SMTL ID : 2vqz.1

Structure of the cap-binding domain of influenza virus polymerase subunit PB2 with bound m7GTP

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.30 Å

Oligo State

homo-pentamer

Ligands

5 x MGT: 7N-METHYL-8-HYDROGUANOSINE-5'-TRIPHOSPHATE(Non-covalent)

MGT.1: 15 residues within 4Å: Chain A: F.6, F.8, R.15, S.20, K.22, R.38, H.40, E.44, F.46, K.59, F.87, Q.89, N.112, M.114, H.115 14 PLIP interactions: 14 interactions with chain A Hydrogen bonds: A:R.15, A:S.20, A:S.20, A:S.20, A:N.112, A:N.112 Salt bridges: A:K.22, A:R.38, A:R.38, A:H.40, A:E.44, A:H.115 pi-Stacking: A:H.40, A:H.40 MGT.2: 15 residues within 4Å: Chain B: F.6, F.8, R.15, S.20, K.22, R.38, H.40, E.44, F.46, K.59, F.87, Q.89, N.112, M.114, H.115 17 PLIP interactions: 17 interactions with chain B Hydrogen bonds: B:R.15, B:S.20, B:S.20, B:S.20, B:N.112, B:N.112 Water bridges: B:S.7, B:E.44 Salt bridges: B:K.22, B:R.38, B:R.38, B:H.40, B:E.44, B:H.115 pi-Stacking: B:H.40, B:H.40, B:F.87 MGT.3: 16 residues within 4Å: Chain C: S.3, F.6, F.8, R.15, S.20, K.22, R.38, H.40, E.44, F.46, K.59, F.87, Q.89, N.112, M.114, H.115 16 PLIP interactions: 16 interactions with chain C Hydrogen bonds: C:S.3, C:S.3, C:R.15, C:S.20, C:S.20, C:R.38, C:N.112 Salt bridges: C:K.22, C:R.38, C:R.38, C:H.40, C:E.44, C:H.115 pi-Stacking: C:H.40, C:H.40, C:F.87 MGT.4: 15 residues within 4Å: Chain D: S.3, F.6, R.15, S.20, K.22, R.38, H.40, E.44, F.46, K.59, F.87, Q.89, N.112, M.114, H.115 14 PLIP interactions: 14 interactions with chain D Hydrogen bonds: D:S.3, D:R.15, D:S.20, D:S.20, D:R.38, D:N.112 Salt bridges: D:K.22, D:R.38, D:R.38, D:H.40, D:E.44, D:H.115 pi-Stacking: D:H.40, D:H.40 MGT.5: 14 residues within 4Å: Chain E: F.6, S.7, F.8, K.22, R.38, H.40, E.44, F.46, K.59, F.87, Q.89, N.112, M.114, H.115 9 PLIP interactions: 9 interactions with chain E Hydrogen bonds: E:S.20, E:S.20 Water bridges: E:R.38 Salt bridges: E:R.38, E:H.40, E:E.44, E:H.115 pi-Stacking: E:H.40, E:H.40

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Guilligay, D. et al., The Structural Basis for CAP Binding by Influenza Virus Polymerase Subunit Pb2. Nat.Struct.Mol.Biol. (2008)

Release Date

2008-05-13

Peptides

POLYMERASE BASIC PROTEIN 2: ABCDE

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
D

D
E

E
F

POLYMERASE BASIC PROTEIN 2