SMTL ID : 4dvl.1 (1 other biounit)

Crystal structure of the glycoprotein Erns from the pestivirus BVDV-1 in complex with 2'-3'-cyclo-UMP

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.75 Å

Oligo State

monomer

Ligands

1 x NAG- NAG- BMA- MAN- BMA: alpha-D-mannopyranose-(1-3)-[beta-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-MAN-BMA.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:Y.87, A:E.90, A:N.85

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

NAG-NAG-MAN.2: 4 residues within 4Å: Chain A: L.95, K.98, T.99, N.102 No protein-ligand interaction detected (PLIP)

1 x NAG- NAG- BMA- MAN: alpha-D-mannopyranose-(1-3)-beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)

NAG-NAG-BMA-MAN.3: 2 residues within 4Å: Chain A: N.13, F.23 No protein-ligand interaction detected (PLIP)

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

NAG.4: 4 residues within 4Å: Chain A: G.26, N.28, T.104, A.149 No protein-ligand interaction detected (PLIP) NAG.5: 3 residues within 4Å: Chain A: A.55, N.97, A.101 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:A.55

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

SO4.6: 3 residues within 4Å: Chain A: T.49, D.50, T.51 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:T.49, A:D.50, A:T.51, A:T.51 SO4.7: 6 residues within 4Å: Chain A: H.32, W.35, H.76, E.77, K.80, H.81 4 PLIP interactions: 4 interactions with chain A Salt bridges: A:H.32, A:H.76, A:K.80, A:H.81

1 x JKM: 1-[(2S,3aS,4S,6R,6aR)-2-hydroxy-6-(hydroxymethyl)-2-oxidotetrahydrofuro[3,4-d][1,3,2]dioxaphosphol-4-yl]pyrimidine-2,4( 1H,3H)-dione(Non-covalent)

JKM.8: 6 residues within 4Å: Chain A: N.9, Q.19, H.32, A.62, L.73, Q.129 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:A.62 Hydrogen bonds: A:N.9, A:N.9, A:Q.19

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
A

E(rns) glycoprotein

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