SMTL ID : 9edn.1

GII.23: Loreto1847 norovirus protruding domain

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.22 Å

Oligo State

homo-dimer

Ligands

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

EDO.1: 11 residues within 4Å: Chain A: H.27, S.29, P.30, T.31, I.34, Q.182, W.183, F.213, R.215, F.228, D.230 Ligand excluded by PLIP EDO.2: 6 residues within 4Å: Chain A: E.13 Chain B: L.49, Q.54, L.55, L.101, Y.242 Ligand excluded by PLIP EDO.3: 10 residues within 4Å: Chain A: L.49, L.50, G.51, T.52, T.53, Q.54, D.96, V.97, L.101 Ligands: EDO.15 Ligand excluded by PLIP EDO.4: 6 residues within 4Å: Chain A: A.130, N.131, R.132 Chain B: G.222, G.223, Y.224 Ligand excluded by PLIP EDO.5: 7 residues within 4Å: Chain A: S.115, Q.116, R.117, P.166, S.167, K.168 Chain B: P.219 Ligand excluded by PLIP EDO.6: 6 residues within 4Å: Chain A: G.208, E.209, A.280, K.281, S.282, P.309 Ligand excluded by PLIP EDO.7: 5 residues within 4Å: Chain A: Q.135, T.156, W.157, T.158, T.159 Ligand excluded by PLIP EDO.8: 5 residues within 4Å: Chain A: R.107, I.141, N.179, K.181, E.184 Ligand excluded by PLIP EDO.9: 7 residues within 4Å: Chain A: R.107, I.141, S.142, P.143, N.187, G.190, A.191 Ligand excluded by PLIP EDO.10: 5 residues within 4Å: Chain A: K.2, Q.243, E.244 Chain B: T.5, I.8 Ligand excluded by PLIP EDO.13: 6 residues within 4Å: Chain A: G.222, G.223, Y.224 Chain B: A.130, N.131, R.132 Ligand excluded by PLIP EDO.14: 12 residues within 4Å: Chain B: H.27, S.29, P.30, T.31, I.34, V.36, Q.182, W.183, F.213, R.215, F.228, D.230 Ligand excluded by PLIP EDO.15: 7 residues within 4Å: Chain A: L.49, Q.54, L.55, L.101, Y.242 Chain B: E.13 Ligands: EDO.3 Ligand excluded by PLIP EDO.16: 7 residues within 4Å: Chain B: Q.76, L.78, V.137, G.155, T.156, W.157, N.175 Ligand excluded by PLIP EDO.17: 4 residues within 4Å: Chain A: Y.217, S.226 Chain B: R.117, K.129 Ligand excluded by PLIP EDO.18: 9 residues within 4Å: Chain A: L.218, P.219, L.220 Chain B: S.115, Q.116, R.117, P.166, S.167, K.168 Ligand excluded by PLIP EDO.19: 7 residues within 4Å: Chain A: T.57, Q.235, E.236 Chain B: T.15, T.57, Q.235, E.236 Ligand excluded by PLIP

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

CL.11: 4 residues within 4Å: Chain A: G.225, S.226 Chain B: Q.128, K.129 Ligand excluded by PLIP CL.12: 3 residues within 4Å: Chain A: T.205, H.272, Q.303 Ligand excluded by PLIP CL.20: 4 residues within 4Å: Chain A: Q.128, K.129 Chain B: G.225, S.226 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Holroyd, D.L. et al., Antigenic structural analysis of bat and human norovirus protruding (P) domains. J.Virol. (2025)

Release Date

2025-03-05

Peptides

VP1: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

VP1