SMTL ID : 6fur.2 (1 other biounit)

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

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.73 Å

Oligo State

hetero-1-1-mer

Ligands

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

EDO.1: 5 residues within 4Å: Chain A: H.109, D.158, K.159 Ligands: EDO.2, GOL.7 2 PLIP interactions: 2 interactions with chain A Water bridges: A:D.158, A:K.159 EDO.2: 5 residues within 4Å: Chain A: R.107, H.109 Chain B: P.170 Ligands: EDO.1, GOL.7 1 PLIP interactions: 1 interactions with chain A Water bridges: A:R.107 EDO.3: 5 residues within 4Å: Chain A: Q.115, N.116, D.168, F.169, K.170 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:Q.115, A:N.116, A:D.168, A:K.170 Water bridges: A:K.170 EDO.8: 4 residues within 4Å: Chain B: R.35, R.43, N.83 Ligands: EDO.13 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:R.43, B:R.43 Water bridges: B:R.35, B:N.83 EDO.9: 3 residues within 4Å: Chain B: K.56 Ligands: EDO.10, EDO.12 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:K.56 EDO.10: 6 residues within 4Å: Chain B: Y.46, K.56, S.60, D.61, Y.63 Ligands: EDO.9 5 PLIP interactions: 5 interactions with chain B Hydrogen bonds: B:Y.46, B:D.61, B:Y.63 Water bridges: B:K.56, B:K.56 EDO.11: 5 residues within 4Å: Chain B: L.113, N.114, E.218, W.219, T.220 5 PLIP interactions: 5 interactions with chain B Hydrogen bonds: B:N.114, B:T.220, B:T.220 Water bridges: B:D.112, B:L.113 EDO.12: 3 residues within 4Å: Chain B: Y.46, K.56 Ligands: EDO.9 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:I.54 Water bridges: B:K.56 EDO.13: 7 residues within 4Å: Chain B: R.35, D.61, Y.63, N.83, Q.84 Ligands: EDO.8, EDO.14 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:R.35, B:D.61, B:N.83 EDO.14: 5 residues within 4Å: Chain B: D.61, G.62, S.79, I.81 Ligands: EDO.13 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:S.79 Water bridges: B:Q.84 EDO.15: 5 residues within 4Å: Chain B: V.3, T.4, Q.5, G.102, S.103 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:V.3, B:Q.5, B:S.103 EDO.16: 4 residues within 4Å: Chain B: W.156, G.159, H.203, R.205 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:H.203, B:R.205 Water bridges: B:W.156, B:G.159 EDO.17: 4 residues within 4Å: Chain B: T.108, P.148, D.149, Y.184 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:D.149, B:D.149

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

SO4.4: 4 residues within 4Å: Chain A: K.68, K.69, S.70, E.71 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:F.67, A:K.69, A:S.70, A:S.70, A:E.71 SO4.18: 3 residues within 4Å: Chain B: P.7, R.8, N.9 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:R.8, B:N.9, B:N.9 SO4.19: 10 residues within 4Å: Chain A: D.97, D.98, K.99 Chain B: R.30, Y.32, S.93, D.94, E.95, S.96, Y.97 5 PLIP interactions: 5 interactions with chain B Hydrogen bonds: B:S.93, B:D.94, B:Y.97, B:Y.97 Salt bridges: B:R.30 SO4.20: 7 residues within 4Å: Chain B: T.85, A.86, L.87, R.106, L.107, T.108, D.149 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:L.107 Water bridges: B:L.87 Salt bridges: B:R.106 SO4.21: 7 residues within 4Å: Chain B: N.9, R.10, I.11, R.106, T.108, H.150, Y.211 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:R.10, B:T.108 Water bridges: B:H.150 Salt bridges: B:H.150

5 x GOL: GLYCEROL(Non-functional Binders)

GOL.5: 4 residues within 4Å: Chain A: E.15, H.82, M.83, S.84 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:E.15, A:E.15, A:M.83 GOL.6: 6 residues within 4Å: Chain A: K.132, S.133, W.177, S.178, N.179 Chain B: F.124 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:S.133, A:S.133 Water bridges: A:S.178 GOL.7: 7 residues within 4Å: Chain A: M.83, A.86, H.109, I.110, V.161 Ligands: EDO.1, EDO.2 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:I.110 Water bridges: A:R.107 GOL.22: 4 residues within 4Å: Chain A: R.165 Chain B: V.162, H.163, S.164 5 PLIP interactions: 4 interactions with chain B, 1 interactions with chain A Hydrogen bonds: B:H.163, B:S.164, A:R.165 Water bridges: B:S.164, B:S.164 GOL.23: 6 residues within 4Å: Chain B: I.11, T.12, K.13, K.16, L.113, D.217 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:K.13, B:D.217

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: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
C

B
D

Human F11 T-Cell Receptor alpha chain

Human F11 T-Cell Receptor

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