SMTL ID : 4dw7.2 (1 other biounit)

Crystal structure of an active-site mutant of the glycoprotein Erns from the pestivirus BVDV-1 in complex with a CpU dinucleotide

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 3.08 Å

Oligo State

monomer

Ligands

1 x NAG- NAG- BMA- BMA- BMA- MAN- MAN: beta-D-mannopyranose-(1-6)-beta-D-mannopyranose-(1-3)-[alpha-D-mannopyranose-(1-4)-alpha-D-mannopyranose-(1-6)]beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose

NAG-NAG-BMA-BMA-BMA-MAN-MAN.1: 9 residues within 4Å: Chain A: N.4, P.36, N.85, W.86, Y.87, N.88, E.90, P.91, L.95 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.85

2 x NAG- NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)

NAG-NAG.2: 4 residues within 4Å: Chain A: A.55, L.94, N.97, A.101 No protein-ligand interaction detected (PLIP) NAG-NAG.3: 2 residues within 4Å: Chain A: N.13, F.23 No protein-ligand interaction detected (PLIP)

1 x U: URIDINE-5'-MONOPHOSPHATE(Non-covalent)

U.4: 6 residues within 4Å: Chain A: N.9, I.18, Q.19, K.32, A.62 Ligands: C.5 9 PLIP interactions: 9 interactions with chain A Hydrophobic interactions: A:K.32, A:A.62, A:K.65 Hydrogen bonds: A:N.9, A:N.9, A:Q.19, A:E.64, A:K.65, A:K.65

1 x C: CYTIDINE-5'-MONOPHOSPHATE(Non-covalent)

C.5: 6 residues within 4Å: Chain A: A.62, S.63, E.64, K.65, R.72 Ligands: U.4 Protein-ligand interaction information (PLIP) not available

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

SO4.6: 6 residues within 4Å: Chain A: K.32, W.35, H.76, E.77, K.80, H.81 4 PLIP interactions: 4 interactions with chain A Salt bridges: A:K.32, A:H.76, A:K.80, A:H.81 SO4.7: 2 residues within 4Å: Chain A: H.76, N.79 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:N.79 Salt bridges: A:H.76

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Krey, T. et al., Crystal Structure of the Pestivirus Envelope Glycoprotein E(rns) and Mechanistic Analysis of Its Ribonuclease Activity. Structure (2012)

Release Date

2012-05-23

Peptides

E(rns) glycoprotein: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

E(rns) glycoprotein

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