F11 T-Cell Receptor alpha chain: A
Human F11 T-Cell Receptor beta chain: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Human F11 T-Cell Receptor alpha chain

Human F11 T-Cell Receptor beta chain

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