SMTL ID : 5y6r.1

Crystal structure of CSFV NS5B

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 3.01 Å

Oligo State

monomer

Ligands

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

SO4.1: 6 residues within 4Å: Chain A: P.182, G.183, L.184, H.185, K.186, K.356 Ligand excluded by PLIP SO4.2: 4 residues within 4Å: Chain A: R.111, T.163, H.166, R.170 Ligand excluded by PLIP SO4.3: 4 residues within 4Å: Chain A: K.172, K.347, A.348, K.478 Ligand excluded by PLIP SO4.4: 1 residues within 4Å: Chain A: R.660 Ligand excluded by PLIP SO4.5: 4 residues within 4Å: Chain A: P.557, R.561, L.652 Ligands: SO4.24 Ligand excluded by PLIP SO4.6: 3 residues within 4Å: Chain A: T.624, H.626, R.630 Ligand excluded by PLIP SO4.7: 2 residues within 4Å: Chain A: K.603, R.651 Ligand excluded by PLIP SO4.8: 1 residues within 4Å: Chain A: K.328 Ligand excluded by PLIP SO4.9: 6 residues within 4Å: Chain A: F.225, E.226, R.227, K.228, E.237, K.293 Ligand excluded by PLIP SO4.10: 4 residues within 4Å: Chain A: K.330, W.333, Q.490, F.491 Ligand excluded by PLIP SO4.11: 5 residues within 4Å: Chain A: V.207, E.208, W.209, E.242, K.300 Ligand excluded by PLIP SO4.12: 3 residues within 4Å: Chain A: R.111, Q.167, R.170 Ligand excluded by PLIP SO4.13: 4 residues within 4Å: Chain A: S.548, F.549, M.552, T.580 Ligand excluded by PLIP SO4.14: 2 residues within 4Å: Chain A: K.113, H.114 Ligand excluded by PLIP SO4.15: 6 residues within 4Å: Chain A: C.427, E.428, G.431, V.432, P.433, Y.434 Ligand excluded by PLIP SO4.16: 7 residues within 4Å: Chain A: Q.335, F.336, D.438, R.439, V.440, K.442 Ligands: GOL.33 Ligand excluded by PLIP SO4.17: 3 residues within 4Å: Chain A: H.35, R.62, R.63 Ligand excluded by PLIP SO4.18: 1 residues within 4Å: Ligands: GOL.33 Ligand excluded by PLIP SO4.19: 4 residues within 4Å: Chain A: S.606, F.607, E.608 Ligands: SO4.23 Ligand excluded by PLIP SO4.20: 2 residues within 4Å: Chain A: R.517, K.525 Ligand excluded by PLIP SO4.21: 5 residues within 4Å: Chain A: K.266, R.267, D.268, R.285, K.525 Ligand excluded by PLIP SO4.22: 5 residues within 4Å: Chain A: K.266, R.529, L.530, R.536, Y.541 Ligand excluded by PLIP SO4.23: 4 residues within 4Å: Chain A: Q.503, R.505, R.604 Ligands: SO4.19 Ligand excluded by PLIP SO4.24: 9 residues within 4Å: Chain A: W.555, P.557, R.560, R.561, L.602, K.603, R.604, T.605 Ligands: SO4.5 Ligand excluded by PLIP SO4.25: 2 residues within 4Å: Chain A: K.370, K.372 Ligand excluded by PLIP SO4.26: 6 residues within 4Å: Chain A: K.543, L.567, L.571, V.573, Y.583, P.587 Ligand excluded by PLIP SO4.27: 3 residues within 4Å: Chain A: H.53, H.82, K.85 Ligand excluded by PLIP SO4.28: 5 residues within 4Å: Chain A: M.189, F.192, N.193, K.196, Y.367 Ligand excluded by PLIP SO4.29: 3 residues within 4Å: Chain A: E.211, Y.303, K.304 Ligand excluded by PLIP

4 x GOL: GLYCEROL(Non-functional Binders)

GOL.30: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP) GOL.31: 3 residues within 4Å: Chain A: K.103, F.225, E.291 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:K.103 GOL.32: 5 residues within 4Å: Chain A: R.285, V.286, Q.288, D.350, T.351 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:V.286, A:Q.288, A:D.350, A:D.350 GOL.33: 4 residues within 4Å: Chain A: Q.335, K.442 Ligands: SO4.16, SO4.18 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:Q.335, A:Q.335, A:K.442

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Li, W. et al., Crystal Structure of Classical Swine Fever Virus NS5B Reveals a Novel N-Terminal Domain. J. Virol. (2018)

Release Date

2018-05-02

Peptides

Genome polyprotein: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Genome polyprotein