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SMTL ID : 7n2r.1

AS4.3-PRPF3-HLA*B27

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.28 Å

Oligo State

hetero-1-1-1-1-mer

Ligands

1 x THR- ARG- LEU- ALA- LEU- ILE- ALA- PRO- LYS: Pre-MRNA Processing Factor 3(Non-covalent)

THR-ARG-LEU-ALA-LEU-ILE-ALA-PRO-LYS.1:

32 residues within 4Å:

Chain A: Y.31
Chain B: R.53, T.95, Y.96, S.97, T.98
Chain C: Y.7, H.9, T.24, E.45, Y.59, R.62, E.63, I.66, S.67, A.69, T.73, D.77, T.80, Y.84, Y.99, D.116, Y.123, T.143, W.147, V.152, Q.155, L.156, Y.159, W.167, Y.171
Ligands: EDO.10

38 PLIP interactions:

30 interactions with chain C, 3 interactions with chain A, 5 interactions with chain B

Hydrophobic interactions: C:Y.7, C:I.66, C:A.69, C:Y.99, C:Y.123, C:W.147, C:V.152, C:L.156, C:Y.159, C:Y.159, C:W.167, A:Y.31, B:Y.96, B:T.98
Hydrogen bonds: C:Y.7, C:T.24, C:T.24, C:T.24, C:R.62, C:R.62, C:E.63, C:D.77, C:D.77, C:Y.99, C:D.116, C:D.116, C:Q.155, C:Y.171, C:Y.171, B:S.97, B:S.97, B:S.97
Water bridges: C:D.77, C:T.80, A:S.52, A:S.53
Salt bridges: C:E.45, C:K.146

5 x NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)

NAG.2:	3 residues within 4Å: Chain A: I.7, N.22, T.74 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:T.74
NAG.3:	4 residues within 4Å: Chain A: N.143, V.144, S.145, Q.146 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:N.143, A:Q.146, A:Q.146
NAG.4:	3 residues within 4Å: Chain A: E.56, T.58, N.63 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:T.58 Hydrogen bonds: A:E.56, A:T.58
NAG.5:	2 residues within 4Å: Chain A: N.185, N.188 No protein-ligand interaction detected (PLIP)
NAG.7:	6 residues within 4Å: Chain B: R.16, T.18, S.63, A.64, Q.65, N.75 7 PLIP interactions: 7 interactions with chain B Hydrophobic interactions: B:Q.65 Hydrogen bonds: B:R.16, B:T.18, B:S.63, B:E.73, B:E.73, B:N.75

1 x ASP: ASPARTIC ACID(Non-covalent)

ASP.6:

3 residues within 4Å:

Chain B: Q.200, P.202, A.241

5 PLIP interactions:

1 interactions with chain B, 4 Ligand-Ligand interactions

Hydrogen bonds: B:A.241, D.6, D.6, D.6, D.6

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

SO4.8:	5 residues within 4Å: Chain B: L.112, Y.149, P.150, D.151, Y.186 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:Y.186, B:Y.186
SO4.9:	3 residues within 4Å: Chain B: V.164, H.165, S.166 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:H.165, B:S.166
SO4.11:	2 residues within 4Å: Chain B: N.49 Chain C: R.83 2 PLIP interactions: 1 interactions with chain B, 1 interactions with chain C Hydrogen bonds: B:N.49 Salt bridges: C:R.83

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

EDO.10:

7 residues within 4Å:

Chain C: K.70, N.97, H.114, D.116, W.147
Ligands: THR-ARG-LEU-ALA-LEU-ILE-ALA-PRO-LYS.1, THR-ARG-LEU-ALA-LEU-ILE-ALA-PRO-LYS.1

3 PLIP interactions:

3 interactions with chain C

Hydrogen bonds: C:K.70, C:N.97, C:D.116

Links

RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP

Citation

Yang, X. et al., Autoimmunity-associated T cell receptors recognize HLA-B*27-bound peptides. Nature (2022)

Release Date

2022-12-07

Peptides

AS4.3 T cell receptor alpha chain: A
AS4.3 T cell receptor beta chain: B
Human leukocyte antigen (HLA) B27: C
Beta-2-microglobulin: D

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
D

B
F

C
A

D
B

Export Alignment

Secondary Structure
NoneDSSPPSIPREDSSpro

Colour Scheme

Fade MismatchesEnhance Mismatches

ChainUnique ChainRainbow2° StructureBfactorBfactor RangeSOAEntropyClustalHydrophobicSizeChargedPolarProlineSer/ThrCysteineAliphaticAromaticNo Colour

Background

3D Viewer
NGLPV2D

AS4.3 T cell receptor alpha chain

AS4.3 T cell receptor beta chain

Human leukocyte antigen (HLA) B27

Beta-2-microglobulin

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6uzs.1 | 6v2o.1 | 6v2p.1 | 6v2q.1 | 6v3j.1 | 6v7y.1 | 6v7z.1 | 6v7z.2 | 6v80.1 | 6v80.2 | 6vb0.1 | 6vb3.1 | 6vb7.1 | 6viu.1 | 6vm7.1 | 6vm8.1 | 6vm9.1 | 6vma.1 | 6vmc.1 | 6vmx.1 | 6vmx.2 | 6vpz.1 | 6vq2.1 | 6vqd.1 | 6vqe.1 | 6vqo.1 | 6vqo.2 | 6vr1.1 | 6vr1.2 | 6vr5.1 | 6vr5.2 | 6vrm.1 | 6vrn.1 | 6w9u.1 | 6w9u.2 | 6w9v.1 | 6w9v.2 | 6x00.1 | 6xqa.1 | 6xqa.2 | 6xqp.1 | 6xqp.2 | 6y26.1 | 6y27.1 | 6y28.1 | 6y29.1 | 6y2a.1 | 6y2b.1 | 6z9v.1 | 6z9v.2 | 6z9w.1 | 6z9w.2 | 6z9x.1 | 6z9x.2 | 6zkw.1 | 6zkx.1 | 6zky.1 | 6zkz.1 | 7alo.1 | 7alo.2 | 7bbg.1 | 7bh8.1 | 7ciq.1 | 7cir.1 | 7cis.1 | 7duu.1 | 7dyn.1 | 7dzm.1 | 7dzn.1 | 7edo.1 | 7jwi.1 | 7jyu.1 | 7jyu.2 | 7jyv.1 | 7jyw.1 | 7jyx.1 | 7jyx.2 | 7k80.1 | 7k80.2 | 7k81.1 | 7l1b.1 | 7l1c.1 | 7l1d.1 | 7lfz.1 | 7lg0.1 | 7lg2.1 | 7lg3.1 | 7lgd.1 | 7lgd.2 | 7lgt.1 | 7lgt.2 | 7lli.1 | 7lli.2 | 7llj.1 | 7llj.2 | 7m8s.1 | 7m8s.2 | 7m8t.1 | 7m8u.1 | 7mj6.1 | 7mj7.1 | 7mj8.1 | 7mj9.1 | 7mja.1 | 7mkb.1 | 7mle.1 | 7n1a.1 | 7n1a.2 | 7n1b.1 | 7n1b.2 | 7n1e.1 | 7n1f.1 | 7n2n.1 | 7n2o.1 | 7n2p.1 | 7n2q.1 | 7n2q.2 | 7n2s.1 | 7n4k.1 | 7n5c.1 | 7n5p.1 | 7n5q.1 | 7n5q.2 | 7n6d.1 | 7n6d.2 | 7n6d.3 | 7n6d.4 | 7n6e.1 | 7n6e.2 | 7n9j.1 | 7na5.1 | 7ndq.1 | 7ndt.1 | 7ndu.1 | 7nmd.1 | 7nmd.2 | 7nme.1 | 7nmf.1 | 7nmg.1 | 7nui.1 | 7ow3.1 | 7ow3.2 | 7ow3.3 | 7ow3.4 | 7ow4.1 | 7ow4.2 | 7ow4.3 | 7ow4.4 | 7ow5.1 | 7ow6.1 | 7p3d.1 | 7p3e.1 | 7p3e.2 | 7p49.1 | 7p49.2 | 7p49.3 | 7p49.4 | 7p4b.1 | 7p4b.2 | 7p4b.3 | 7p4b.4 | 7pb2.1 | 7pb2.2 | 7pbc.1 | 7pbe.1 | 7pbe.2 | 7pdw.1 | 7pdw.2 | 7q98.1 | 7q98.2 | 7q98.3 | 7q98.4 | 7q98.5 | 7q99.1 | 7q9a.1 | 7q9b.1 | 7qng.1 | 7qpj.1 | 7r7v.1 | 7r7w.1 | 7r7x.1 | 7r7x.2 | 7r80.1 | 7re7.1 | 7re7.2 | 7re8.1 | 7re8.2 | 7rk7.1 | 7rm4.1 | 7rm4.2 | 7rm4.3 | 7rm4.4 | 7rrg.1 | 7rtd.1 | 7rtr.1 | 7rzd.1 | 7rzj.1 | 7s79.1 | 7s7d.1 | 7s7e.1 | 7s7f.1 | 7s8a.1 | 7s8e.1 | 7s8f.1 | 7s8q.1 | 7s8q.2 | 7s8r.1 | 7s8r.2 | 7s8s.1 | 7sa2.1 | 7sig.1 | 7sis.1 | 7su9.1 | 7tlt.1 | 7tlt.2 | 7tuc.1 | 7tud.1 | 7tue.1 | 7u1r.1 | 7u21.1 | 7u21.2 | 7uc5.1 | 7uc5.2 | 7ufj.1 | 7ufj.2 | 7um2.1 | 7umg.1 | 7ur1.1 | 7zt2.1 | 7zt3.1 | 7zt4.1 | 7zt5.1 | 7zt7.1 | 7zt8.1 | 7zt9.1 | 7zuc.1 | 7zuc.2 | 8cx4.1 | 8dnt.1 | 8dnt.2 | 8dnt.3 | 8dnt.4 | 8e13.1 | 8e2z.1 | 8e8i.1 | 8eb2.1 | 8eb2.2 | 8eb2.3 | 8ek5.1 | 8emf.1 | 8emg.1 | 8emi.1 | 8emj.1 | 8emk.1 | 8en8.1 | 8en8.2 | 8enh.1 | 8enh.2 | 8enh.3 | 8enh.4 | 8eo8.1 | 8eo8.2 | 8eo8.3 | 8eo8.4 | 8es8.1 | 8es9.1 | 8fja.1 | 8fjb.1 | 8fu4.1 | 8gom.1 | 8gon.1 | 8gvb.1 | 8gvg.1 | 8gvi.1 | 8hn4.1 | 8qfy.1 | 8qfy.2 | 8rbu.1 | 8rbv.1 | 8rcv.1 | 8ref.1 | 8rh6.1 | 8rhq.1 | 8rlt.1 | 8rlt.2 | 8rlu.1 | 8rlu.2 | 8rlv.1 | 8rlv.2 | 8rne.1 | 8rne.2 | 8rne.3 | 8rnf.1 | 8rnf.2 | 8rnf.3 | 8rng.1 | 8rnh.1 | 8roo.1 | 8rop.1 | 8rro.1 | 8rro.2 | 8rro.3 | 8rro.4 | 8rro.5 | 8rro.6 | 8rro.7 | 8rro.8 | 8rym.1 | 8ryn.1 | 8ryo.1 | 8ryp.1 | 8ryq.1 | 8ryq.2 | 8sbk.1 | 8sbl.1 | 8sbl.2 | 8sbl.3 | 8sbl.4 | 8sgb.1 | 8sgm.1 | 8shi.1 | 8shi.2 | 8sos.1 | 8tbv.1 | 8tbv.2 | 8tbw.1 | 8tbw.2 | 8tuh.1 | 8u9g.1 | 8u9g.2 | 8v4z.1 | 8v50.1 | 8v50.2 | 8v50.3 | 8v50.4 | 8vcl.1 | 8xke.1 | 8y6x.1 | 8yiv.1 | 8yj2.1 | 8zv9.1 | 8zv9.2 | 8zv9.3 | 9asf.1 | 9asg.1 | 9bl2.1 | 9bl3.1 | 9bl4.1 | 9bl5.1 | 9bl6.1 | 9bl9.1 | 9bla.1 | 9cgr.1 | 9cgr.2 | 9cgs.1 | 9cgs.2 | 9dl1.1

Cartoon
Tube
Trace
Lines
Ball+Stick
Licorice
Hyperball
Rope
Surface
Spacefill
Outline
Fog

Background

Transparent

Resolution

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Extreme

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