SMTL ID : 4o6i.1

2.0A crystal structure of Lymphocytic Choriomeningitis Virus Nucleoprotein C-terminal Domain

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.00 Å

Oligo State

homo-dimer

Ligands

2 x ZN: ZINC ION(Non-covalent)

ZN.1: 7 residues within 4Å: Chain A: E.67, H.80, Y.82, C.174, H.177, C.193, A.194 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:E.67, A:C.174, A:H.177, A:C.193 ZN.8: 8 residues within 4Å: Chain B: E.67, H.80, Y.82, C.174, M.176, H.177, C.193, A.194 4 PLIP interactions: 4 interactions with chain B Metal complexes: B:E.67, B:C.174, B:H.177, B:C.193

2 x MG: MAGNESIUM ION(Non-covalent)

MG.2: 6 residues within 4Å: Chain A: D.57, I.58, E.59, H.192, A.194, D.197 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:D.57, A:E.59, A:D.197 MG.9: 6 residues within 4Å: Chain B: D.57, I.58, E.59, H.192, A.194, D.197 4 PLIP interactions: 3 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:D.57, B:E.59, B:D.197, H2O.6

10 x IMD: IMIDAZOLE(Non-covalent)

IMD.3: 4 residues within 4Å: Chain A: D.105, N.108, H.221, F.225 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:H.221 pi-Stacking: A:F.225 IMD.4: 4 residues within 4Å: Chain A: W.167, H.177, T.190, P.191 2 PLIP interactions: 2 interactions with chain A Water bridges: A:H.177 pi-Stacking: A:W.167 IMD.5: 6 residues within 4Å: Chain A: F.78, W.172, L.173, V.215, H.216, N.217 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.217 IMD.6: 9 residues within 4Å: Chain A: P.53, T.54, W.55, P.73, S.128, V.152, E.202, S.205, K.206 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:W.55, A:E.202, A:K.206 IMD.7: 4 residues within 4Å: Chain A: Q.123, N.143, R.144, D.146 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:Q.123 Water bridges: A:G.119 IMD.10: 3 residues within 4Å: Chain B: W.167, T.190, P.191 2 PLIP interactions: 2 interactions with chain B pi-Stacking: B:W.167, B:W.167 IMD.11: 6 residues within 4Å: Chain B: F.78, W.172, L.173, V.215, H.216, N.217 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:H.216, B:N.217 IMD.12: 7 residues within 4Å: Chain B: P.53, W.55, P.73, S.128, V.152, E.202, K.206 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:W.55, B:E.202 IMD.13: 4 residues within 4Å: Chain B: Q.123, N.143, R.144, D.146 2 PLIP interactions: 2 interactions with chain B Water bridges: B:G.119, B:R.144 IMD.14: 4 residues within 4Å: Chain B: D.105, N.108, H.221, F.225 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:N.108, B:H.221 pi-Stacking: B:F.225

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

West, B.R. et al., Structure of the LCMV nucleoprotein provides a template for understanding arenavirus replication and immunosuppression. Acta Crystallogr.,Sect.D (2014)

Release Date

2014-06-11

Peptides

Nucleoprotein: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Nucleoprotein

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