SMTL ID : 4xc5.1

CRYSTAL STRUCTURE OF THE T1L REOVIRUS ATTACHMENT PROTEIN SIGMA1

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.20 Å

Oligo State

homo-trimer

Ligands

3 x CL: CHLORIDE ION(Non-functional Binders)

CL.1: 3 residues within 4Å: Chain A: Q.144, T.145, G.146 Ligand excluded by PLIP CL.6: 3 residues within 4Å: Chain B: Q.144, T.145, G.146 Ligand excluded by PLIP CL.12: 4 residues within 4Å: Chain C: Q.144, T.145, G.146 Ligands: GOL.15 Ligand excluded by PLIP

3 x MG: MAGNESIUM ION(Non-covalent)

MG.2: 3 residues within 4Å: Chain A: N.123, S.124, T.202 1 PLIP interactions: 1 interactions with chain A Metal complexes: A:T.202 MG.7: 3 residues within 4Å: Chain B: N.123, S.124, T.202 1 PLIP interactions: 1 interactions with chain B Metal complexes: B:T.202 MG.13: 3 residues within 4Å: Chain C: N.123, S.124, T.202 1 PLIP interactions: 1 interactions with chain C Metal complexes: C:T.202

3 x ACT: ACETATE ION(Non-functional Binders)

ACT.3: 5 residues within 4Å: Chain A: F.78, D.111 Chain B: V.74, A.75, G.79 2 PLIP interactions: 2 interactions with chain B Hydrophobic interactions: B:V.74 Hydrogen bonds: B:G.79 ACT.8: 5 residues within 4Å: Chain B: F.78, D.111 Chain C: V.74, A.75, G.79 1 PLIP interactions: 1 interactions with chain C Hydrogen bonds: C:G.79 ACT.14: 5 residues within 4Å: Chain A: V.74, A.75, D.76, G.79 Chain C: D.111 3 PLIP interactions: 2 interactions with chain A, 1 interactions with chain C Hydrogen bonds: A:D.76, A:G.79, C:N.216

7 x GOL: GLYCEROL(Non-functional Binders)

GOL.4: 6 residues within 4Å: Chain A: V.102, T.103, F.117, S.118, Q.119, M.120 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:T.103, A:S.118, A:Q.119 GOL.5: 5 residues within 4Å: Chain A: R.172, I.173, D.174 Chain C: T.197, Y.198 4 PLIP interactions: 2 interactions with chain C, 2 interactions with chain A Hydrogen bonds: C:Y.198, C:Y.198, A:D.174, A:D.174 GOL.9: 6 residues within 4Å: Chain B: V.102, T.103, F.117, S.118, Q.119, M.120 5 PLIP interactions: 5 interactions with chain B Hydrogen bonds: B:T.103, B:T.103, B:T.103, B:S.118, B:Q.119 GOL.10: 5 residues within 4Å: Chain B: T.197, Y.198 Chain C: R.172, I.173, D.174 5 PLIP interactions: 2 interactions with chain B, 3 interactions with chain C Hydrogen bonds: B:Y.198, B:Y.198, C:D.174, C:D.174, C:D.174 GOL.11: 4 residues within 4Å: Chain A: T.197, Y.198 Chain B: I.173, D.174 4 PLIP interactions: 2 interactions with chain A, 2 interactions with chain B Hydrogen bonds: A:Y.198, A:Y.198, B:D.174, B:D.174 GOL.15: 6 residues within 4Å: Chain C: V.136, L.139, W.143, Q.144, T.145 Ligands: CL.12 4 PLIP interactions: 4 interactions with chain C Hydrogen bonds: C:T.145, C:T.145 Water bridges: C:F.135, C:L.139 GOL.16: 6 residues within 4Å: Chain C: V.102, T.103, F.117, S.118, Q.119, M.120 2 PLIP interactions: 2 interactions with chain C Hydrogen bonds: C:T.103, C:S.118

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Stettner, E. et al., Structure of Serotype 1 Reovirus Attachment Protein sigma 1 in Complex with Junctional Adhesion Molecule A Reveals a Conserved Serotype-Independent Binding Epitope. J.Virol. (2015)

Release Date

2015-04-01

Peptides

Outer capsid protein sigma-1: ABC

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

Outer capsid protein sigma-1